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Conserved domains on  [gi|688593195|ref|XP_009291022|]
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KH homology domain-containing protein 4 isoform X1 [Danio rerio]

Protein Classification

KH domain-containing protein( domain architecture ID 16909965)

K homology (KH) domain-containing protein may bind single-stranded RNA or DNA

Gene Ontology:  GO:0003723|GO:0005681

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
KH-I_KHDC4_rpt2 cd22386
first type I K homology (KH) RNA-binding domain found in KH homology domain-containing protein ...
 205-306 3.57e-57

first type I K homology (KH) RNA-binding domain found in KH homology domain-containing protein 4 (KHDC4) and similar proteins; KHDC4, also called Brings lots of money 7 (Blom7), or pre-mRNA splicing factor protein KHDC4, is an RNA-binding protein involved in pre-mRNA splicing. It interacts with the PRP19C/Prp19 complex/NTC/Nineteen complex which is part of the spliceosome. KHDC4 binds preferentially RNA with A/C rich sequences and poly-C stretches. KHDC4 contains two type I K homology (KH) RNA-binding domains. The model corresponds to the second one.


:

Pssm-ID: 411814 [Multi-domain]  Cd Length: 102  Bit Score: 186.61  E-value: 3.57e-57
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688593195 205 HYVQDKVFVGLDQALQGFNVKERVEGPSCSFLQHIQAETGAKVFLRGKGSGCLEPASGREAFEPMYIYISHPKPEGLASA 284
Cdd:cd22386    1 KYYQEKVFVGLEHAPPGFNVRGKLIGPGGSNVKHIQQETGAKVQLRGKGSGFIEPASGREADEPLHLLISHPDPEGLQQA 80

                         90       100
                 ....*....|....*....|..
gi 688593195 285 KTLCENLLQTVHAEYSRYLNQM 306
Cdd:cd22386   81 KKLCEDLLQTVHQEYGEFQQQP 102
KH-I_KHDC4_rpt1 cd22385
first type I K homology (KH) RNA-binding domain found in KH homology domain-containing protein ...
 77-160 1.56e-45

first type I K homology (KH) RNA-binding domain found in KH homology domain-containing protein 4 (KHDC4) and similar proteins; KHDC4, also called Brings lots of money 7 (Blom7), or pre-mRNA splicing factor protein KHDC4, is an RNA-binding protein involved in pre-mRNA splicing. It interacts with the PRP19C/Prp19 complex/NTC/Nineteen complex which is part of the spliceosome. KHDC4 binds preferentially RNA with A/C rich sequences and poly-C stretches. KHDC4 contains two type I K homology (KH) RNA-binding domains. The model corresponds to the first one. The KH1 domain is a divergent KH domain that lacks the RNA-binding GXXG motif.


:

Pssm-ID: 411813  Cd Length: 84  Bit Score: 155.06  E-value: 1.56e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688593195  77 KDDLVVAEVEINDVPLTCRNLLTRGQTQDEISRVSGAAVSTRGRFMTVEEKSKALPSDRPLYLHVQGQTRDLVDKAVNRI 156
Cdd:cd22385    1 GDDLYVAEIEINDLPNTCRNLLTKGSTQEEIQKESGAAVSTRGRYMPPEEKATFNPGERPLYLHVQAPTKEAVDRAVNKI 80


                 ....
gi 688593195 157 KEII 160
Cdd:cd22385   81 NEII 84
PHA03247 super family cl33720
large tegument protein UL36; Provisional
 318-572 1.42e-04

large tegument protein UL36; Provisional


The actual alignment was detected with superfamily member PHA03247:

Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 44.93  E-value: 1.42e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688593195  318 PPVVNGLPPQPPYYSPAGFQpsyPAPVPPPPPPIAPQYPVAPVAPAPVPPPNAQYPITPVPAHVPTQTLLPAAFPPTAPV 397
Cdd:PHA03247 2618 PPDTHAPDPPPPSPSPAANE---PDPHPPPTVPPPERPRDDPAPGRVSRPRRARRLGRAAQASSPPQRPRRRAARPTVGS 2694

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688593195  398 PPKLTAPPNPPQkrrfteEVDEMDRGLLGYQHGPIHMTNLGAGMPVGSSETSGPPSAASSV-PVRERDSSSRQLMPPPCA 476
Cdd:PHA03247 2695 LTSLADPPPPPP------TPEPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPAtPGGPARPARPPTTAGPPA 2768

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688593195  477 PAllkplrPLKADESPSAPSLLEPQVKRMRTGLVAY--AGDSSDEEEDHGPSRAAVTAAGNAGAGWNPyrcPPSP-PHRP 553
Cdd:PHA03247 2769 PA------PPAAPAAGPPRRLTRPAVASLSESRESLpsPWDPADPPAAVLAPAAALPPAASPAGPLPP---PTSAqPTAP 2839

                         250
                  ....*....|....*....
gi 688593195  554 KTQTAPQPTQQNMPFWMAP 572
Cdd:PHA03247 2840 PPPPGPPPPSLPLGGSVAP 2858
 
Name Accession Description Interval E-value
KH-I_KHDC4_rpt2 cd22386
first type I K homology (KH) RNA-binding domain found in KH homology domain-containing protein ...
 205-306 3.57e-57

first type I K homology (KH) RNA-binding domain found in KH homology domain-containing protein 4 (KHDC4) and similar proteins; KHDC4, also called Brings lots of money 7 (Blom7), or pre-mRNA splicing factor protein KHDC4, is an RNA-binding protein involved in pre-mRNA splicing. It interacts with the PRP19C/Prp19 complex/NTC/Nineteen complex which is part of the spliceosome. KHDC4 binds preferentially RNA with A/C rich sequences and poly-C stretches. KHDC4 contains two type I K homology (KH) RNA-binding domains. The model corresponds to the second one.


Pssm-ID: 411814 [Multi-domain]  Cd Length: 102  Bit Score: 186.61  E-value: 3.57e-57
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688593195 205 HYVQDKVFVGLDQALQGFNVKERVEGPSCSFLQHIQAETGAKVFLRGKGSGCLEPASGREAFEPMYIYISHPKPEGLASA 284
Cdd:cd22386    1 KYYQEKVFVGLEHAPPGFNVRGKLIGPGGSNVKHIQQETGAKVQLRGKGSGFIEPASGREADEPLHLLISHPDPEGLQQA 80

                         90       100
                 ....*....|....*....|..
gi 688593195 285 KTLCENLLQTVHAEYSRYLNQM 306
Cdd:cd22386   81 KKLCEDLLQTVHQEYGEFQQQP 102
KH-I_KHDC4_rpt1 cd22385
first type I K homology (KH) RNA-binding domain found in KH homology domain-containing protein ...
 77-160 1.56e-45

first type I K homology (KH) RNA-binding domain found in KH homology domain-containing protein 4 (KHDC4) and similar proteins; KHDC4, also called Brings lots of money 7 (Blom7), or pre-mRNA splicing factor protein KHDC4, is an RNA-binding protein involved in pre-mRNA splicing. It interacts with the PRP19C/Prp19 complex/NTC/Nineteen complex which is part of the spliceosome. KHDC4 binds preferentially RNA with A/C rich sequences and poly-C stretches. KHDC4 contains two type I K homology (KH) RNA-binding domains. The model corresponds to the first one. The KH1 domain is a divergent KH domain that lacks the RNA-binding GXXG motif.


Pssm-ID: 411813  Cd Length: 84  Bit Score: 155.06  E-value: 1.56e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688593195  77 KDDLVVAEVEINDVPLTCRNLLTRGQTQDEISRVSGAAVSTRGRFMTVEEKSKALPSDRPLYLHVQGQTRDLVDKAVNRI 156
Cdd:cd22385    1 GDDLYVAEIEINDLPNTCRNLLTKGSTQEEIQKESGAAVSTRGRYMPPEEKATFNPGERPLYLHVQAPTKEAVDRAVNKI 80


                 ....
gi 688593195 157 KEII 160
Cdd:cd22385   81 NEII 84
PHA03247 PHA03247
large tegument protein UL36; Provisional
 318-572 1.42e-04

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 44.93  E-value: 1.42e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688593195  318 PPVVNGLPPQPPYYSPAGFQpsyPAPVPPPPPPIAPQYPVAPVAPAPVPPPNAQYPITPVPAHVPTQTLLPAAFPPTAPV 397
Cdd:PHA03247 2618 PPDTHAPDPPPPSPSPAANE---PDPHPPPTVPPPERPRDDPAPGRVSRPRRARRLGRAAQASSPPQRPRRRAARPTVGS 2694

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688593195  398 PPKLTAPPNPPQkrrfteEVDEMDRGLLGYQHGPIHMTNLGAGMPVGSSETSGPPSAASSV-PVRERDSSSRQLMPPPCA 476
Cdd:PHA03247 2695 LTSLADPPPPPP------TPEPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPAtPGGPARPARPPTTAGPPA 2768

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688593195  477 PAllkplrPLKADESPSAPSLLEPQVKRMRTGLVAY--AGDSSDEEEDHGPSRAAVTAAGNAGAGWNPyrcPPSP-PHRP 553
Cdd:PHA03247 2769 PA------PPAAPAAGPPRRLTRPAVASLSESRESLpsPWDPADPPAAVLAPAAALPPAASPAGPLPP---PTSAqPTAP 2839

                         250
                  ....*....|....*....
gi 688593195  554 KTQTAPQPTQQNMPFWMAP 572
Cdd:PHA03247 2840 PPPPGPPPPSLPLGGSVAP 2858
 
Name Accession Description Interval E-value
KH-I_KHDC4_rpt2 cd22386
first type I K homology (KH) RNA-binding domain found in KH homology domain-containing protein ...
 205-306 3.57e-57

first type I K homology (KH) RNA-binding domain found in KH homology domain-containing protein 4 (KHDC4) and similar proteins; KHDC4, also called Brings lots of money 7 (Blom7), or pre-mRNA splicing factor protein KHDC4, is an RNA-binding protein involved in pre-mRNA splicing. It interacts with the PRP19C/Prp19 complex/NTC/Nineteen complex which is part of the spliceosome. KHDC4 binds preferentially RNA with A/C rich sequences and poly-C stretches. KHDC4 contains two type I K homology (KH) RNA-binding domains. The model corresponds to the second one.


Pssm-ID: 411814 [Multi-domain]  Cd Length: 102  Bit Score: 186.61  E-value: 3.57e-57
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688593195 205 HYVQDKVFVGLDQALQGFNVKERVEGPSCSFLQHIQAETGAKVFLRGKGSGCLEPASGREAFEPMYIYISHPKPEGLASA 284
Cdd:cd22386    1 KYYQEKVFVGLEHAPPGFNVRGKLIGPGGSNVKHIQQETGAKVQLRGKGSGFIEPASGREADEPLHLLISHPDPEGLQQA 80

                         90       100
                 ....*....|....*....|..
gi 688593195 285 KTLCENLLQTVHAEYSRYLNQM 306
Cdd:cd22386   81 KKLCEDLLQTVHQEYGEFQQQP 102
KH-I_KHDC4_rpt1 cd22385
first type I K homology (KH) RNA-binding domain found in KH homology domain-containing protein ...
 77-160 1.56e-45

first type I K homology (KH) RNA-binding domain found in KH homology domain-containing protein 4 (KHDC4) and similar proteins; KHDC4, also called Brings lots of money 7 (Blom7), or pre-mRNA splicing factor protein KHDC4, is an RNA-binding protein involved in pre-mRNA splicing. It interacts with the PRP19C/Prp19 complex/NTC/Nineteen complex which is part of the spliceosome. KHDC4 binds preferentially RNA with A/C rich sequences and poly-C stretches. KHDC4 contains two type I K homology (KH) RNA-binding domains. The model corresponds to the first one. The KH1 domain is a divergent KH domain that lacks the RNA-binding GXXG motif.


Pssm-ID: 411813  Cd Length: 84  Bit Score: 155.06  E-value: 1.56e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688593195  77 KDDLVVAEVEINDVPLTCRNLLTRGQTQDEISRVSGAAVSTRGRFMTVEEKSKALPSDRPLYLHVQGQTRDLVDKAVNRI 156
Cdd:cd22385    1 GDDLYVAEIEINDLPNTCRNLLTKGSTQEEIQKESGAAVSTRGRYMPPEEKATFNPGERPLYLHVQAPTKEAVDRAVNKI 80


                 ....
gi 688593195 157 KEII 160
Cdd:cd22385   81 NEII 84
KH-I_RIK_like_rpt2 cd22472
second type I K homology (KH) RNA-binding domain found in Arabidopsis thaliana protein RIK and ...
 211-301 3.72e-18

second type I K homology (KH) RNA-binding domain found in Arabidopsis thaliana protein RIK and similar proteins; RIK, also called rough sheath 2-interacting KH domain protein, or RS2-interacting KH domain protein, is a RNA binding protein that acts together with RS2/AS1 in the recruitment of HIRA. RIK contains two type I K homology (KH) RNA-binding domains. The model corresponds to the second one.


Pssm-ID: 411900  Cd Length: 96  Bit Score: 79.80  E-value: 3.72e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688593195 211 VFVGLDQAlQGFNVKERVEGPSCSFLQHIQAETGAKVFLRGKGSGCLEpasgrEAFEPMYIYISHPKPEGLASAKTLCEN 290
Cdd:cd22472    7 LYVGIEAP-PSFNLAGRIRGPNNSYLQHIASATGATVALRGRGSGGAP-----EGPEPLHLFLSASDPKALEEARGLAEN 80

                         90
                 ....*....|.
gi 688593195 291 LLQTVHAEYSR 301
Cdd:cd22472   81 LIDTVRADFKA 91
KH-I_DDX46_like cd22387
type I K homology (KH) RNA-binding domain found in the family of DEAD box protein 46 (DDX46); ...
 77-160 7.78e-13

type I K homology (KH) RNA-binding domain found in the family of DEAD box protein 46 (DDX46); The DDX46 family includes DEAD box protein 46 (DDX46), fungal pre-mRNA-processing ATP-dependent RNA helicase PRP5, Arabidopsis thaliana DEAD-box ATP-dependent RNA helicase RH42 and similar proteins. DDX46, also called PRP5 homolog, is an ATP-dependent RNA helicase that plays an essential role in splicing, either prior to, or during splicing A complex formation. It inhibits antiviral innate responses by entrapping selected antiviral transcripts in the nucleus. It is also involved in the development of several tumors. PRP5 is an ATP-dependent RNA helicase involved spliceosome assembly and in nuclear splicing. It catalyzes an ATP-dependent conformational change of U2 snRNP. PRP5 interacts with the U2 snRNP and HSH155. RH42, also called DEAD-box RNA helicase RCF1, or REGULATOR OF CBF GENE EXPRESSION 1, is a helicase required for pre-mRNA splicing, cold-responsive gene regulation and cold tolerance. Members in this family contain a divergent KH domain that lacks the RNA-binding GXXG motif.


Pssm-ID: 411815  Cd Length: 82  Bit Score: 64.22  E-value: 7.78e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688593195  77 KDDLVVAEVEINDVPLTCRNLLTRGQTQDEISRVSGAAVSTRGRFmtVEEKSKALPSDRPLYLHVQGQTRDLVDKAVNRI 156
Cdd:cd22387    1 NNGNFVEEFEINDYPQIARLKVTSKEVLNSIMEETGATITIKGQY--YPPGKKPKPGERKLYLLIEGATEESVQSARNEI 78


                 ....
gi 688593195 157 KEII 160
Cdd:cd22387   79 KRVL 82
KH-I_AtRH42_like cd22475
type I K homology (KH) RNA-binding domain found in Arabidopsis thaliana DEAD-box ATP-dependent ...
 83-160 4.56e-12

type I K homology (KH) RNA-binding domain found in Arabidopsis thaliana DEAD-box ATP-dependent RNA helicase RH42 and similar proteins; RH42, also called DEAD-box RNA helicase RCF1, or REGULATOR OF CBF GENE EXPRESSION 1, is a helicase required for pre-mRNA splicing, cold-responsive gene regulation and cold tolerance. Members in this subfamily contain a divergent KH domain that lacks the RNA-binding GXXG motif.


Pssm-ID: 411903  Cd Length: 102  Bit Score: 62.41  E-value: 4.56e-12
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 688593195  83 AEVEINDVPLTCRNLLTRGQTQDEISRVSGAAVSTRGRFmtVEEKSKALPSDRPLYLHVQGQTRDLVDKAVNRIKEII 160
Cdd:cd22475    7 EELEINDFPQHARWKVTHKDTLGQISELTGAAITTRGQY--YPPGRIPGPGERKLYLLIEGPSEASVKEAKAEIKRIL 82
KH-I_RIK_like_rpt1 cd22471
first type I K homology (KH) RNA-binding domain found in Arabidopsis thaliana protein RIK and ...
 84-160 1.00e-11

first type I K homology (KH) RNA-binding domain found in Arabidopsis thaliana protein RIK and similar proteins; RIK, also called rough sheath 2-interacting KH domain protein, or RS2-interacting KH domain protein, is a RNA binding protein that acts together with RS2/AS1 in the recruitment of HIRA. RIK contains two type I K homology (KH) RNA-binding domains. The model corresponds to the first one. The KH1 domain is a divergent KH domain that lacks the RNA-binding GXXG motif.


Pssm-ID: 411899  Cd Length: 91  Bit Score: 61.33  E-value: 1.00e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688593195  84 EVEINDVPLTCRNLLTRGQTQDEISRVSGAAVSTRGRFMtvEEKSKALPSDRPLYLHV----QGQTRDL-----VDKAVN 154
Cdd:cd22471    8 EIVINDAPPSVRHHLTKRSTQDEIQSKTGVVVVTRGRYY--PPGTPPPDNEKPLYLHItagaQLPPDDAerqkaVDAAAA 85


                 ....*.
gi 688593195 155 RIKEII 160
Cdd:cd22471   86 DIQAML 91
KH-I_DDX46 cd22473
type I K homology (KH) RNA-binding domain found in DEAD box protein 46 (DDX46) and similar ...
 84-169 1.64e-08

type I K homology (KH) RNA-binding domain found in DEAD box protein 46 (DDX46) and similar proteins; DDX46, also called PRP5 homolog, is an ATP-dependent RNA helicase that plays an essential role in splicing, either prior to, or during splicing A complex formation. It inhibits antiviral innate responses by entrapping selected antiviral transcripts in the nucleus. It is also involved in the development of several tumors. Members in this subfamily contain a divergent KH domain that lacks the RNA-binding GXXG motif.


Pssm-ID: 411901  Cd Length: 103  Bit Score: 52.32  E-value: 1.64e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688593195  84 EVEINDVPLTCRNLLTRGQTQDEISRVSGAAVSTRGRFMTVEEKSKAlpSDRPLYLHVQGQTRDLVDKAVNRIKEIITNG 163
Cdd:cd22473    8 ELEINDFPQTARWKVTSKEALAQISEYSEAGITVRGTYFPPGKEPKE--GERKLYLAIEAASERAVQKAKAEITRLIKEE 85


                 ....*.
gi 688593195 164 VVKAAT 169
Cdd:cd22473   86 LLRLQA 91
KH-I_PRP5_like cd22474
type I K homology (KH) RNA-binding domain found in fungal pre-mRNA-processing ATP-dependent ...
 82-165 1.08e-06

type I K homology (KH) RNA-binding domain found in fungal pre-mRNA-processing ATP-dependent RNA helicase PRP5 and similar proteins; PRP5 is an ATP-dependent RNA helicase involved spliceosome assembly and in nuclear splicing. It catalyzes an ATP-dependent conformational change of U2 snRNP. PRP5 interacts with the U2 snRNP and HSH155. Members in this subfamily contain a divergent KH domain that lacks the RNA-binding GXXG motif.


Pssm-ID: 411902  Cd Length: 89  Bit Score: 46.94  E-value: 1.08e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688593195  82 VAEVEINDVPLTCRNLLTRGQTQDEISRVSGAAVSTRGRFMTVEEKSKALPSDRPLYLHVQGQTRDLVDKAVNRIKEIIT 161
Cdd:cd22474    6 HAKVEINDLPQKARWEATNNTSLSKIIEETGCSITNKGNFYPPGKEPQPNNDEPKLYLLIEGTTEKAVRLAIELLRRKLV 85


                 ....
gi 688593195 162 NGVV 165
Cdd:cd22474   86 EGVV 89
KH-I_BBP cd02395
type I K homology (KH) RNA-binding domain found in yeast branchpoint-bridging protein (BBP) ...
 208-293 1.58e-05

type I K homology (KH) RNA-binding domain found in yeast branchpoint-bridging protein (BBP) and similar proteins; Yeast BBP, also called mud synthetic-lethal 5 protein, or splicing factor 1, or zinc finger protein BBP, is a mammalian splicing factor SF1 ortholog. It is involved in protein-protein interactions that bridge the 3' and 5' splice-site ends of the intron during the early steps of yeast pre-mRNA splicing. BBP interacts specifically with the pre-mRNA branchpoint sequence UACUAAC.


Pssm-ID: 411805 [Multi-domain]  Cd Length: 92  Bit Score: 43.74  E-value: 1.58e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688593195 208 QDKVFVGLDQALqGFNVKERVEGPSCSFLQHIQAETGAKVFLRGKGS-----GCLEPASGREAFEPMYIYISHPKPEGLA 282
Cdd:cd02395    3 QRKIYIPVDEYP-DYNFIGLIIGPRGNTQKRMEKESGAKIAIRGKGSvkegkGRSDPQPDPDEEEDLHVLITADTEEKVD 81

                         90
                 ....*....|.
gi 688593195 283 SAKTLCENLLQ 293
Cdd:cd02395   82 KAAKLIEKLLI 92
PHA03247 PHA03247
large tegument protein UL36; Provisional
 318-572 1.42e-04

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 44.93  E-value: 1.42e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688593195  318 PPVVNGLPPQPPYYSPAGFQpsyPAPVPPPPPPIAPQYPVAPVAPAPVPPPNAQYPITPVPAHVPTQTLLPAAFPPTAPV 397
Cdd:PHA03247 2618 PPDTHAPDPPPPSPSPAANE---PDPHPPPTVPPPERPRDDPAPGRVSRPRRARRLGRAAQASSPPQRPRRRAARPTVGS 2694

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688593195  398 PPKLTAPPNPPQkrrfteEVDEMDRGLLGYQHGPIHMTNLGAGMPVGSSETSGPPSAASSV-PVRERDSSSRQLMPPPCA 476
Cdd:PHA03247 2695 LTSLADPPPPPP------TPEPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPAtPGGPARPARPPTTAGPPA 2768

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688593195  477 PAllkplrPLKADESPSAPSLLEPQVKRMRTGLVAY--AGDSSDEEEDHGPSRAAVTAAGNAGAGWNPyrcPPSP-PHRP 553
Cdd:PHA03247 2769 PA------PPAAPAAGPPRRLTRPAVASLSESRESLpsPWDPADPPAAVLAPAAALPPAASPAGPLPP---PTSAqPTAP 2839

                         250
                  ....*....|....*....
gi 688593195  554 KTQTAPQPTQQNMPFWMAP 572
Cdd:PHA03247 2840 PPPPGPPPPSLPLGGSVAP 2858
KH-I_BBP cd02395
type I K homology (KH) RNA-binding domain found in yeast branchpoint-bridging protein (BBP) ...
 100-160 1.64e-04

type I K homology (KH) RNA-binding domain found in yeast branchpoint-bridging protein (BBP) and similar proteins; Yeast BBP, also called mud synthetic-lethal 5 protein, or splicing factor 1, or zinc finger protein BBP, is a mammalian splicing factor SF1 ortholog. It is involved in protein-protein interactions that bridge the 3' and 5' splice-site ends of the intron during the early steps of yeast pre-mRNA splicing. BBP interacts specifically with the pre-mRNA branchpoint sequence UACUAAC.


Pssm-ID: 411805 [Multi-domain]  Cd Length: 92  Bit Score: 40.66  E-value: 1.64e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 688593195 100 RGQTQDEISRVSGAAVSTRGRFMTVEEKSKALPS-----DRPLYLHVQGQTRDLVDKAVNRIKEII 160
Cdd:cd02395   26 RGNTQKRMEKESGAKIAIRGKGSVKEGKGRSDPQpdpdeEEDLHVLITADTEEKVDKAAKLIEKLL 91
KH-I_SF1 cd22382
type I K homology (KH) RNA-binding domain found in splicing factor 1 (SF1) and similar ...
 100-160 1.66e-04

type I K homology (KH) RNA-binding domain found in splicing factor 1 (SF1) and similar proteins; SF1, also called branch point-binding protein, or BBP, or transcription factor ZFM1, or zinc finger gene in MEN1 locus, or zinc finger protein 162, is necessary for the ATP-dependent first step of spliceosome assembly. Binds to the intron branch point sequence (BPS) 5'-UACUAAC-3' of the pre-mRNA. It may act as transcription repressor.


Pssm-ID: 411810 [Multi-domain]  Cd Length: 93  Bit Score: 40.75  E-value: 1.66e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 688593195 100 RGQTQDEISRVSGAAVSTRGRFMTVEEK-----SKALPS-DRPLYLHVQGQTRDLVDKAVNRIKEII 160
Cdd:cd22382   26 RGNTLKKIEKETGAKIMIRGKGSVKEGKvgrkdGQPLPGeDEPLHALVTANTAESVKKAVDKIKEII 92
KH-I_SF1 cd22382
type I K homology (KH) RNA-binding domain found in splicing factor 1 (SF1) and similar ...
 207-284 5.78e-04

type I K homology (KH) RNA-binding domain found in splicing factor 1 (SF1) and similar proteins; SF1, also called branch point-binding protein, or BBP, or transcription factor ZFM1, or zinc finger gene in MEN1 locus, or zinc finger protein 162, is necessary for the ATP-dependent first step of spliceosome assembly. Binds to the intron branch point sequence (BPS) 5'-UACUAAC-3' of the pre-mRNA. It may act as transcription repressor.


Pssm-ID: 411810 [Multi-domain]  Cd Length: 93  Bit Score: 39.21  E-value: 5.78e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688593195 207 VQDKVFVGLDQALQgFNVKERVEGPSCSFLQHIQAETGAKVFLRGKGS--------GCLEPASGREafEPMYIYISHPKP 278
Cdd:cd22382    2 VSDKVMIPQEEYPD-INFVGLLIGPRGNTLKKIEKETGAKIMIRGKGSvkegkvgrKDGQPLPGED--EPLHALVTANTA 78


                 ....*.
gi 688593195 279 EGLASA 284
Cdd:cd22382   79 ESVKKA 84
PHA03247 PHA03247
large tegument protein UL36; Provisional
 373-572 5.82e-04

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 43.00  E-value: 5.82e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688593195  373 PITPVPAHVPTQTLLPAAfPPTAPVPPKLTAPPNPPQKRrfteevdemdrgllGYQHGPIHMTNLGAGMPVGSSETSGP- 451
Cdd:PHA03247 2736 PAAPAPPAVPAGPATPGG-PARPARPPTTAGPPAPAPPA--------------APAAGPPRRLTRPAVASLSESRESLPs 2800

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688593195  452 PSAASSVPVRErdSSSRQLMPPPCAPALLKPLRPLKADESPSAPSLLEPQVKRMrTGLVAYAGDSSDEeedhGPSRAAVT 531
Cdd:PHA03247 2801 PWDPADPPAAV--LAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGPPPPSLPL-GGSVAPGGDVRRR----PPSRSPAA 2873

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....
gi 688593195  532 -------------AAGNAGAGWNPYRCPPSPPHRPKTQTAPQPTQQNMPFWMAP 572
Cdd:PHA03247 2874 kpaaparppvrrlARPAVSRSTESFALPPDQPERPPQPQAPPPPQPQPQPPPPP 2927
PHA03249 PHA03249
DNA packaging tegument protein UL25; Provisional
 408-528 3.15e-03

DNA packaging tegument protein UL25; Provisional


Pssm-ID: 223023  Cd Length: 653  Bit Score: 40.38  E-value: 3.15e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688593195 408 PQKRRFTEEVDEMDRGLLGYQHGPIHMTNL----------GAGMPVGSSETSGPPSAASSVPVRERDSSSRQ----LMPP 473
Cdd:PHA03249  33 PRPRAPTEDLDRMEAGLSSYSSSSDNKSSFevvsetdsgsEAEAERGRRAGMGGRNKATKPSRRNKTTQCRPtslaLATA 112

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 688593195 474 PCAPALLKPLRPLKADESPSAPSLLEPQVKRMR------TGLVAYAGDSSDEEEDHGPSRA 528
Cdd:PHA03249 113 ATMPATPSSGKSPKVSSPPSIPSLSEEDEGAERnsggddSSHTDNESTQSQPEADDEPDLA 173
KH-I_Hqk_like cd22383
type I K homology (KH) RNA-binding domain found in protein quaking (Hqk) family; The Hqk ...
 207-254 3.85e-03

type I K homology (KH) RNA-binding domain found in protein quaking (Hqk) family; The Hqk family includes Hqk and protein held out wings (how) found in Drosophila. Hqk, also called HqkI, is an RNA-binding protein that plays a central role in myelinization. It binds to the 5'-NACUAAY-N(1,20)-UAAY-3' RNA core sequence and regulates target mRNA stability. It acts by regulating pre-mRNA splicing, mRNA export and protein translation. Hqk is a regulator of oligodendrocyte differentiation and maturation in the brain that may play a role in myelin and oligodendrocyte dysfunction in schizophrenia. How, also called KH domain protein KH93F, or protein muscle-specific, or protein Struthio, or protein wings held out (who), or Quaking-related 93F (qkr93F), is an RNA-binding protein involved in the control of muscular and cardiac activity. It is required for integrin-mediated cell-adhesion in wing blade. It plays essential roles during embryogenesis, in late stages of somatic muscle development, for myotube migration and during metamorphosis for muscle reorganization.


Pssm-ID: 411811 [Multi-domain]  Cd Length: 101  Bit Score: 36.95  E-value: 3.85e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 688593195 207 VQDKVFVGLDQaLQGFNVKERVEGPSCSFLQHIQAETGAKVFLRGKGS 254
Cdd:cd22383    2 LSEKVYVPVDE-YPDYNFVGRILGPRGMTAKQLEQDTGCKIMIRGKGS 48
PHA03378 PHA03378
EBNA-3B; Provisional
 373-567 9.09e-03

EBNA-3B; Provisional


Pssm-ID: 223065 [Multi-domain]  Cd Length: 991  Bit Score: 38.89  E-value: 9.09e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688593195 373 PITPVPAHvptqtllPAAFPPTAPVPPKLTAPPNPPQKRRFTEEVDEMDRGLLGYQHGPihmTNLGAGMPVGSSETSGPP 452
Cdd:PHA03378 627 PLRPIPMR-------PLRMQPITFNVLVFPTPHQPPQVEITPYKPTWTQIGHIPYQPSP---TGANTMLPIQWAPGTMQP 696

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688593195 453 SAASSVPVRERDSSSRQLMPPPCAPALLKPLR--PLKADESPSAPSLLEPQVkrmrtglvAYAGDSSDEEEDHGPSRAAV 530
Cdd:PHA03378 697 PPRAPTPMRPPAAPPGRAQRPAAATGRARPPAaaPGRARPPAAAPGRARPPA--------AAPGRARPPAAAPGRARPPA 768

                        170       180       190
                 ....*....|....*....|....*....|....*..
gi 688593195 531 TAAGnAGAGWNPYRCPPSPPHRPKTQTAPQPTQQNMP 567
Cdd:PHA03378 769 AAPG-APTPQPPPQAPPAPQQRPRGAPTPQPPPQAGP 804
 
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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