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Conserved domains on  [gi|119672912|ref|NP_613051|]
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calcium homeostasis endoplasmic reticulum protein isoform 1 [Mus musculus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CID pfam04818
CID domain; This domain binds to the phosphorylated C-terminal domain (CTD) of RNA polymerase ...
 160-278 7.57e-29

CID domain; This domain binds to the phosphorylated C-terminal domain (CTD) of RNA polymerase II. This domain is known as the CTD-interacting domain (CID).


:

Pssm-ID: 461442  Cd Length: 117  Bit Score: 111.53  E-value: 7.57e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912  160 LLQPIIDTC--TKDAISAGKNWMFSNAKSPPH-CELMAGHLRNritadgAHFELRLHLIYLINDVLHHCQRKQARELLAA 236
Cdd:pfam04818   2 ALEKKLSSLnnSQESIQTLSKWILFHRKHAKAiVEVWEKYLKK------AKPEKKLHLLYLANDVLQNSRKKGKSEFADA 75

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 119672912  237 LQKVVVPIYCTSFLAVEEDKQQKIARLLQLWEKNGYFDDSII 278
Cdd:pfam04818  76 FEPVLPEAFASAYKKCDEKLKKKLERLLNIWEERNVFSPEVI 117
SWAP smart00648
Suppressor-of-White-APricot splicing regulator; domain present in regulators which are ...
 13-65 9.79e-19

Suppressor-of-White-APricot splicing regulator; domain present in regulators which are responsible for pre-mRNA splicing processes


:

Pssm-ID: 197818 [Multi-domain]  Cd Length: 54  Bit Score: 80.32  E-value: 9.79e-19
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....
gi 119672912    13 RNVIDKLAQFVARNGPEFEKMTMEKQKDNPKFSFLF-GGEFYSYYKCKLALEQQ 65
Cdd:smart00648   1 LDIIDKTAQFVARNGPEFEAKLMERERNNPQFDFLKpNDPYHAYYRKKLAEYRQ 54
G_patch smart00443
glycine rich nucleic binding domain; A predicted glycine rich nucleic binding domain found in ...
 850-900 8.44e-11

glycine rich nucleic binding domain; A predicted glycine rich nucleic binding domain found in the splicing factor 45, SON DNA binding protein and D-type Retrovirus- polyproteins.


:

Pssm-ID: 197727 [Multi-domain]  Cd Length: 47  Bit Score: 57.94  E-value: 8.44e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|.
gi 119672912   850 LGEENKGHQMLVKMGWSGSGGLGAKEQGIQDPIKGGDVRDKwdqyKGVGVA 900
Cdd:smart00443   1 ISTSNIGAKLLRKMGWKEGQGLGKNEQGIVEPISAEIKKDR----KGLGAV 47
PAT1 super family cl37801
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 508-648 3.80e-05

Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate chromosome transmission during cell division.


The actual alignment was detected with superfamily member pfam09770:

Pssm-ID: 401645 [Multi-domain]  Cd Length: 846  Bit Score: 47.72  E-value: 3.80e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912  508 QHEPPPWGGAQREPPFRMQRPPHFRGPFPPHQQHPQFNQPPHPHNfnrfpprfmQDDFPPRHPFERPPYPHRFDYPQGdf 587
Cdd:pfam09770 223 AAPPAQQAQQQQQFPPQIQQQQQPQQQPQQPQQHPGQGHPVTILQ---------RPQSPQPDPAQPSIQPQAQQFHQQ-- 291

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 119672912  588 padMGPPHHHPGHRMPHPgiNEHPPwagPQHPDFGPPPHGFNGQPPHMRRQGPPHINHDDP 648
Cdd:pfam09770 292 ---PPPVPVQPTQILQNP--NRLSA---ARVGYPQNPQPGVQPAPAHQAHRQQGSFGRQAP 344
PHA03377 super family cl31823
EBNA-3C; Provisional
 382-691 1.30e-04

EBNA-3C; Provisional


The actual alignment was detected with superfamily member PHA03377:

Pssm-ID: 177614 [Multi-domain]  Cd Length: 1000  Bit Score: 45.81  E-value: 1.30e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912  382 TTQPDDNKPPIQMPGSSEYDTSAGVQDPAAAGPRGPGPHEQIPPNKPPWFDQPHPVAPWGQQQPPEQPPyphhqGGPPHC 461
Cdd:PHA03377  575 TGPRVMATPSTGPRDMAPPSTGPRQQAKCKDGPPASGPHEKQPPSSAPRDMAPSVVRMFLRERLLEQST-----GPKPKS 649

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912  462 ppWNNSHEGMWGEQRGDPGWNGQRDAPWNNQPDPNW-NNQFEGPWNNQHEPPPWGGAQREP------------------- 521
Cdd:PHA03377  650 --FWEMRAGRDGSGIQQEPSSRRQPATQSTPPRPSWlPSVFVLPSVDAGRAQPSEESHLSSmsptqpisheeqpryedpd 727

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912  522 --------PFRMQRPPHfRGPFPPHQQhPQFNQPPHPHNFNRFPPR--FMQDDFPPRH-------PFERPPYPHRFDYPQ 584
Cdd:PHA03377  728 dpldlslhPDQAPPPSH-QAPYSGHEE-PQAQQAPYPGYWEPRPPQapYLGYQEPQAQgvqvssyPGYAGPWGLRAQHPR 805

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912  585 GDFPadMGPPHHHPGHRMPHPGINEHPPWAGPQHPDFGPPPHGFNGQPPHMRRQ-GPPHINHddpSLVPNVPYFDLPAGL 663
Cdd:PHA03377  806 YRHS--WAYWSQYPGHGHPQGPWAPRPPHLPPQWDGSAGHGQDQVSQFPHLQSEtGPPRLQL---SQVPQLPYSQTLVSS 880

                         330       340
                  ....*....|....*....|....*...
gi 119672912  664 MAPLVkLEDHEYKPLDPKDIRLPPPMPP 691
Cdd:PHA03377  881 SAPSW-SSPQPRAPIRPIPTRFPPPPMP 907
 
Name Accession Description Interval E-value
CID pfam04818
CID domain; This domain binds to the phosphorylated C-terminal domain (CTD) of RNA polymerase ...
 160-278 7.57e-29

CID domain; This domain binds to the phosphorylated C-terminal domain (CTD) of RNA polymerase II. This domain is known as the CTD-interacting domain (CID).


Pssm-ID: 461442  Cd Length: 117  Bit Score: 111.53  E-value: 7.57e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912  160 LLQPIIDTC--TKDAISAGKNWMFSNAKSPPH-CELMAGHLRNritadgAHFELRLHLIYLINDVLHHCQRKQARELLAA 236
Cdd:pfam04818   2 ALEKKLSSLnnSQESIQTLSKWILFHRKHAKAiVEVWEKYLKK------AKPEKKLHLLYLANDVLQNSRKKGKSEFADA 75

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 119672912  237 LQKVVVPIYCTSFLAVEEDKQQKIARLLQLWEKNGYFDDSII 278
Cdd:pfam04818  76 FEPVLPEAFASAYKKCDEKLKKKLERLLNIWEERNVFSPEVI 117
SWAP smart00648
Suppressor-of-White-APricot splicing regulator; domain present in regulators which are ...
 13-65 9.79e-19

Suppressor-of-White-APricot splicing regulator; domain present in regulators which are responsible for pre-mRNA splicing processes


Pssm-ID: 197818 [Multi-domain]  Cd Length: 54  Bit Score: 80.32  E-value: 9.79e-19
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....
gi 119672912    13 RNVIDKLAQFVARNGPEFEKMTMEKQKDNPKFSFLF-GGEFYSYYKCKLALEQQ 65
Cdd:smart00648   1 LDIIDKTAQFVARNGPEFEAKLMERERNNPQFDFLKpNDPYHAYYRKKLAEYRQ 54
Surp pfam01805
Surp module; This domain is also known as the SWAP domain. SWAP stands for ...
 14-61 5.75e-18

Surp module; This domain is also known as the SWAP domain. SWAP stands for Suppressor-of-White-APricot. It has been suggested that these domains may be RNA binding.


Pssm-ID: 460339 [Multi-domain]  Cd Length: 52  Bit Score: 78.33  E-value: 5.75e-18
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 119672912   14 NVIDKLAQFVARNGPEFEKMTMEKQKDNPKFSFLFGGE--FYSYYKCKLA 61
Cdd:pfam01805   1 DIIKKTAQFVARNGPEFEALLMEREERNPQFDFLFDPDdpLHAYYRWKLE 50
G_patch smart00443
glycine rich nucleic binding domain; A predicted glycine rich nucleic binding domain found in ...
 850-900 8.44e-11

glycine rich nucleic binding domain; A predicted glycine rich nucleic binding domain found in the splicing factor 45, SON DNA binding protein and D-type Retrovirus- polyproteins.


Pssm-ID: 197727 [Multi-domain]  Cd Length: 47  Bit Score: 57.94  E-value: 8.44e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|.
gi 119672912   850 LGEENKGHQMLVKMGWSGSGGLGAKEQGIQDPIKGGDVRDKwdqyKGVGVA 900
Cdd:smart00443   1 ISTSNIGAKLLRKMGWKEGQGLGKNEQGIVEPISAEIKKDR----KGLGAV 47
G-patch pfam01585
G-patch domain; This domain is found in a number of RNA binding proteins, and is also found in ...
 853-898 9.57e-11

G-patch domain; This domain is found in a number of RNA binding proteins, and is also found in proteins that contain RNA binding domains. This suggests that this domain may have an RNA binding function. This domain has seven highly conserved glycines.


Pssm-ID: 396249 [Multi-domain]  Cd Length: 45  Bit Score: 57.52  E-value: 9.57e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 119672912  853 ENKGHQMLVKMGWSGSGGLGAKEQGIQDPIKGGDVRDKwdqyKGVG 898
Cdd:pfam01585   2 SNIGFKLLQKMGWKEGQGLGKNEQGIAEPIEAKIKKDR----RGLG 43
CID_Rtt103 cd17003
CID (CTD-Interacting Domain) of yeast transcription termination factor Rtt103 and similar ...
 140-283 2.77e-09

CID (CTD-Interacting Domain) of yeast transcription termination factor Rtt103 and similar proteins; Yeast transcription termination factor Rtt103 is a CID (CTD-Interacting Domain) containing protein that functions in DNA damage response. It associates with sites of DNA breaks and is essential for recovery from DNA double strand breaks in the chromosome. CID binds tightly to the carboxy-terminal domain (CTD) of RNA polymerase (Pol) II (RNAP II). Rtt103 CID preferentially interacts with CTD phosphorylated at Ser2. During transcription, RNAP II synthesizes eukaryotic messenger RNA. Transcription is coupled to RNA processing through the CTD, which consists of up to 52 repeats of the sequence Tyr1-Ser2-Pro3-Thr4-Ser5-Pro6-Ser7. CID contains eight alpha-helices in a right-handed superhelical arrangement, which closely resembles that of the VHS domains and ARM (Armadillo) repeat proteins, except for its two amino-terminal helices.


Pssm-ID: 340800  Cd Length: 127  Bit Score: 56.08  E-value: 2.77e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912 140 EQQMQKL--LEETQldmsefdnllqpiidtctkDAISAGKNWMFSNAKsppHCELMAGHLRNRITADGAHFELRLHLIYL 217
Cdd:cd17003    2 EQFISKLnaLNETQ-------------------ESIVSISQWVLFHYR---HADEIAEIWSDYLLKSSVNSRRKLLLIYL 59

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 119672912 218 INDVLHHCQRKQARELLAALQKVVVPIYCTSFLAVEEDKQQKIARLLQLWEKNGYFDDSIIQQLQS 283
Cdd:cd17003   60 ANDVVQQAKAKKKTEFIDAFSKVLPEVLEKIYPSLPSDIKKKIKRVVNVWKQRQIFSKDVIDDIEE 125
RPR smart00582
domain present in proteins, which are involved in regulation of nuclear pre-mRNA;
211-283 2.87e-09

domain present in proteins, which are involved in regulation of nuclear pre-mRNA;


Pssm-ID: 214731  Cd Length: 124  Bit Score: 55.75  E-value: 2.87e-09
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 119672912   211 RLHLIYLINDVLHHCQRKQARELLAALQKVVVPIYCTSFLAVEEDKQQKIARLLQLWEKNGYFDDSIIQQLQS 283
Cdd:smart00582  49 KLPLLYLLDSIVQNSKRKYGSEFGDELGPVFQDALRRVLGAAPEELKKKIRRLLNIWEERGIFPPEVLRPLRE 121
PAT1 pfam09770
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 508-648 3.80e-05

Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate chromosome transmission during cell division.


Pssm-ID: 401645 [Multi-domain]  Cd Length: 846  Bit Score: 47.72  E-value: 3.80e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912  508 QHEPPPWGGAQREPPFRMQRPPHFRGPFPPHQQHPQFNQPPHPHNfnrfpprfmQDDFPPRHPFERPPYPHRFDYPQGdf 587
Cdd:pfam09770 223 AAPPAQQAQQQQQFPPQIQQQQQPQQQPQQPQQHPGQGHPVTILQ---------RPQSPQPDPAQPSIQPQAQQFHQQ-- 291

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 119672912  588 padMGPPHHHPGHRMPHPgiNEHPPwagPQHPDFGPPPHGFNGQPPHMRRQGPPHINHDDP 648
Cdd:pfam09770 292 ---PPPVPVQPTQILQNP--NRLSA---ARVGYPQNPQPGVQPAPAHQAHRQQGSFGRQAP 344
PHA03377 PHA03377
EBNA-3C; Provisional
 382-691 1.30e-04

EBNA-3C; Provisional


Pssm-ID: 177614 [Multi-domain]  Cd Length: 1000  Bit Score: 45.81  E-value: 1.30e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912  382 TTQPDDNKPPIQMPGSSEYDTSAGVQDPAAAGPRGPGPHEQIPPNKPPWFDQPHPVAPWGQQQPPEQPPyphhqGGPPHC 461
Cdd:PHA03377  575 TGPRVMATPSTGPRDMAPPSTGPRQQAKCKDGPPASGPHEKQPPSSAPRDMAPSVVRMFLRERLLEQST-----GPKPKS 649

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912  462 ppWNNSHEGMWGEQRGDPGWNGQRDAPWNNQPDPNW-NNQFEGPWNNQHEPPPWGGAQREP------------------- 521
Cdd:PHA03377  650 --FWEMRAGRDGSGIQQEPSSRRQPATQSTPPRPSWlPSVFVLPSVDAGRAQPSEESHLSSmsptqpisheeqpryedpd 727

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912  522 --------PFRMQRPPHfRGPFPPHQQhPQFNQPPHPHNFNRFPPR--FMQDDFPPRH-------PFERPPYPHRFDYPQ 584
Cdd:PHA03377  728 dpldlslhPDQAPPPSH-QAPYSGHEE-PQAQQAPYPGYWEPRPPQapYLGYQEPQAQgvqvssyPGYAGPWGLRAQHPR 805

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912  585 GDFPadMGPPHHHPGHRMPHPGINEHPPWAGPQHPDFGPPPHGFNGQPPHMRRQ-GPPHINHddpSLVPNVPYFDLPAGL 663
Cdd:PHA03377  806 YRHS--WAYWSQYPGHGHPQGPWAPRPPHLPPQWDGSAGHGQDQVSQFPHLQSEtGPPRLQL---SQVPQLPYSQTLVSS 880

                         330       340
                  ....*....|....*....|....*...
gi 119672912  664 MAPLVkLEDHEYKPLDPKDIRLPPPMPP 691
Cdd:PHA03377  881 SAPSW-SSPQPRAPIRPIPTRFPPPPMP 907
PAT1 pfam09770
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 412-562 3.69e-03

Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate chromosome transmission during cell division.


Pssm-ID: 401645 [Multi-domain]  Cd Length: 846  Bit Score: 41.17  E-value: 3.69e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912  412 AGPRGPGPHEQIPPNKPPwFDQPHPVAPWGQQQPPEQPPYPHHQGGPPHCPPWNNSHEGMWGEQRgdpgwngqrdaPWNN 491
Cdd:pfam09770 205 AQAKKPAQQPAPAPAQPP-AAPPAQQAQQQQQFPPQIQQQQQPQQQPQQPQQHPGQGHPVTILQR-----------PQSP 272

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912  492 QPDPNWNNQFEGPWNNQHEPPPWGGA--------QREPPFRM---QRPPHFRGPFPPHQQHPQFNQPPHPHNFNRFPPRF 560
Cdd:pfam09770 273 QPDPAQPSIQPQAQQFHQQPPPVPVQptqilqnpNRLSAARVgypQNPQPGVQPAPAHQAHRQQGSFGRQAPIITHPQQL 352


                  ..
gi 119672912  561 MQ 562
Cdd:pfam09770 353 AQ 354
 
Name Accession Description Interval E-value
CID pfam04818
CID domain; This domain binds to the phosphorylated C-terminal domain (CTD) of RNA polymerase ...
 160-278 7.57e-29

CID domain; This domain binds to the phosphorylated C-terminal domain (CTD) of RNA polymerase II. This domain is known as the CTD-interacting domain (CID).


Pssm-ID: 461442  Cd Length: 117  Bit Score: 111.53  E-value: 7.57e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912  160 LLQPIIDTC--TKDAISAGKNWMFSNAKSPPH-CELMAGHLRNritadgAHFELRLHLIYLINDVLHHCQRKQARELLAA 236
Cdd:pfam04818   2 ALEKKLSSLnnSQESIQTLSKWILFHRKHAKAiVEVWEKYLKK------AKPEKKLHLLYLANDVLQNSRKKGKSEFADA 75

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 119672912  237 LQKVVVPIYCTSFLAVEEDKQQKIARLLQLWEKNGYFDDSII 278
Cdd:pfam04818  76 FEPVLPEAFASAYKKCDEKLKKKLERLLNIWEERNVFSPEVI 117
SWAP smart00648
Suppressor-of-White-APricot splicing regulator; domain present in regulators which are ...
 13-65 9.79e-19

Suppressor-of-White-APricot splicing regulator; domain present in regulators which are responsible for pre-mRNA splicing processes


Pssm-ID: 197818 [Multi-domain]  Cd Length: 54  Bit Score: 80.32  E-value: 9.79e-19
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....
gi 119672912    13 RNVIDKLAQFVARNGPEFEKMTMEKQKDNPKFSFLF-GGEFYSYYKCKLALEQQ 65
Cdd:smart00648   1 LDIIDKTAQFVARNGPEFEAKLMERERNNPQFDFLKpNDPYHAYYRKKLAEYRQ 54
Surp pfam01805
Surp module; This domain is also known as the SWAP domain. SWAP stands for ...
 14-61 5.75e-18

Surp module; This domain is also known as the SWAP domain. SWAP stands for Suppressor-of-White-APricot. It has been suggested that these domains may be RNA binding.


Pssm-ID: 460339 [Multi-domain]  Cd Length: 52  Bit Score: 78.33  E-value: 5.75e-18
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 119672912   14 NVIDKLAQFVARNGPEFEKMTMEKQKDNPKFSFLFGGE--FYSYYKCKLA 61
Cdd:pfam01805   1 DIIKKTAQFVARNGPEFEALLMEREERNPQFDFLFDPDdpLHAYYRWKLE 50
G_patch smart00443
glycine rich nucleic binding domain; A predicted glycine rich nucleic binding domain found in ...
 850-900 8.44e-11

glycine rich nucleic binding domain; A predicted glycine rich nucleic binding domain found in the splicing factor 45, SON DNA binding protein and D-type Retrovirus- polyproteins.


Pssm-ID: 197727 [Multi-domain]  Cd Length: 47  Bit Score: 57.94  E-value: 8.44e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|.
gi 119672912   850 LGEENKGHQMLVKMGWSGSGGLGAKEQGIQDPIKGGDVRDKwdqyKGVGVA 900
Cdd:smart00443   1 ISTSNIGAKLLRKMGWKEGQGLGKNEQGIVEPISAEIKKDR----KGLGAV 47
G-patch pfam01585
G-patch domain; This domain is found in a number of RNA binding proteins, and is also found in ...
 853-898 9.57e-11

G-patch domain; This domain is found in a number of RNA binding proteins, and is also found in proteins that contain RNA binding domains. This suggests that this domain may have an RNA binding function. This domain has seven highly conserved glycines.


Pssm-ID: 396249 [Multi-domain]  Cd Length: 45  Bit Score: 57.52  E-value: 9.57e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 119672912  853 ENKGHQMLVKMGWSGSGGLGAKEQGIQDPIKGGDVRDKwdqyKGVG 898
Cdd:pfam01585   2 SNIGFKLLQKMGWKEGQGLGKNEQGIAEPIEAKIKKDR----RGLG 43
CID_Rtt103 cd17003
CID (CTD-Interacting Domain) of yeast transcription termination factor Rtt103 and similar ...
 140-283 2.77e-09

CID (CTD-Interacting Domain) of yeast transcription termination factor Rtt103 and similar proteins; Yeast transcription termination factor Rtt103 is a CID (CTD-Interacting Domain) containing protein that functions in DNA damage response. It associates with sites of DNA breaks and is essential for recovery from DNA double strand breaks in the chromosome. CID binds tightly to the carboxy-terminal domain (CTD) of RNA polymerase (Pol) II (RNAP II). Rtt103 CID preferentially interacts with CTD phosphorylated at Ser2. During transcription, RNAP II synthesizes eukaryotic messenger RNA. Transcription is coupled to RNA processing through the CTD, which consists of up to 52 repeats of the sequence Tyr1-Ser2-Pro3-Thr4-Ser5-Pro6-Ser7. CID contains eight alpha-helices in a right-handed superhelical arrangement, which closely resembles that of the VHS domains and ARM (Armadillo) repeat proteins, except for its two amino-terminal helices.


Pssm-ID: 340800  Cd Length: 127  Bit Score: 56.08  E-value: 2.77e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912 140 EQQMQKL--LEETQldmsefdnllqpiidtctkDAISAGKNWMFSNAKsppHCELMAGHLRNRITADGAHFELRLHLIYL 217
Cdd:cd17003    2 EQFISKLnaLNETQ-------------------ESIVSISQWVLFHYR---HADEIAEIWSDYLLKSSVNSRRKLLLIYL 59

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 119672912 218 INDVLHHCQRKQARELLAALQKVVVPIYCTSFLAVEEDKQQKIARLLQLWEKNGYFDDSIIQQLQS 283
Cdd:cd17003   60 ANDVVQQAKAKKKTEFIDAFSKVLPEVLEKIYPSLPSDIKKKIKRVVNVWKQRQIFSKDVIDDIEE 125
RPR smart00582
domain present in proteins, which are involved in regulation of nuclear pre-mRNA;
211-283 2.87e-09

domain present in proteins, which are involved in regulation of nuclear pre-mRNA;


Pssm-ID: 214731  Cd Length: 124  Bit Score: 55.75  E-value: 2.87e-09
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 119672912   211 RLHLIYLINDVLHHCQRKQARELLAALQKVVVPIYCTSFLAVEEDKQQKIARLLQLWEKNGYFDDSIIQQLQS 283
Cdd:smart00582  49 KLPLLYLLDSIVQNSKRKYGSEFGDELGPVFQDALRRVLGAAPEELKKKIRRLLNIWEERGIFPPEVLRPLRE 121
CID_RPRD_like cd16981
CID (CTD-Interacting Domain) of Regulation of nuclear pre-mRNA domain-containing proteins; ...
 167-283 2.91e-08

CID (CTD-Interacting Domain) of Regulation of nuclear pre-mRNA domain-containing proteins; This family is composed of Regulation of nuclear pre-mRNA domain-containing proteins 1A (RPRD1A), 1B (RPRD1B), 2 (RPRD2), yeast Rtt103, and similar proteins. RPRD1A, RPRD1B, and RPRD2 are CID (CTD-Interacting Domain) containing proteins that co-purify with RNA polymerase (Pol) II (RNAP II) and three other RNAP II-associated proteins, RPAP2, GRINL1A and RECQL5, but not with the Mediator complex. Yeast transcription termination factor Rtt103 is a CID containing protein that functions in DNA damage response. CID binds tightly to the carboxy-terminal domain (CTD) of RNAP II. During transcription, RNAP II synthesizes eukaryotic messenger RNA. Transcription is coupled to RNA processing through the CTD, which consists of up to 52 repeats of the sequence Tyr1-Ser2-Pro3-Thr4-Ser5-Pro6-Ser7. CID contains eight alpha-helices in a right-handed superhelical arrangement, which closely resembles that of the VHS domains and ARM (Armadillo) repeat proteins, except for its two amino-terminal helices.


Pssm-ID: 340778  Cd Length: 125  Bit Score: 52.97  E-value: 2.91e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912 167 TCTKDAISAGKNWMFSNAKsppHCELMAGHLRNRI-TADGAHfelRLHLIYLINDVLHHCQRKQARELLAALQKvVVPIY 245
Cdd:cd16981   12 NNTQQSIQTLSLWCLFHKK---HAKQIVKIWLKELkKAKPER---KLTLLYLANDVLQNSRRKGAPEFVEAFKK-VLPEA 84

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 119672912 246 CTSFLAVEEDK-QQKIARLLQLWEKNGYFDDSIIQQLQS 283
Cdd:cd16981   85 LALVRSEGDESvRKKVLRVLNIWEERNVFGSEFLAELRA 123
CID cd03562
CID (CTD-Interacting Domain) family; The CTD-Interacting Domain (CID) is present in several ...
 154-283 8.14e-07

CID (CTD-Interacting Domain) family; The CTD-Interacting Domain (CID) is present in several eukaryotic RNA-processing factors including yeast proteins, Pcf11 and Nrd1, and vertebrate proteins, CTD-associated factors 8 (SCAF8) and Regulation of nuclear pre-mRNA domain-containing proteins (such as RPRD1 and RPRD2). Pcf11 is a conserved and essential subunit of the yeast cleavage factor IA, which is required for polyadenylation-dependent 3'-RNA processing and transcription termination. Nrd1 is implicated in polyadenylation-independent 3'-RNA processing. CID binds tightly to the carboxy-terminal domain (CTD) of RNA polymerase (Pol) II (RNAP II). During transcription, RNAP II synthesizes eukaryotic messenger RNA. Transcription is coupled to RNA processing through the CTD, which consists of up to 52 repeats of the sequence Tyr1-Ser2-Pro3-Thr4-Ser5-Pro6-Ser7. CID contains eight alpha-helices in a right-handed superhelical arrangement, which closely resembles that of the VHS domains and ARM (Armadillo) repeat proteins, except for its two amino-terminal helices.


Pssm-ID: 340766  Cd Length: 123  Bit Score: 49.05  E-value: 8.14e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912 154 MSEFDNLLQPIIDTCTKDAISAGK-------NWMFSNAKSPPhcelmaghlrnritadgahfELRLHLIYLINDVLHHCQ 226
Cdd:cd03562    7 LEELSDLSQQSITTLTKWAIHHIKhsrpivtVIEREIRKCKP--------------------NRKLTFLYLIDSIIRNSK 66

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 119672912 227 RKQArELLAALQKVVVPIYCTSFLAVEEDKQQKIARLLQLWEKNGYFDDSIIQQLQS 283
Cdd:cd03562   67 RKGP-EFTKDFSPVIVELFKHVYSETDEDCKKKLGRVLSIWEERNVFENSVLEQLKQ 122
PAT1 pfam09770
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 508-648 3.80e-05

Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate chromosome transmission during cell division.


Pssm-ID: 401645 [Multi-domain]  Cd Length: 846  Bit Score: 47.72  E-value: 3.80e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912  508 QHEPPPWGGAQREPPFRMQRPPHFRGPFPPHQQHPQFNQPPHPHNfnrfpprfmQDDFPPRHPFERPPYPHRFDYPQGdf 587
Cdd:pfam09770 223 AAPPAQQAQQQQQFPPQIQQQQQPQQQPQQPQQHPGQGHPVTILQ---------RPQSPQPDPAQPSIQPQAQQFHQQ-- 291

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 119672912  588 padMGPPHHHPGHRMPHPgiNEHPPwagPQHPDFGPPPHGFNGQPPHMRRQGPPHINHDDP 648
Cdd:pfam09770 292 ---PPPVPVQPTQILQNP--NRLSA---ARVGYPQNPQPGVQPAPAHQAHRQQGSFGRQAP 344
PHA03377 PHA03377
EBNA-3C; Provisional
 382-691 1.30e-04

EBNA-3C; Provisional


Pssm-ID: 177614 [Multi-domain]  Cd Length: 1000  Bit Score: 45.81  E-value: 1.30e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912  382 TTQPDDNKPPIQMPGSSEYDTSAGVQDPAAAGPRGPGPHEQIPPNKPPWFDQPHPVAPWGQQQPPEQPPyphhqGGPPHC 461
Cdd:PHA03377  575 TGPRVMATPSTGPRDMAPPSTGPRQQAKCKDGPPASGPHEKQPPSSAPRDMAPSVVRMFLRERLLEQST-----GPKPKS 649

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912  462 ppWNNSHEGMWGEQRGDPGWNGQRDAPWNNQPDPNW-NNQFEGPWNNQHEPPPWGGAQREP------------------- 521
Cdd:PHA03377  650 --FWEMRAGRDGSGIQQEPSSRRQPATQSTPPRPSWlPSVFVLPSVDAGRAQPSEESHLSSmsptqpisheeqpryedpd 727

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912  522 --------PFRMQRPPHfRGPFPPHQQhPQFNQPPHPHNFNRFPPR--FMQDDFPPRH-------PFERPPYPHRFDYPQ 584
Cdd:PHA03377  728 dpldlslhPDQAPPPSH-QAPYSGHEE-PQAQQAPYPGYWEPRPPQapYLGYQEPQAQgvqvssyPGYAGPWGLRAQHPR 805

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912  585 GDFPadMGPPHHHPGHRMPHPGINEHPPWAGPQHPDFGPPPHGFNGQPPHMRRQ-GPPHINHddpSLVPNVPYFDLPAGL 663
Cdd:PHA03377  806 YRHS--WAYWSQYPGHGHPQGPWAPRPPHLPPQWDGSAGHGQDQVSQFPHLQSEtGPPRLQL---SQVPQLPYSQTLVSS 880

                         330       340
                  ....*....|....*....|....*...
gi 119672912  664 MAPLVkLEDHEYKPLDPKDIRLPPPMPP 691
Cdd:PHA03377  881 SAPSW-SSPQPRAPIRPIPTRFPPPPMP 907
CID_SCAF8_like cd16983
CID (CTD-Interacting Domain) of SR-related and CTD-associated factor 8 and similar proteins; ...
 209-285 1.42e-04

CID (CTD-Interacting Domain) of SR-related and CTD-associated factor 8 and similar proteins; This subfamily includes SR-related and CTD-associated factors 8 (SCAF8) and 4 (SCAF4), and similar proteins. SCAF4 is also called Splicing factor arginine serine rich 15 (SFRS15). Members may play roles in mRNA processing. Both SCAF4 and SCAF8 contains a CTD-interacting domain (CID) at the amino terminus and a Ser/Arg-rich domain followed by an RNA recognition motif. CID binds tightly to the carboxy-terminal domain (CTD) of RNA polymerase (Pol) II (RNAP II). During transcription, RNAP II synthesizes eukaryotic messenger RNA. Transcription is coupled to RNA processing through the CTD, which consists of up to 52 repeats of the sequence Tyr1-Ser2-Pro3-Thr4-Ser5-Pro6-Ser7. CID contains eight alpha-helices in a right-handed superhelical arrangement, which closely resembles that of the VHS domains and ARM (Armadillo) repeat proteins, except for its two amino-terminal helices.


Pssm-ID: 340780  Cd Length: 131  Bit Score: 42.60  E-value: 1.42e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912 209 ELRLHLIYLINDVLHHCQRKQARE---LLAALQKVVVPIYcTSFLAVEEDKQQKIARLLQLWEKNGYFDDSIIQQLQSPA 285
Cdd:cd16983   53 EYKLPGLYVIDSIIRQSRHQYGKEkdvYAPRFAKNLSKTF-LNLLKCPEKDKPKVKRVLNLWQKNGVFPKEIIQPLLDAA 131
PAT1 pfam09770
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 508-618 1.63e-04

Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate chromosome transmission during cell division.


Pssm-ID: 401645 [Multi-domain]  Cd Length: 846  Bit Score: 45.41  E-value: 1.63e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912  508 QHEPPPWGGAQREPPFRMQRPPHFRGPFPPHQ-QHPQ--FNQP------PHPHNFNRFPPRFMQDdfpPRHPFERP--PY 576
Cdd:pfam09770 234 QQFPPQIQQQQQPQQQPQQPQQHPGQGHPVTIlQRPQspQPDPaqpsiqPQAQQFHQQPPPVPVQ---PTQILQNPnrLS 310

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 119672912  577 PHRFDYPQGDFPAdMGPPHHHPGHRMPHPGINEHPPWAGPQH 618
Cdd:pfam09770 311 AARVGYPQNPQPG-VQPAPAHQAHRQQGSFGRQAPIITHPQQ 351
CID_RPRD1B cd17012
CID (CTD-Interacting Domain) of Regulation of nuclear pre-mRNA domain-containing protein 1B; ...
 207-282 2.23e-04

CID (CTD-Interacting Domain) of Regulation of nuclear pre-mRNA domain-containing protein 1B; Regulation of nuclear pre-mRNA domain-containing protein 1B (RPRD1B) is also called Cell cycle-related and expression-elevated protein in tumor (CREPT). RPRD1B is a CID (CTD-Interacting Domain) containing protein that co-purifies with RNA polymerase (Pol) II (RNAP II) and three other RNAP II-associated proteins, RPAP2, GRINL1A and RECQL5, but not with the Mediator complex. CID binds tightly to the carboxy-terminal domain (CTD) of RNAP II. During transcription, RNAP II synthesizes eukaryotic messenger RNA. Transcription is coupled to RNA processing through the CTD, which consists of up to 52 repeats of the sequence Tyr1-Ser2-Pro3-Thr4-Ser5-Pro6-Ser7. RPRD1B form homodimers and heterodimers with RPRD1A through their coiled-coil domains. Both RPRD1A and RPRD1B associate directly with RPAP2 phosphatase and serve as CTD scaffolds to coordinate the dephosphorylation of phospho-S5 by RPAP2. RPRD1B is highly expressed during tumorigenesis and in endometrial cancer, has been shown to promote tumor growth by accelerating the cell cycle. CID contains eight alpha-helices in a right-handed superhelical arrangement, which closely resembles that of the VHS domains and ARM (Armadillo) repeat proteins, except for its two amino-terminal helices.


Pssm-ID: 340809  Cd Length: 129  Bit Score: 41.91  E-value: 2.23e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912 207 HFELR-------LHLIYLINDVLHHCQRKqARELLAALQKVVVPIYCTSFLAVEEDKQQKIARLLQLWEKNGYFDDSIIQ 279
Cdd:cd17012   43 HRELRkakssrkLTFLYLANDVIQNSKRK-GPEFTREFESVLVDAFSHVAREADEGCKKPLERLLNIWQERSVYGGDFIQ 121


                 ...
gi 119672912 280 QLQ 282
Cdd:cd17012  122 QLK 124
CID_RPRD2 cd17001
CID (CTD-Interacting Domain) of Regulation of nuclear pre-mRNA domain-containing protein 2; ...
 155-283 2.75e-04

CID (CTD-Interacting Domain) of Regulation of nuclear pre-mRNA domain-containing protein 2; Regulation of nuclear pre-mRNA domain-containing protein 2 (RPRD2) is a CID (CTD-Interacting Domain) domain containing protein that co-purifies with RNA polymerase (Pol) II (RNAP II) and three other RNAP II-associated proteins, RPAP2, GRINL1A and RECQL5, but not with the Mediator complex. CID binds tightly to the carboxy-terminal domain (CTD) of RNAP II. During transcription, RNAP II synthesizes eukaryotic messenger RNA. Transcription is coupled to RNA processing through the CTD, which consists of up to 52 repeats of the sequence Tyr1-Ser2-Pro3-Thr4-Ser5-Pro6-Ser7. CID contains eight alpha-helices in a right-handed superhelical arrangement, which closely resembles that of the VHS domains and ARM (Armadillo) repeat proteins, except for its two amino-terminal helices.


Pssm-ID: 340798  Cd Length: 125  Bit Score: 41.82  E-value: 2.75e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912 155 SEFDNLLQPIidTCTKDAISAGKNWMFSNAKSppHCELMAGHLRNRITADGAHfelRLHLIYLINDVLHHCQRKQA---R 231
Cdd:cd17001    4 SSLDRKFQSV--TNTMESIQGLSSWCIENKKH--HSTIVYHWMKWLRRSAYPH---RLNLFYLANDVIQNCKRKNAivfR 76

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 119672912 232 ELLAAlqkvVVPiycTSFLAVEEDKQQK-IARLLQLWEKNGYFDDSIIQQLQS 283
Cdd:cd17001   77 ESFAE----VLP---EAAALVKDASVSKsVERIFKIWEERNVYPEETIAALKE 122
CID_RPRD1A cd17011
CID (CTD-Interacting Domain) of Regulation of nuclear pre-mRNA domain-containing protein 1A; ...
 211-287 8.45e-04

CID (CTD-Interacting Domain) of Regulation of nuclear pre-mRNA domain-containing protein 1A; Regulation of nuclear pre-mRNA domain-containing protein 1A (RPRD1A) is also called Cyclin-dependent kinase inhibitor 2B-related protein or p15INK4B-related protein (P15RS). RPRD1A is a CID (CTD-Interacting Domain) containing protein that co-purifies with RNA polymerase (Pol) II (RNAP II) and three other RNAP II-associated proteins, RPAP2, GRINL1A and RECQL5, but not with the Mediator complex. CID binds tightly to the carboxy-terminal domain (CTD) of RNAP II. During transcription, RNAP II synthesizes eukaryotic messenger RNA. Transcription is coupled to RNA processing through the CTD, which consists of up to 52 repeats of the sequence Tyr1-Ser2-Pro3-Thr4-Ser5-Pro6-Ser7. RPRD1A form homodimers and heterodimers with RPRD1B through their coiled-coil domains. Both RPRD1A and RPRD1B associate directly with RPAP2 phosphatase and serve as CTD scaffolds to coordinate the dephosphorylation of phospho-S5 by RPAP2. CID contains eight alpha-helices in a right-handed superhelical arrangement, which closely resembles that of the VHS domains and ARM (Armadillo) repeat proteins, except for its two amino-terminal helices.


Pssm-ID: 340808  Cd Length: 128  Bit Score: 40.41  E-value: 8.45e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 119672912 211 RLHLIYLINDVLHHCQRKqARELLAALQKVVVPIYCTSFLAVEEDKQQKIARLLQLWEKNGYFDDSIIQQLQSPALG 287
Cdd:cd17011   53 KLTFLYLANDVIQNSKRK-GPEFTKDFAPVIVEAFKHVSSETDESCKKHLGRVLSIWEERSVYENDVLEQLKQALYG 128
CID_SFRS15_SCAF4 cd17005
CID (CTD-Interacting Domain) of Splicing factor arginine serine rich 15; Splicing factor ...
 209-281 8.80e-04

CID (CTD-Interacting Domain) of Splicing factor arginine serine rich 15; Splicing factor arginine serine rich 15 (SFRS15) is also called CTD-binding SR-like protein RA4 or SR-related and CTD-associated factor 4 (SCAF4). It may act to physically and functionally link transcription and pre-mRNA processing. SFRS15/SCAF4 contains a CTD-interacting domain (CID) at the amino terminus and a Ser/Arg-rich domain followed by an RNA recognition motif. CID binds tightly to the carboxy-terminal domain (CTD) of RNA polymerase (Pol) II (RNAP II). During transcription, RNAP II synthesizes eukaryotic messenger RNA. Transcription is coupled to RNA processing through the CTD, which consists of up to 52 repeats of the sequence Tyr1-Ser2-Pro3-Thr4-Ser5-Pro6-Ser7. CID contains eight alpha-helices in a right-handed superhelical arrangement, which closely resembles that of the VHS domains and ARM (Armadillo) repeat proteins, except for its two amino-terminal helices.


Pssm-ID: 340802  Cd Length: 131  Bit Score: 40.34  E-value: 8.80e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912 209 ELRLHLIYLINDVLhhcqrKQARELLAALQKVVVPIYCTSFLAV-------EEDKQQKIARLLQLWEKNGYFDDSIIQQL 281
Cdd:cd17005   53 EYKVPGLYVIDSIV-----RQSRHQFGADKDVFGPRFSKNITATfqylylcPSEDKSKIVRVLNLWQKNGVFKIEIIQPL 127
CID_SCAF8 cd17004
CID (CTD-Interacting Domain) of SR-related and CTD-associated factor 8; SR-related and ...
 209-281 1.10e-03

CID (CTD-Interacting Domain) of SR-related and CTD-associated factor 8; SR-related and CTD-associated factor 8 (SCAF8) is also called CDC5L complex-associated protein 7 (CCAP7) or RNA-binding motif protein 16 (RBM16). It may play a role in mRNA processing. SCAF8 contains a CTD-interacting domain (CID) at the amino terminus and a Ser/Arg-rich domain followed by an RNA recognition motif. CID binds tightly to the carboxy-terminal domain (CTD) of RNA polymerase (Pol) II (RNAP II). During transcription, RNAP II synthesizes eukaryotic messenger RNA. Transcription is coupled to RNA processing through the CTD, which consists of up to 52 repeats of the sequence Tyr1-Ser2-Pro3-Thr4-Ser5-Pro6-Ser7. CID contains eight alpha-helices in a right-handed superhelical arrangement, which closely resembles that of the VHS domains and ARM (Armadillo) repeat proteins, except for its two amino-terminal helices.


Pssm-ID: 340801  Cd Length: 131  Bit Score: 40.02  E-value: 1.10e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912 209 ELRLHLIYLINDVLhhcqrKQARELLAALQKVVVPIYCTSFLAVEE-------DKQQKIARLLQLWEKNGYFDDSIIQQL 281
Cdd:cd17004   53 EYKVPGLYVIDSIV-----RQSRHQFGQEKDVFAPRFSNNIISTFQnlyrcpgDDKSKIVRVLNLWQKNNVFKSEIIQPL 127
PAT1 pfam09770
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 412-562 3.69e-03

Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate chromosome transmission during cell division.


Pssm-ID: 401645 [Multi-domain]  Cd Length: 846  Bit Score: 41.17  E-value: 3.69e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912  412 AGPRGPGPHEQIPPNKPPwFDQPHPVAPWGQQQPPEQPPYPHHQGGPPHCPPWNNSHEGMWGEQRgdpgwngqrdaPWNN 491
Cdd:pfam09770 205 AQAKKPAQQPAPAPAQPP-AAPPAQQAQQQQQFPPQIQQQQQPQQQPQQPQQHPGQGHPVTILQR-----------PQSP 272

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119672912  492 QPDPNWNNQFEGPWNNQHEPPPWGGA--------QREPPFRM---QRPPHFRGPFPPHQQHPQFNQPPHPHNFNRFPPRF 560
Cdd:pfam09770 273 QPDPAQPSIQPQAQQFHQQPPPVPVQptqilqnpNRLSAARVgypQNPQPGVQPAPAHQAHRQQGSFGRQAPIITHPQQL 352


                  ..
gi 119672912  561 MQ 562
Cdd:pfam09770 353 AQ 354
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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