|
Name |
Accession |
Description |
Interval |
E-value |
| RNB |
pfam00773 |
RNB domain; This domain is the catalytic domain of ribonuclease II. |
176-507 |
3.47e-130 |
|
RNB domain; This domain is the catalytic domain of ribonuclease II.
:
Pssm-ID: 459934 [Multi-domain] Cd Length: 314 Bit Score: 385.48 E-value: 3.47e-130
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 176 RKDLRDKLICSIDPPGCVDIDDALHAKKLPNGNWEVGVHIADVTHFVKPGTALDAEGAARGTSVYLVDKRIDMLPMLLGT 255
Cdd:pfam00773 1 RKDLRDLPFITIDPADAKDLDDAISVEKLPNGGYRLGVHIADVSHYVPPGSPLDREARKRGTSVYLPDRVIPMLPEKLSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 256 DLCSLKPYVDRFAFSVIWELDDSANIVNVNFMKSVIRSREAFSYEQAQLRIDDKTQNDE---LTMGMRALLKLSVKLKQK 332
Cdd:pfam00773 81 DLCSLNPGEDRLALSVEITIDADGEVTSYEIYPSVIRSKARLTYEEVDDLLEGKDAEKDkpdLAEDLRLLYELAKILRAK 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 333 RLEAGALNLASPEVKVHMDSETsdPNEVEIKKLLATNSLVEEFMLLANISVARKIYdAFPQTAMLRRHAAPPSTNFEILN 412
Cdd:pfam00773 161 RLQRGALDLDTPENKLILDEEG--VIDILIQERTDAHSLIEEFMLLANEAVARHLQ-ELGIPALYRVHPEPDLEKLNSLI 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 413 EMLNTRKnmsisleSSKALADSLDRCVDPEDpyfntLVRIMSTRCMMAAQyfysgaYSYPDFRHYGLAVDIYTHFTSPIR 492
Cdd:pfam00773 238 KLLQLLP-------DDKGLSKSLEKIKDDER-----LLSILLLRTMPRAE------YSPEPLGHFGLGLDIYTHFTSPIR 299
|
330
....*....|....*
gi 1139709015 493 RYCDVVAHRQLAGAI 507
Cdd:pfam00773 300 RYPDLIVHRQLKALL 314
|
|
| Rrp44_S1 |
pfam17215 |
S1 domain; This domain corresponds to the S1 domain found at the C-terminus of ribonucleases ... |
557-643 |
2.25e-45 |
|
S1 domain; This domain corresponds to the S1 domain found at the C-terminus of ribonucleases such as yeast Rrp44.
:
Pssm-ID: 435792 Cd Length: 87 Bit Score: 155.77 E-value: 2.25e-45
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 557 STETGYVIKVFNNGIVVLVPKFGVEGLIRLDNLTEDPNSAAFDEVEYKLTFVPTNSDKPRDVYVFDKVEVQVRSVMDPIT 636
Cdd:pfam17215 1 SEEEGYVIKVFNNGIVVFVPKFGIEGLIRLEDLTGDEPEAEFDADEYSLTFPDKGSGKKRTVGVFDKVRVRVKSVKDENT 80
|
....*..
gi 1139709015 637 SKRKAEL 643
Cdd:pfam17215 81 GKRKVKL 87
|
|
| Rrp44_CSD1 super family |
cl28867 |
Rrp44-like cold shock domain; |
3-44 |
3.65e-20 |
|
Rrp44-like cold shock domain;
The actual alignment was detected with superfamily member pfam17216:
Pssm-ID: 375054 Cd Length: 148 Bit Score: 87.52 E-value: 3.65e-20
10 20 30 40
....*....|....*....|....*....|....*....|..
gi 1139709015 3 SSSNTTVISDKQRRLLAKDAMIAQRSKKIQPTAKVVYIQRRS 44
Cdd:pfam17216 107 SSSNTTVISDKQRRLLAKDAMIAQRSKKIQPTAKVVYIQRRS 148
|
|
| OB_Dis3 |
pfam17849 |
Dis3-like cold-shock domain 2 (CSD2); This domain has an OB fold and is found in the Dis3l2 ... |
66-134 |
7.01e-19 |
|
Dis3-like cold-shock domain 2 (CSD2); This domain has an OB fold and is found in the Dis3l2 protein. This domain along with CSD1 binds to RNA.
:
Pssm-ID: 436091 [Multi-domain] Cd Length: 77 Bit Score: 81.12 E-value: 7.01e-19
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1139709015 66 NVFVILMDKCLPKVRIRTRRA--------AELLDKRIVISIDSWPTTHKYPLGHFVRDLGTIESAQAETEALLLEHD 134
Cdd:pfam17849 1 YVLFVPRDKRIPRIRIPTKSApeeflenpEDLEGKLFVVKIDDWPENSRYPLGHIVKVLGEIGDIETETEAILLENG 77
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| RNB |
pfam00773 |
RNB domain; This domain is the catalytic domain of ribonuclease II. |
176-507 |
3.47e-130 |
|
RNB domain; This domain is the catalytic domain of ribonuclease II.
Pssm-ID: 459934 [Multi-domain] Cd Length: 314 Bit Score: 385.48 E-value: 3.47e-130
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 176 RKDLRDKLICSIDPPGCVDIDDALHAKKLPNGNWEVGVHIADVTHFVKPGTALDAEGAARGTSVYLVDKRIDMLPMLLGT 255
Cdd:pfam00773 1 RKDLRDLPFITIDPADAKDLDDAISVEKLPNGGYRLGVHIADVSHYVPPGSPLDREARKRGTSVYLPDRVIPMLPEKLSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 256 DLCSLKPYVDRFAFSVIWELDDSANIVNVNFMKSVIRSREAFSYEQAQLRIDDKTQNDE---LTMGMRALLKLSVKLKQK 332
Cdd:pfam00773 81 DLCSLNPGEDRLALSVEITIDADGEVTSYEIYPSVIRSKARLTYEEVDDLLEGKDAEKDkpdLAEDLRLLYELAKILRAK 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 333 RLEAGALNLASPEVKVHMDSETsdPNEVEIKKLLATNSLVEEFMLLANISVARKIYdAFPQTAMLRRHAAPPSTNFEILN 412
Cdd:pfam00773 161 RLQRGALDLDTPENKLILDEEG--VIDILIQERTDAHSLIEEFMLLANEAVARHLQ-ELGIPALYRVHPEPDLEKLNSLI 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 413 EMLNTRKnmsisleSSKALADSLDRCVDPEDpyfntLVRIMSTRCMMAAQyfysgaYSYPDFRHYGLAVDIYTHFTSPIR 492
Cdd:pfam00773 238 KLLQLLP-------DDKGLSKSLEKIKDDER-----LLSILLLRTMPRAE------YSPEPLGHFGLGLDIYTHFTSPIR 299
|
330
....*....|....*
gi 1139709015 493 RYCDVVAHRQLAGAI 507
Cdd:pfam00773 300 RYPDLIVHRQLKALL 314
|
|
| VacB |
COG0557 |
Exoribonuclease R [Transcription]; |
22-645 |
3.02e-123 |
|
Exoribonuclease R [Transcription];
Pssm-ID: 440323 [Multi-domain] Cd Length: 711 Bit Score: 381.38 E-value: 3.02e-123
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 22 AMIAQRSKKIQPTAKVVYIQRRSWRQYVGQLapssvdpQSSSTQnVFVILMDKCLPK-VRIRTRRAAELLDKRIVI-SID 99
Cdd:COG0557 111 VRVTKEDRRGRPEGRVVEILERANTRVVGRF-------EKEKGF-GFVVPDDKRLLQdIFIPPDDLNGAKDGDLVVvEIT 182
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 100 SWPTTHKYPLGHFVRDLGTIESAQAETEALLLEHDVEYRpFSKKVLEclPAEghdwKAPTKLDDPEavskdplLTKRKDL 179
Cdd:COG0557 183 RYPERRGPPEGRVVEVLGSPGDPGAEILIAIRKHGLPHE-FPEEVLA--EAE----ALPDEVPEAD-------LKGRRDL 248
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 180 RDKLICSIDPPGCVDIDDALHAKKLPNGNWEVGVHIADVTHFVKPGTALDAEGAARGTSVYLVDKRIDMLPMLLGTDLCS 259
Cdd:COG0557 249 RDLPLVTIDGEDAKDFDDAVSAEKLDNGGWRLGVHIADVSHYVRPGSALDREARKRGTSVYLPDRVIPMLPERLSNGLCS 328
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 260 LKPYVDRFAFSVIWELDDSANIVNVNFMKSVIRSREAFSYEQAQLRIDDK----TQNDELTMGM-RALLKLSVKLKQKRL 334
Cdd:COG0557 329 LNPGEDRLAMSCEMEIDAKGEVVSYEFYRSVIRSDARLTYEEVQAILDGKdeelREEYADLVPMlEELYELAKILRKARE 408
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 335 EAGALNLASPEVKVHMDsETSDPNEVEIKKLLATNSLVEEFMLLANISVARKIYDAfPQTAMLRRHAAPPSTNFEILNEM 414
Cdd:COG0557 409 KRGAIDFDLPETKIILD-EEGKPEDIVPRERNDAHKLIEEFMLLANEAVAEFLEKL-KLPFLYRVHEEPDPEKLEALREF 486
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 415 LntrKNMSISLE-----SSKALADSLDRCVD-PEDPYFNTLVRimstRCMMAAQYfysGAYSYPdfrHYGLAVDIYTHFT 488
Cdd:COG0557 487 L---ANLGLKLKggdepTPKDLQKLLEQVKGrPEEELLNTLLL----RSMKQAVY---SPENIG---HFGLALEAYTHFT 553
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 489 SPIRRYCDVVAHRQLAGAI-GYEPLSLTHRDKNKMDMICRNINRKHRNAQFAGRASIEYY--------VGQVMrnneste 559
Cdd:COG0557 554 SPIRRYPDLLVHRALKAYLeGKRSPGLQEYLEEELEEIAEHCSETERRADEAERDVVDLKkaeymkdrVGEEF------- 626
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 560 TGYVIKVFNNGIVVLVPKFGVEGLIRLDNLTEDPNSaaFDEVEYKLtfVPTNSDKprdVYVF-DKVEVQVRSVmDPITsk 638
Cdd:COG0557 627 EGVISGVTSFGLFVELDELGVEGLVHVSSLGDDYYE--YDERRQAL--VGERTGK---RYRLgDRVEVRVVRV-DLDR-- 696
|
....*..
gi 1139709015 639 RKAELLL 645
Cdd:COG0557 697 RQIDFEL 703
|
|
| RNB |
smart00955 |
This domain is the catalytic domain of ribonuclease II; |
176-508 |
6.04e-105 |
|
This domain is the catalytic domain of ribonuclease II;
Pssm-ID: 214935 [Multi-domain] Cd Length: 286 Bit Score: 319.60 E-value: 6.04e-105
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 176 RKDLRDKLICSIDPPGCVDIDDALHAKKLPNGNWEVGVHIADVTHFVKPGTALDAEGAARGTSVYLVDKRIDMLPMLLGT 255
Cdd:smart00955 1 RVDLRDLPLFTIDPEDAKDIDDAVSVEKLDNGGYRLGVHIADVSHYVKPGSALDREARKRGTSVYLPDRVIPMLPEELSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 256 DLCSLKPYVDRFAFSVIWELD-DSANIVNVNFMKSVIRSREAFSYEQAQLRIDdktqndeltmgmrallklsvklkqkrl 334
Cdd:smart00955 81 GLCSLNPGEDRLALSVEMTLDaDGGEILDYEFYRSVIRSKARLTYEEVDAILE--------------------------- 133
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 335 eagalnlaspevKVHMDSETSdPNEVEIKKLLATNSLVEEFMLLANISVARKIYDAFPQtAMLRRHAAP-PSTNFEILNE 413
Cdd:smart00955 134 ------------KIVLDEEGK-IEDIVPRERNDAHSLVEEFMILANEAVARFLAKNGIP-GLYRVHEGPdPEKLAELLKE 199
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 414 MLNTRKNMSISLESSKALADSLDRCVDPEDpyfNTLVRIMSTRCMMAAQYFYSGAysypdfRHYGLAVDIYTHFTSPIRR 493
Cdd:smart00955 200 FLALLGLLLLGGDGPKALAKLLEKIRDSPE---ERLLELLLLRSMPHAEYSVDNS------GHFGLALDAYTHFTSPIRR 270
|
330
....*....|....*
gi 1139709015 494 YCDVVAHRQLAGAIG 508
Cdd:smart00955 271 YPDLIVHRQLKAALR 285
|
|
| RNase_R |
TIGR02063 |
ribonuclease R; This family consists of an exoribonuclease, ribonuclease R, also called VacB. ... |
29-638 |
1.04e-101 |
|
ribonuclease R; This family consists of an exoribonuclease, ribonuclease R, also called VacB. It is one of the eight exoribonucleases reported in E. coli and is broadly distributed throughout the bacteria. In E. coli, double mutants of this protein and polynucleotide phosphorylase are not viable. Scoring between trusted and noise cutoffs to the model are shorter, divergent forms from the Chlamydiae, and divergent forms from the Campylobacterales (including Helicobacter pylori) and Leptospira interrogans. [Transcription, Degradation of RNA]
Pssm-ID: 273947 [Multi-domain] Cd Length: 709 Bit Score: 325.38 E-value: 1.04e-101
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 29 KKIQPTAKVVYIQRRSWRQYVGQLapssvdpqSSSTQNVFVILMDKCLP-KVRIRTRRAAELLDKRIVI-SIDSWPTTHK 106
Cdd:TIGR02063 119 GGDRFEARVIKILERANDQIVGTF--------YIENGIGFVIPDDKRIYlDIFIPPEQILGAEEGDKVLvEITKYPDRNR 190
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 107 YPLGHFVRDLGTIESAQAETEALLLEHDVEYRpFSKKVLEclPAEghdwKAPTKLDDPEavskdplLTKRKDLRDKLICS 186
Cdd:TIGR02063 191 PAIGKVVEILGHADDPGIDILIIIRKHGIPYE-FPEEVLD--EAA----KIPEEVPEEE-------IKGRKDLRDLPFVT 256
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 187 IDPPGCVDIDDALHAKKLPNGNWEVGVHIADVTHFVKPGTALDAEGAARGTSVYLVDKRIDMLPMLLGTDLCSLKPYVDR 266
Cdd:TIGR02063 257 IDGEDAKDFDDAVYVEKLKDGNYKLGVAIADVSHYVREGSALDKEALKRGTSVYLPDRVIPMLPERLSNGICSLNPNEDR 336
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 267 FAFSVIWELDDSANIVNVNFMKSVIRSREAFSYEQAQLRIDDKTQNDELTMGM----RALLKLSVKLKQKRLEAGALNLA 342
Cdd:TIGR02063 337 LTLSCEMEIDKKGRVKKYEFYEAVINSHARLTYNQVNDIIEGKDALDKKEPPLkemlKNLFELYKILRKKRKKRGAIDFD 416
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 343 SPEVKVHMDsETSDPNEVEIKKLLATNSLVEEFMLLANISVARKIyDAFPQTAMLRRHAAPPSTNFEILNEMLntrKNMS 422
Cdd:TIGR02063 417 SKEAKIILD-ENGKPIDIVPRERGDAHKLIEEFMIAANETVAEHL-EKAKLPFIYRVHERPSEEKLQNLREFL---KTLG 491
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 423 ISLE-------SSKALADSLDRCVD-PEDPyfntLVRIMSTRCMMAAqyFYSgaysyPDFR-HYGLAVDIYTHFTSPIRR 493
Cdd:TIGR02063 492 ITLKggtsdkpQPKDFQKLLEKVKGrPEEE----LINTVLLRSMQQA--KYS-----PENIgHFGLALEYYTHFTSPIRR 560
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 494 YCDVVAHR----QLAGAIGYEPLSLTHRDKNKMDMICRNINRKHRNAQFAGRASIEYYVGQVMRNNestetgyVIKVFnN 569
Cdd:TIGR02063 561 YPDLIVHRlikkALFGGENTTTEKEREYLEAKLEEIAEHSSKTERRADEAERDVNDWKKAEYMSEK-------IGEEF-E 632
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 570 GIVVLVPKFG---------VEGLIRLDNLTEDPNSaaFDEVEYKLTFVPTNSdkprdvyVF---DKVEVQVRSVmDPITS 637
Cdd:TIGR02063 633 GVISGVTSFGlfvelenntIEGLVHISTLKDDYYV--FDEKGLALVGERTGK-------VFrlgDRVKVRVVKA-DLDTG 702
|
.
gi 1139709015 638 K 638
Cdd:TIGR02063 703 K 703
|
|
| Rrp44_S1 |
pfam17215 |
S1 domain; This domain corresponds to the S1 domain found at the C-terminus of ribonucleases ... |
557-643 |
2.25e-45 |
|
S1 domain; This domain corresponds to the S1 domain found at the C-terminus of ribonucleases such as yeast Rrp44.
Pssm-ID: 435792 Cd Length: 87 Bit Score: 155.77 E-value: 2.25e-45
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 557 STETGYVIKVFNNGIVVLVPKFGVEGLIRLDNLTEDPNSAAFDEVEYKLTFVPTNSDKPRDVYVFDKVEVQVRSVMDPIT 636
Cdd:pfam17215 1 SEEEGYVIKVFNNGIVVFVPKFGIEGLIRLEDLTGDEPEAEFDADEYSLTFPDKGSGKKRTVGVFDKVRVRVKSVKDENT 80
|
....*..
gi 1139709015 637 SKRKAEL 643
Cdd:pfam17215 81 GKRKVKL 87
|
|
| PRK11642 |
PRK11642 |
ribonuclease R; |
164-641 |
5.18e-38 |
|
ribonuclease R;
Pssm-ID: 236944 [Multi-domain] Cd Length: 813 Bit Score: 151.05 E-value: 5.18e-38
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 164 PEAVSKDplltkRKDLRDKLICSIDPPGCVDIDDALHAKKLPNGNWEVGVHIADVTHFVKPGTALDAEGAARGTSVYLVD 243
Cdd:PRK11642 253 PEEAKAG-----RVDLRDLPLVTIDGEDARDFDDAVYCEKKRGGGWRLWVAIADVSYYVRPPTPLDREARNRGTSVYFPS 327
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 244 KRIDMLPMLLGTDLCSLKPYVDRfaFSVIWELDDSAN--IVNVNFMKSVIRSREAFSYEQA----QLRIDDKTQNDELTM 317
Cdd:PRK11642 328 QVVPMLPEVLSNGLCSLNPQVDR--LCMVCEMTISSKgrLTGYKFYEAVMSSHARLTYTKVwhilQGDQDLREQYAPLVK 405
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 318 GMRALLKLSVKLKQKRLEAGALNLASPEVKVHMDSETsdpnevEIKKLLAT-----NSLVEEFMLLANISVARKIYDAfP 392
Cdd:PRK11642 406 HLEELHNLYKVLDKAREERGGISFESEEAKFIFNAER------RIERIEQTqrndaHKLIEECMILANISAARFVEKA-K 478
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 393 QTAMLRRHAAPPSTNFEILNEMLNtrkNMSISLESS-----KALADSLDRCVDPEDpyfNTLVRIMSTRCMMAAQYfysg 467
Cdd:PRK11642 479 EPALFRIHDKPSTEAITSFRSVLA---ELGLELPGGnkpepRDYAELLESVADRPD---AEMLQTMLLRSMKQAIY---- 548
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 468 aysYPDFR-HYGLAVDIYTHFTSPIRRYCDVVAHR----QLAGAIGYE----PLSLTHRDKNKMDMICRNINRKHRNAQF 538
Cdd:PRK11642 549 ---DPENRgHFGLALQSYAHFTSPIRRYPDLSLHRaikyLLAKEQGHKgnttETGGYHYSMEEMLQLGQHCSMTERRADE 625
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 539 AGRASIEYYVGQVMRNNestetgyVIKVFnNGIVVLVPKFGVegLIRLDNL---------TEDPNSAAFDEVEYKLTfvp 609
Cdd:PRK11642 626 ATRDVADWLKCDFMLDQ-------VGNVF-KGVISSVTGFGF--FVRLDDLfidglvhvsSLDNDYYRFDQVGQRLI--- 692
|
490 500 510 520
....*....|....*....|....*....|....*....|.
gi 1139709015 610 tnSDKPRDVYVF-DKVEVQVRSV-MDP-------ITSKRKA 641
Cdd:PRK11642 693 --GESSGQTYRLgDRVEVRVEAVnMDErkidfslISSERAP 731
|
|
| Rrp44_CSD1 |
pfam17216 |
Rrp44-like cold shock domain; |
3-44 |
3.65e-20 |
|
Rrp44-like cold shock domain;
Pssm-ID: 375054 Cd Length: 148 Bit Score: 87.52 E-value: 3.65e-20
10 20 30 40
....*....|....*....|....*....|....*....|..
gi 1139709015 3 SSSNTTVISDKQRRLLAKDAMIAQRSKKIQPTAKVVYIQRRS 44
Cdd:pfam17216 107 SSSNTTVISDKQRRLLAKDAMIAQRSKKIQPTAKVVYIQRRS 148
|
|
| OB_Dis3 |
pfam17849 |
Dis3-like cold-shock domain 2 (CSD2); This domain has an OB fold and is found in the Dis3l2 ... |
66-134 |
7.01e-19 |
|
Dis3-like cold-shock domain 2 (CSD2); This domain has an OB fold and is found in the Dis3l2 protein. This domain along with CSD1 binds to RNA.
Pssm-ID: 436091 [Multi-domain] Cd Length: 77 Bit Score: 81.12 E-value: 7.01e-19
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1139709015 66 NVFVILMDKCLPKVRIRTRRA--------AELLDKRIVISIDSWPTTHKYPLGHFVRDLGTIESAQAETEALLLEHD 134
Cdd:pfam17849 1 YVLFVPRDKRIPRIRIPTKSApeeflenpEDLEGKLFVVKIDDWPENSRYPLGHIVKVLGEIGDIETETEAILLENG 77
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| RNB |
pfam00773 |
RNB domain; This domain is the catalytic domain of ribonuclease II. |
176-507 |
3.47e-130 |
|
RNB domain; This domain is the catalytic domain of ribonuclease II.
Pssm-ID: 459934 [Multi-domain] Cd Length: 314 Bit Score: 385.48 E-value: 3.47e-130
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 176 RKDLRDKLICSIDPPGCVDIDDALHAKKLPNGNWEVGVHIADVTHFVKPGTALDAEGAARGTSVYLVDKRIDMLPMLLGT 255
Cdd:pfam00773 1 RKDLRDLPFITIDPADAKDLDDAISVEKLPNGGYRLGVHIADVSHYVPPGSPLDREARKRGTSVYLPDRVIPMLPEKLSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 256 DLCSLKPYVDRFAFSVIWELDDSANIVNVNFMKSVIRSREAFSYEQAQLRIDDKTQNDE---LTMGMRALLKLSVKLKQK 332
Cdd:pfam00773 81 DLCSLNPGEDRLALSVEITIDADGEVTSYEIYPSVIRSKARLTYEEVDDLLEGKDAEKDkpdLAEDLRLLYELAKILRAK 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 333 RLEAGALNLASPEVKVHMDSETsdPNEVEIKKLLATNSLVEEFMLLANISVARKIYdAFPQTAMLRRHAAPPSTNFEILN 412
Cdd:pfam00773 161 RLQRGALDLDTPENKLILDEEG--VIDILIQERTDAHSLIEEFMLLANEAVARHLQ-ELGIPALYRVHPEPDLEKLNSLI 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 413 EMLNTRKnmsisleSSKALADSLDRCVDPEDpyfntLVRIMSTRCMMAAQyfysgaYSYPDFRHYGLAVDIYTHFTSPIR 492
Cdd:pfam00773 238 KLLQLLP-------DDKGLSKSLEKIKDDER-----LLSILLLRTMPRAE------YSPEPLGHFGLGLDIYTHFTSPIR 299
|
330
....*....|....*
gi 1139709015 493 RYCDVVAHRQLAGAI 507
Cdd:pfam00773 300 RYPDLIVHRQLKALL 314
|
|
| VacB |
COG0557 |
Exoribonuclease R [Transcription]; |
22-645 |
3.02e-123 |
|
Exoribonuclease R [Transcription];
Pssm-ID: 440323 [Multi-domain] Cd Length: 711 Bit Score: 381.38 E-value: 3.02e-123
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 22 AMIAQRSKKIQPTAKVVYIQRRSWRQYVGQLapssvdpQSSSTQnVFVILMDKCLPK-VRIRTRRAAELLDKRIVI-SID 99
Cdd:COG0557 111 VRVTKEDRRGRPEGRVVEILERANTRVVGRF-------EKEKGF-GFVVPDDKRLLQdIFIPPDDLNGAKDGDLVVvEIT 182
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 100 SWPTTHKYPLGHFVRDLGTIESAQAETEALLLEHDVEYRpFSKKVLEclPAEghdwKAPTKLDDPEavskdplLTKRKDL 179
Cdd:COG0557 183 RYPERRGPPEGRVVEVLGSPGDPGAEILIAIRKHGLPHE-FPEEVLA--EAE----ALPDEVPEAD-------LKGRRDL 248
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 180 RDKLICSIDPPGCVDIDDALHAKKLPNGNWEVGVHIADVTHFVKPGTALDAEGAARGTSVYLVDKRIDMLPMLLGTDLCS 259
Cdd:COG0557 249 RDLPLVTIDGEDAKDFDDAVSAEKLDNGGWRLGVHIADVSHYVRPGSALDREARKRGTSVYLPDRVIPMLPERLSNGLCS 328
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 260 LKPYVDRFAFSVIWELDDSANIVNVNFMKSVIRSREAFSYEQAQLRIDDK----TQNDELTMGM-RALLKLSVKLKQKRL 334
Cdd:COG0557 329 LNPGEDRLAMSCEMEIDAKGEVVSYEFYRSVIRSDARLTYEEVQAILDGKdeelREEYADLVPMlEELYELAKILRKARE 408
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 335 EAGALNLASPEVKVHMDsETSDPNEVEIKKLLATNSLVEEFMLLANISVARKIYDAfPQTAMLRRHAAPPSTNFEILNEM 414
Cdd:COG0557 409 KRGAIDFDLPETKIILD-EEGKPEDIVPRERNDAHKLIEEFMLLANEAVAEFLEKL-KLPFLYRVHEEPDPEKLEALREF 486
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 415 LntrKNMSISLE-----SSKALADSLDRCVD-PEDPYFNTLVRimstRCMMAAQYfysGAYSYPdfrHYGLAVDIYTHFT 488
Cdd:COG0557 487 L---ANLGLKLKggdepTPKDLQKLLEQVKGrPEEELLNTLLL----RSMKQAVY---SPENIG---HFGLALEAYTHFT 553
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 489 SPIRRYCDVVAHRQLAGAI-GYEPLSLTHRDKNKMDMICRNINRKHRNAQFAGRASIEYY--------VGQVMrnneste 559
Cdd:COG0557 554 SPIRRYPDLLVHRALKAYLeGKRSPGLQEYLEEELEEIAEHCSETERRADEAERDVVDLKkaeymkdrVGEEF------- 626
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 560 TGYVIKVFNNGIVVLVPKFGVEGLIRLDNLTEDPNSaaFDEVEYKLtfVPTNSDKprdVYVF-DKVEVQVRSVmDPITsk 638
Cdd:COG0557 627 EGVISGVTSFGLFVELDELGVEGLVHVSSLGDDYYE--YDERRQAL--VGERTGK---RYRLgDRVEVRVVRV-DLDR-- 696
|
....*..
gi 1139709015 639 RKAELLL 645
Cdd:COG0557 697 RQIDFEL 703
|
|
| RNB |
smart00955 |
This domain is the catalytic domain of ribonuclease II; |
176-508 |
6.04e-105 |
|
This domain is the catalytic domain of ribonuclease II;
Pssm-ID: 214935 [Multi-domain] Cd Length: 286 Bit Score: 319.60 E-value: 6.04e-105
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 176 RKDLRDKLICSIDPPGCVDIDDALHAKKLPNGNWEVGVHIADVTHFVKPGTALDAEGAARGTSVYLVDKRIDMLPMLLGT 255
Cdd:smart00955 1 RVDLRDLPLFTIDPEDAKDIDDAVSVEKLDNGGYRLGVHIADVSHYVKPGSALDREARKRGTSVYLPDRVIPMLPEELSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 256 DLCSLKPYVDRFAFSVIWELD-DSANIVNVNFMKSVIRSREAFSYEQAQLRIDdktqndeltmgmrallklsvklkqkrl 334
Cdd:smart00955 81 GLCSLNPGEDRLALSVEMTLDaDGGEILDYEFYRSVIRSKARLTYEEVDAILE--------------------------- 133
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 335 eagalnlaspevKVHMDSETSdPNEVEIKKLLATNSLVEEFMLLANISVARKIYDAFPQtAMLRRHAAP-PSTNFEILNE 413
Cdd:smart00955 134 ------------KIVLDEEGK-IEDIVPRERNDAHSLVEEFMILANEAVARFLAKNGIP-GLYRVHEGPdPEKLAELLKE 199
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 414 MLNTRKNMSISLESSKALADSLDRCVDPEDpyfNTLVRIMSTRCMMAAQYFYSGAysypdfRHYGLAVDIYTHFTSPIRR 493
Cdd:smart00955 200 FLALLGLLLLGGDGPKALAKLLEKIRDSPE---ERLLELLLLRSMPHAEYSVDNS------GHFGLALDAYTHFTSPIRR 270
|
330
....*....|....*
gi 1139709015 494 YCDVVAHRQLAGAIG 508
Cdd:smart00955 271 YPDLIVHRQLKAALR 285
|
|
| RNase_R |
TIGR02063 |
ribonuclease R; This family consists of an exoribonuclease, ribonuclease R, also called VacB. ... |
29-638 |
1.04e-101 |
|
ribonuclease R; This family consists of an exoribonuclease, ribonuclease R, also called VacB. It is one of the eight exoribonucleases reported in E. coli and is broadly distributed throughout the bacteria. In E. coli, double mutants of this protein and polynucleotide phosphorylase are not viable. Scoring between trusted and noise cutoffs to the model are shorter, divergent forms from the Chlamydiae, and divergent forms from the Campylobacterales (including Helicobacter pylori) and Leptospira interrogans. [Transcription, Degradation of RNA]
Pssm-ID: 273947 [Multi-domain] Cd Length: 709 Bit Score: 325.38 E-value: 1.04e-101
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 29 KKIQPTAKVVYIQRRSWRQYVGQLapssvdpqSSSTQNVFVILMDKCLP-KVRIRTRRAAELLDKRIVI-SIDSWPTTHK 106
Cdd:TIGR02063 119 GGDRFEARVIKILERANDQIVGTF--------YIENGIGFVIPDDKRIYlDIFIPPEQILGAEEGDKVLvEITKYPDRNR 190
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 107 YPLGHFVRDLGTIESAQAETEALLLEHDVEYRpFSKKVLEclPAEghdwKAPTKLDDPEavskdplLTKRKDLRDKLICS 186
Cdd:TIGR02063 191 PAIGKVVEILGHADDPGIDILIIIRKHGIPYE-FPEEVLD--EAA----KIPEEVPEEE-------IKGRKDLRDLPFVT 256
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 187 IDPPGCVDIDDALHAKKLPNGNWEVGVHIADVTHFVKPGTALDAEGAARGTSVYLVDKRIDMLPMLLGTDLCSLKPYVDR 266
Cdd:TIGR02063 257 IDGEDAKDFDDAVYVEKLKDGNYKLGVAIADVSHYVREGSALDKEALKRGTSVYLPDRVIPMLPERLSNGICSLNPNEDR 336
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 267 FAFSVIWELDDSANIVNVNFMKSVIRSREAFSYEQAQLRIDDKTQNDELTMGM----RALLKLSVKLKQKRLEAGALNLA 342
Cdd:TIGR02063 337 LTLSCEMEIDKKGRVKKYEFYEAVINSHARLTYNQVNDIIEGKDALDKKEPPLkemlKNLFELYKILRKKRKKRGAIDFD 416
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 343 SPEVKVHMDsETSDPNEVEIKKLLATNSLVEEFMLLANISVARKIyDAFPQTAMLRRHAAPPSTNFEILNEMLntrKNMS 422
Cdd:TIGR02063 417 SKEAKIILD-ENGKPIDIVPRERGDAHKLIEEFMIAANETVAEHL-EKAKLPFIYRVHERPSEEKLQNLREFL---KTLG 491
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 423 ISLE-------SSKALADSLDRCVD-PEDPyfntLVRIMSTRCMMAAqyFYSgaysyPDFR-HYGLAVDIYTHFTSPIRR 493
Cdd:TIGR02063 492 ITLKggtsdkpQPKDFQKLLEKVKGrPEEE----LINTVLLRSMQQA--KYS-----PENIgHFGLALEYYTHFTSPIRR 560
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 494 YCDVVAHR----QLAGAIGYEPLSLTHRDKNKMDMICRNINRKHRNAQFAGRASIEYYVGQVMRNNestetgyVIKVFnN 569
Cdd:TIGR02063 561 YPDLIVHRlikkALFGGENTTTEKEREYLEAKLEEIAEHSSKTERRADEAERDVNDWKKAEYMSEK-------IGEEF-E 632
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 570 GIVVLVPKFG---------VEGLIRLDNLTEDPNSaaFDEVEYKLTFVPTNSdkprdvyVF---DKVEVQVRSVmDPITS 637
Cdd:TIGR02063 633 GVISGVTSFGlfvelenntIEGLVHISTLKDDYYV--FDEKGLALVGERTGK-------VFrlgDRVKVRVVKA-DLDTG 702
|
.
gi 1139709015 638 K 638
Cdd:TIGR02063 703 K 703
|
|
| 3_prime_RNase |
TIGR00358 |
VacB and RNase II family 3'-5' exoribonucleases; This model is defined to identify a pair of ... |
94-631 |
4.78e-64 |
|
VacB and RNase II family 3'-5' exoribonucleases; This model is defined to identify a pair of paralogous 3-prime exoribonucleases in E. coli, plus the set of proteins apparently orthologous to one or the other in other eubacteria. VacB was characterized originally as required for the expression of virulence genes, but is now recognized as the exoribonuclease RNase R (Rnr). Its paralog in E. coli and H. influenzae is designated exoribonuclease II (Rnb). Both are involved in the degradation of mRNA, and consequently have strong pleiotropic effects that may be difficult to disentangle. Both these proteins share domain-level similarity (RNB, S1) with a considerable number of other proteins, and full-length similarity scoring below the trusted cutoff to proteins associated with various phenotypes but uncertain biochemistry; it may be that these latter proteins are also 3-prime exoribonucleases. [Transcription, Degradation of RNA]
Pssm-ID: 273033 [Multi-domain] Cd Length: 654 Bit Score: 223.44 E-value: 4.78e-64
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 94 IVISIDSWPTTHKYPLGHFVRDLGTIESAQAETEALLLEHDVEYRPfskkvleclPAEGHDWKAPTKLDDPEAVSKDpll 173
Cdd:TIGR00358 126 VVVELTEYPLRRNLFYGEITQILGNNDDPLIPWWVTLARHEIPFEF---------PDGVEQQAAKLQFDVDEQAKKY--- 193
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 174 tkRKDLRDKLICSIDPPGCVDIDDALHAKKLPNGNWEVGVHIADVTHFVKPGTALDAEGAARGTSVYLVDKRIDMLPMLL 253
Cdd:TIGR00358 194 --REDLTDLAFVTIDGADAKDLDDAVYVKKLPDGGWKLYVAIADVSYYVAENSPLDKEAKHRGFSVYLPGFVIPMLPEEL 271
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 254 GTDLCSLKPYVDRFAFSVIWELDDSANIVNVNFMKSVIRSREAFSYEQAQ--LRIDD--KTQNDELTMGMRALLKLSVKL 329
Cdd:TIGR00358 272 SNGLCSLNPNEDRLVLVCEMTISAQGRITDNEFYPATIESKARLTYDKVNdwLENDDelQPEYETLVEQLKALHQLSQAL 351
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 330 KQKRLEAGALNLASPEVKVHMDsETSDPNEVEIKKLLATNSLVEEFMLLANISVARKIYDAfPQTAMLRRHAAPPSTNFE 409
Cdd:TIGR00358 352 GEWRHKRGLIDFEHPETKFIVD-EEGRVIDIVAEVRRIAEKIIEEAMIVANICAARFLHNH-KVPGIYRVHPGPSKKKLQ 429
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 410 ILNEML----NTRKNMSISLESSKALADSLDRCVD-PEDPYFNTLVRimstRCMMAAQyfysgaYSYPDFRHYGLAVDIY 484
Cdd:TIGR00358 430 SLLEFLaelgLTLPGGNAENVTTLDGACWLREVKDrPEYEILVTRLL----RSLSQAE------YSPEPLGHFGLGLEHY 499
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 485 THFTSPIRRYCDVVAHRQL-AGAIGYEPLSLTHRDKNKMDMICRNINRKHRNAQFAGRASIEYYVGQVMRNNESTE-TGY 562
Cdd:TIGR00358 500 AHFTSPIRRYPDLTNHRLIkAVLAKEQTDTERYQPQDELLQIAEHCSDTERRARDAERDVADWLKCRYLLDKVGTEfSGE 579
|
490 500 510 520 530 540 550
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 563 VIKVFNNGIVVLVPKFGVEGLIRLDNLTEDpnSAAFDEVEYKLTFVPTNSdkprdVY-VFDKVEVQVRSV 631
Cdd:TIGR00358 580 ISSVTRFGMFVRLDDNGIDGLIHISTLHND--YYVFDQEKMALIGKGTGK-----VYrIGDRVTVKLTEV 642
|
|
| Rrp44_S1 |
pfam17215 |
S1 domain; This domain corresponds to the S1 domain found at the C-terminus of ribonucleases ... |
557-643 |
2.25e-45 |
|
S1 domain; This domain corresponds to the S1 domain found at the C-terminus of ribonucleases such as yeast Rrp44.
Pssm-ID: 435792 Cd Length: 87 Bit Score: 155.77 E-value: 2.25e-45
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 557 STETGYVIKVFNNGIVVLVPKFGVEGLIRLDNLTEDPNSAAFDEVEYKLTFVPTNSDKPRDVYVFDKVEVQVRSVMDPIT 636
Cdd:pfam17215 1 SEEEGYVIKVFNNGIVVFVPKFGIEGLIRLEDLTGDEPEAEFDADEYSLTFPDKGSGKKRTVGVFDKVRVRVKSVKDENT 80
|
....*..
gi 1139709015 637 SKRKAEL 643
Cdd:pfam17215 81 GKRKVKL 87
|
|
| PRK11642 |
PRK11642 |
ribonuclease R; |
164-641 |
5.18e-38 |
|
ribonuclease R;
Pssm-ID: 236944 [Multi-domain] Cd Length: 813 Bit Score: 151.05 E-value: 5.18e-38
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 164 PEAVSKDplltkRKDLRDKLICSIDPPGCVDIDDALHAKKLPNGNWEVGVHIADVTHFVKPGTALDAEGAARGTSVYLVD 243
Cdd:PRK11642 253 PEEAKAG-----RVDLRDLPLVTIDGEDARDFDDAVYCEKKRGGGWRLWVAIADVSYYVRPPTPLDREARNRGTSVYFPS 327
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 244 KRIDMLPMLLGTDLCSLKPYVDRfaFSVIWELDDSAN--IVNVNFMKSVIRSREAFSYEQA----QLRIDDKTQNDELTM 317
Cdd:PRK11642 328 QVVPMLPEVLSNGLCSLNPQVDR--LCMVCEMTISSKgrLTGYKFYEAVMSSHARLTYTKVwhilQGDQDLREQYAPLVK 405
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 318 GMRALLKLSVKLKQKRLEAGALNLASPEVKVHMDSETsdpnevEIKKLLAT-----NSLVEEFMLLANISVARKIYDAfP 392
Cdd:PRK11642 406 HLEELHNLYKVLDKAREERGGISFESEEAKFIFNAER------RIERIEQTqrndaHKLIEECMILANISAARFVEKA-K 478
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 393 QTAMLRRHAAPPSTNFEILNEMLNtrkNMSISLESS-----KALADSLDRCVDPEDpyfNTLVRIMSTRCMMAAQYfysg 467
Cdd:PRK11642 479 EPALFRIHDKPSTEAITSFRSVLA---ELGLELPGGnkpepRDYAELLESVADRPD---AEMLQTMLLRSMKQAIY---- 548
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 468 aysYPDFR-HYGLAVDIYTHFTSPIRRYCDVVAHR----QLAGAIGYE----PLSLTHRDKNKMDMICRNINRKHRNAQF 538
Cdd:PRK11642 549 ---DPENRgHFGLALQSYAHFTSPIRRYPDLSLHRaikyLLAKEQGHKgnttETGGYHYSMEEMLQLGQHCSMTERRADE 625
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 539 AGRASIEYYVGQVMRNNestetgyVIKVFnNGIVVLVPKFGVegLIRLDNL---------TEDPNSAAFDEVEYKLTfvp 609
Cdd:PRK11642 626 ATRDVADWLKCDFMLDQ-------VGNVF-KGVISSVTGFGF--FVRLDDLfidglvhvsSLDNDYYRFDQVGQRLI--- 692
|
490 500 510 520
....*....|....*....|....*....|....*....|.
gi 1139709015 610 tnSDKPRDVYVF-DKVEVQVRSV-MDP-------ITSKRKA 641
Cdd:PRK11642 693 --GESSGQTYRLgDRVEVRVEAVnMDErkidfslISSERAP 731
|
|
| Rnb |
COG4776 |
Exoribonuclease II [Transcription]; |
162-530 |
3.03e-29 |
|
Exoribonuclease II [Transcription];
Pssm-ID: 443808 [Multi-domain] Cd Length: 644 Bit Score: 123.04 E-value: 3.03e-29
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 162 DDPEAVSKDPLL---TKRKDLRDKLICSIDPPGCVDIDDALHAKKLPNGNWEVGVHIADVTHFVKPGTALDAEGAARGTS 238
Cdd:COG4776 173 EAPEGDDEWELLdegLEREDLTALPFVTIDSESTEDMDDALYIEKLENGGWKLTVAIADPTAYIPEGSELDKEARQRAFT 252
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 239 VYLVDKRIDMLPMLLGTDLCSLKPYVDRFAFSVIWELDDSANIVN-VNFMKSVIRSREAFSY-------EQAQlriDDKT 310
Cdd:COG4776 253 NYLPGFNIPMLPRELSDDLCSLKENEKRPALVCRVTIDADGSIGDdIEFFAAWIRSKAKLAYdnvsdwlEGKG---EWQP 329
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 311 QNDELTMGMRALLKLSVKLKQKRLEAGALNLASPEVKVHMDsETSDPNEVEIKKLLATNSLVEEFMLLANISVARKIYDA 390
Cdd:COG4776 330 ENEEIAEQIRLLHQFALARSQWRQQHALVFKDRPDYRFELD-EKGNVLDIHAEPRRIANRIVEEAMIAANICAARVLREH 408
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 391 fPQTAMLRRHAAPPSTNFEILNEMLN------TRKNMSiSLESSKALADSLDrcvDPEDPYFNTLVRIMSTRCMMAAQyf 464
Cdd:COG4776 409 -LGFGIFNVHSGFDPEKLEQAVELLAehgiefDPEQLL-TLEGFCALRRELD---AQPTSYLDSRLRRFQTFAEISTE-- 481
|
330 340 350 360 370 380 390
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1139709015 465 ySGAysypdfrHYGLAVDIYTHFTSPIRRYCDVVAHRQLAGAIGYEPL-----SLT-----HRDKNKmdMICRNIN 530
Cdd:COG4776 482 -PGP-------HFGLGLDAYATWTSPIRKYGDMVNHRLIKAVILGQPAekpdeELTerlaeRRRLNR--MAERDVA 547
|
|
| PRK05054 |
PRK05054 |
exoribonuclease II; Provisional |
149-503 |
2.91e-26 |
|
exoribonuclease II; Provisional
Pssm-ID: 179920 [Multi-domain] Cd Length: 644 Bit Score: 113.82 E-value: 2.91e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 149 PAEGHDWKaptkLDDPEavskdpllTKRKDLRDKLICSIDPPGCVDIDDALHAKKLPNGNWEVGVHIADVTHFVKPGTAL 228
Cdd:PRK05054 175 PAGGVAWE----MLDEG--------LEREDLTALDFVTIDSASTEDMDDALYVEKLPDGGLQLTVAIADPTAYIAEGSKL 242
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 229 DAEGAARGTSVYLVDKRIDMLPMLLGTDLCSLKPYVDRFAFSVIWELDDSANIV-NVNFMKSVIRSREAFSYEQAQLRID 307
Cdd:PRK05054 243 DKAARQRAFTNYLPGFNIPMLPRELSDDLCSLRPNERRPALACRVTIDADGTIEdDIRFFAAWIESKAKLAYDNVSDWLE 322
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 308 DKT----QNDELTMGMRALLKLSVKLKQKRLEAGALNLASPEVKVHMdSETSDPNEVEIKKLLATNSLVEEFMLLANISV 383
Cdd:PRK05054 323 NGGdwqpESEAIAEQIRLLHQFCLARSEWRKQHALVFKDRPDYRFEL-GEKGEVLDIVAEPRRIANRIVEESMIAANICA 401
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1139709015 384 ARkiydafpqtaMLRRHAappstNFEILN-----EMLNtrknmsisLESSKALADSLDRCVDPED----PYFNTLVRIMS 454
Cdd:PRK05054 402 AR----------VLRDKL-----GFGIYNvhsgfDPAN--------AEQAVALLKEHGLHFDAEElltlEGFCKLRRELD 458
|
330 340 350 360 370 380
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1139709015 455 TRcmmaaqyfysgAYSYPDFR----------------HYGLAVDIYTHFTSPIRRYCDVVAHRQL 503
Cdd:PRK05054 459 AQ-----------PTGYLDSRirrfqsfaeistepgpHFGLGLEAYATWTSPIRKYGDMINHRLL 512
|
|
| Rrp44_CSD1 |
pfam17216 |
Rrp44-like cold shock domain; |
3-44 |
3.65e-20 |
|
Rrp44-like cold shock domain;
Pssm-ID: 375054 Cd Length: 148 Bit Score: 87.52 E-value: 3.65e-20
10 20 30 40
....*....|....*....|....*....|....*....|..
gi 1139709015 3 SSSNTTVISDKQRRLLAKDAMIAQRSKKIQPTAKVVYIQRRS 44
Cdd:pfam17216 107 SSSNTTVISDKQRRLLAKDAMIAQRSKKIQPTAKVVYIQRRS 148
|
|
| OB_Dis3 |
pfam17849 |
Dis3-like cold-shock domain 2 (CSD2); This domain has an OB fold and is found in the Dis3l2 ... |
66-134 |
7.01e-19 |
|
Dis3-like cold-shock domain 2 (CSD2); This domain has an OB fold and is found in the Dis3l2 protein. This domain along with CSD1 binds to RNA.
Pssm-ID: 436091 [Multi-domain] Cd Length: 77 Bit Score: 81.12 E-value: 7.01e-19
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1139709015 66 NVFVILMDKCLPKVRIRTRRA--------AELLDKRIVISIDSWPTTHKYPLGHFVRDLGTIESAQAETEALLLEHD 134
Cdd:pfam17849 1 YVLFVPRDKRIPRIRIPTKSApeeflenpEDLEGKLFVVKIDDWPENSRYPLGHIVKVLGEIGDIETETEAILLENG 77
|
|
| |
