Citrus Sinensis ID: 043917

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420---
VHKCVAGGGKVLIPAFALGRAQELCILLDDYWERMNLRVPIYFSAGLTIQANMYYKMLISWTSQKVKETYNAFDFKNVHNFDRSLIDAPGPCVLFATPGMLTGGFSLEVFKHWAPSEMNLITLPGYCLAGTIGNKLMSGNPTIELEGTKIDVRCQIHQLAFSPHTDGKGIMDLVKFLSPQHVILVHGEKPKMATLKERIQSELGIKCYDPANNESMCIPSTHYVKAGASDAFIRSCMNPNFQYLKSGSEEKSVSGSKCTEGTLPLWIKDERVAEGILVLEKSEKAKVVHQDELLLMLGEKRHEVQFAYCCPVNVDELEKFTTTSLTPTARMLRDPNKSSLIRLLVAKLSRKLSEGNIQDFGEHLQVESFHLSVCLKDTCPYRITNGLEDKPRTAFFCCTWSAADDKLARKIISAMENRDLVET
cccccccccEEEEcccccHHHHHHHHHHHHHHHHccccccEEEEccHHHHHHHHHHHcHHHHHHHHHHHccccccccccHHcHHcccccccEEEEEccccccccHHHHHHHHHcccccccEEEEcccccccHHHHHHccccEEEEccEEEEEEEEEEEEcccccccHHHHHHHHHHccccEEEEEcccHHHHHHHHHHHHHHHccEEEccccccEEEEccccEEEccccHHHHHHcccccccccccccccccccccccccccccccccccEEEEEEEEEEcccccEEccHHHHHHHHccEEEEEEEEEEEEEEccccHHHHccccccccccccccccHHHHHHHHHHHHHHccccccccccccEEEEEEEEEEEEEcccccccccccccccccEEEEEEccccHHHHHHHHHHHHHHcccccc
ccHHHccccEEEEEHHHHHHHHHHHHHHHHHHHHccccccEEEcHHHHHHHHHHHHHHHHHHHHHHHHHccccEEcccccccHHHccccccEEEEEccccccccHHHHHHHHHccccccEEEEEcEEEccHHHHHHHccccEEEccccEEEEEEEEEEEEEcccHcHHHHHHHHHHcccccEEEEEcccHHHHHHHHHHHHHccccEEcccccEEEEEEccccEEEEEcHHEEEcccccccccHHHHHHcccccccEEEEcccccccccccEEEEEEEEEccccEEEEcHHHHHHHHccccEEEEEEEEEEEEccccccccccccHHHHHcccccccccHHHHHHHHHHHccccccEEEEEEEEEEEEEEEEEEEcccccEEEccccccccccEEEEEEEccccHHHHHHHHHHHHHcccccc
vhkcvagggkvliPAFALGRAQELCILLDDYWERMNLRVPIYFSAGLTIQANMYYKMLISWTSQKVKETynafdfknvhnfdrslidapgpcvlfatpgmltggfslevfkhwapsemnlitlpgyclagtignklmsgnptielegtkiDVRCQihqlafsphtdgkgIMDLVKflspqhvilvhgekpkmATLKERIQSelgikcydpannesmcipsthyvkagasdafirscmnpnfqylksgseeksvsgskctegtlplwikdeRVAEGILVLEKSEKAKVVHQDELLLMLGEKrhevqfayccpvnvdelekftttsltptarmlrdpnkSSLIRLLVAKLSRKLSEGNIQDFGEHLQVESFHLSvclkdtcpyritngledkprtaffcctwsAADDKLARKIISAMenrdlvet
vhkcvagggkvlipafaLGRAQELCILLDDYWERMNLRVPIYFSAGLTIQANMYYKMLISWTSQKVKETYNAFDFKNVHNFDRSLIDAPGPCVLFATPGMLTGGFSLEVFKHWAPSEMNLITLPGYCLAGTIGNKLMSGNPTIELEGTKIDVRCQIHQLAFSPHTDGKGIMDLVKFLSPQHVILVHGEKPKMATLKERIQSELGIKCYDPANNESMCIPSTHYVKAGASDAFIRSCMNPNFQYLKSgseeksvsgskctegtlplwikdeRVAEGILVleksekakvvHQDELLLMLGEKRHEVQFAYCCPVNVDELEKftttsltptarmlrdpnksSLIRLLVAKLSRKLSEGNIQDFGEHLQVESFHLSVCLKDTCPYRITNGLEDKPRTAFFCCTWSAADDKLARKIISamenrdlvet
VHKCVAGGGKVLIPAFALGRAQELCILLDDYWERMNLRVPIYFSAGLTIQANMYYKMLISWTSQKVKETYNAFDFKNVHNFDRSLIDAPGPCVLFATPGMLTGGFSLEVFKHWAPSEMNLITLPGYCLAGTIGNKLMSGNPTIELEGTKIDVRCQIHQLAFSPHTDGKGIMDLVKFLSPQHVILVHGEKPKMATLKERIQSELGIKCYDPANNESMCIPSTHYVKAGASDAFIRSCMNPNFQYLksgseeksvsgskCTEGTLPLWIKDERVAEGILVLEKSEKAKVVHQDELLLMLGEKRHEVQFAYCCPVNVDELEKFTTTSLTPTARMLRDPNKSSLIRLLVAKLSRKLSEGNIQDFGEHLQVESFHLSVCLKDTCPYRITNGLEDKPRTAFFCCTWSAADDKLARKIISAMENRDLVET
***CVAGGGKVLIPAFALGRAQELCILLDDYWERMNLRVPIYFSAGLTIQANMYYKMLISWTSQKVKETYNAFDFKNVHNFDRSLIDAPGPCVLFATPGMLTGGFSLEVFKHWAPSEMNLITLPGYCLAGTIGNKLMSGNPTIELEGTKIDVRCQIHQLAFSPHTDGKGIMDLVKFLSPQHVILVHGEKPKMATLKERIQSELGIKCYDPANNESMCIPSTHYVKAGASDAFIRSCMNPNFQYL*************CTEGTLPLWIKDERVAEGILVLEKSEKAKVVHQDELLLMLGEKRHEVQFAYCCPVNVDELEKFTTTSLTPTARM*******SLIRLLVAKLSRKLSEGNIQDFGEHLQVESFHLSVCLKDTCPYRITNGLEDKPRTAFFCCTWSAADDKLARKII***********
VHKCVAGGGKVLIPAFALGRAQELCILLDDYWERMNLRVPIYFSAGLTIQANMYYKMLISWTSQKVKETYNAFDFKNVHNFDRS*IDAPGPCVLFATPGMLTGGFSLEVFKHWAPSEMNLITLPGYCLAGTIGNKLMSGNPTIELEGTKIDVRCQIHQLAFSPHTDGKGIMDLVKFLSPQHVILVHGEKPKMATLKERIQSELGIKCYDPANNESMCIPSTHYV**************************************************GILVLEKSEKAKVV*****L*MLGEKRHEVQFAYCCPVNVDELEKFTTTS***********NKSSLIRLLVAKLSRKLSEGNIQDFGEHLQVESFHLSVCLK*******************FCCTWSAADDKLARKIISAMENRDL***
VHKCVAGGGKVLIPAFALGRAQELCILLDDYWERMNLRVPIYFSAGLTIQANMYYKMLISWTSQKVKETYNAFDFKNVHNFDRSLIDAPGPCVLFATPGMLTGGFSLEVFKHWAPSEMNLITLPGYCLAGTIGNKLMSGNPTIELEGTKIDVRCQIHQLAFSPHTDGKGIMDLVKFLSPQHVILVHGEKPKMATLKERIQSELGIKCYDPANNESMCIPSTHYVKAGASDAFIRSCMNPNFQYLKS************TEGTLPLWIKDERVAEGILVLEKSEKAKVVHQDELLLMLGEKRHEVQFAYCCPVNVDELEKFTTTSLTPTARMLRDPNKSSLIRLLVAKLSRKLSEGNIQDFGEHLQVESFHLSVCLKDTCPYRITNGLEDKPRTAFFCCTWSAADDKLARKIISAMENRDLVET
VHKCVAGGGKVLIPAFALGRAQELCILLDDYWERMNLRVPIYFSAGLTIQANMYYKMLISWTSQKVKETYNAFDFKNVHNFDRSLIDAPGPCVLFATPGMLTGGFSLEVFKHWAPSEMNLITLPGYCLAGTIGNKLMSGNPTIELEGTKIDVRCQIHQLAFSPHTDGKGIMDLVKFLSPQHVILVHGEKPKMATLKERIQSELGIKCYDPANNESMCIPSTHYVKAGASDAFIRSCMNPNFQYLKSGSEEKSVSGSKCTEGTLPLWIKDERVAEGILVLEKSEKAKVVHQDELLLMLGEKRHEVQFAYCCPVNVDELEKFTTTSLTPTARMLRDPNKSSLIRLLVAKLSRKLSEGNIQDFGEHLQVESFHLSVCLKDTCPYRITNGLEDKPRTAFFCCTWSAADDKLARKIISAMENR*****
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oooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
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VHKCVAGGGKVLIPAFALGRAQELCILLDDYWERMNLRVPIYFSAGLTIQANMYYKMLISWTSQKVKETYNAFDFKNVHNFDRSLIDAPGPCVLFATPGMLTGGFSLEVFKHWAPSEMNLITLPGYCLAGTIGNKLMSGNPTIELEGTKIDVRCQIHQLAFSPHTDGKGIMDLVKFLSPQHVILVHGEKPKMATLKERIQSELGIKCYDPANNESMCIPSTHYVKAGASDAFIRSCMNPNFQYLKSGSEEKSVSGSKCTEGTLPLWIKDERVAEGILVLEKSEKAKVVHQDELLLMLGEKRHEVQFAYCCPVNVDELEKFTTTSLTPTARMLRDPNKSSLIRLLVAKLSRKLSEGNIQDFGEHLQVESFHLSVCLKDTCPYRITNGLEDKPRTAFFCCTWSAADDKLARKIISAMENRDLVET
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query423 2.2.26 [Sep-21-2011]
Q8GUU3613 Cleavage and polyadenylat yes no 0.903 0.623 0.577 1e-135
Q5TA45600 Integrator complex subuni yes no 0.862 0.608 0.382 3e-76
Q5NVE6600 Integrator complex subuni yes no 0.709 0.5 0.437 5e-76
Q9CWS4600 Integrator complex subuni yes no 0.709 0.5 0.431 1e-75
Q3MHC2600 Integrator complex subuni yes no 0.709 0.5 0.431 1e-75
Q2YDM2599 Integrator complex subuni yes no 0.695 0.490 0.430 2e-74
Q54YL3744 Integrator complex subuni yes no 0.574 0.326 0.507 6e-74
Q503E1598 Integrator complex subuni yes no 0.789 0.558 0.398 3e-73
Q5ZIH0600 Integrator complex subuni yes no 0.709 0.5 0.425 5e-72
P79101684 Cleavage and polyadenylat no no 0.513 0.317 0.349 1e-35
>sp|Q8GUU3|CPS3B_ARATH Cleavage and polyadenylation specificity factor subunit 3-II OS=Arabidopsis thaliana GN=CPSF73-II PE=1 SV=2 Back     alignment and function desciption
 Score =  483 bits (1242), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 243/421 (57%), Positives = 301/421 (71%), Gaps = 39/421 (9%)

Query: 1   VHKCVAGGGKVLIPAFALGRAQELCILLDDYWERMNLRVPIYFSAGLTIQANMYYKMLIS 60
           VHKCVAGGGK LIP+FALGRAQELC+LLDDYWERMN++VPIYFS+GLTIQANMYYKMLIS
Sbjct: 224 VHKCVAGGGKALIPSFALGRAQELCMLLDDYWERMNIKVPIYFSSGLTIQANMYYKMLIS 283

Query: 61  WTSQKVKE---TYNAFDFKNVHNFDRSLIDAPGPCVLFATPGMLTGGFSLEVFKHWAPSE 117
           WTSQ VKE   T+N FDFKNV +FDRSLI APGPCVLFATPGML  GFSLEVFKHWAPS 
Sbjct: 284 WTSQNVKEKHNTHNPFDFKNVKDFDRSLIHAPGPCVLFATPGMLCAGFSLEVFKHWAPSP 343

Query: 118 MNLITLPGYCLAGTIGNKLMSGNPT-IEL-EGTKIDVRCQIHQLAFSPHTDGKGIMDLVK 175
           +NL+ LPGY +AGT+G+KLM+G PT ++L  GTK+DVRC++HQ+AFSPHTD KGIMDL K
Sbjct: 344 LNLVALPGYSVAGTVGHKLMAGKPTTVDLYNGTKVDVRCKVHQVAFSPHTDAKGIMDLTK 403

Query: 176 FLSPQHVILVHGEKPKMATLKERIQSELGIKCYDPANNESMCIPSTHYVKAGASDAFIRS 235
           FLSP++V+LVHGEKP M  LKE+I SEL I C+ PAN E++   ST Y+KA ASD F++S
Sbjct: 404 FLSPKNVVLVHGEKPSMMILKEKITSELDIPCFVPANGETVSFASTTYIKANASDMFLKS 463

Query: 236 CMNPNFQYLKSGSEEKSVSGSKCTEGTLPLWIKDERVAEGILVLEKSEKAKVVHQDELLL 295
           C NPNF++  S                  L + D R A+G+LV+EKS+KAK+VHQDE+  
Sbjct: 464 CSNPNFKFSNSTQ----------------LRVTDHRTADGVLVIEKSKKAKIVHQDEISE 507

Query: 296 MLGEKRHEVQFAYCCPVNVDELEKFTTTSLTPTARMLRDPNKSSLIRLLVAKLSRKLSEG 355
           +L EK H V  A+CCPV V               +   + +   LI+ L AK+ + +S  
Sbjct: 508 VLHEKNHVVSLAHCCPVKV---------------KGESEDDDVDLIKQLSAKILKTVSGA 552

Query: 356 NIQDFGEHLQVESFHLSVCLKDTCPYRITNGLEDKPRTAFFCCTWSAADDKLARKIISAM 415
            I +    LQV SF  S+CLKD C +R ++   +     F CC WS AD +L  +II+A+
Sbjct: 553 QIHESENCLQVASFKGSLCLKDKCMHRSSSSSSE---AVFLCCNWSIADLELGWEIINAI 609

Query: 416 E 416
           +
Sbjct: 610 K 610
Component of the cleavage and polyadenylation specificity factor (CPSF) complex that play a key role in pre-mRNA 3'-end formation, recognizing the AAUAAA signal sequence and interacting with poly(A) polymerase and other factors to bring about cleavage and poly(A) addition. May function as mRNA 3'-end-processing endonuclease and also be involved in the histone 3'-end pre-mRNA processing.
Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 1EC: .EC: 2EC: 7EC: .EC: -
>sp|Q5TA45|INT11_HUMAN Integrator complex subunit 11 OS=Homo sapiens GN=CPSF3L PE=1 SV=2 Back     alignment and function description
>sp|Q5NVE6|INT11_PONAB Integrator complex subunit 11 OS=Pongo abelii GN=CPSF3L PE=2 SV=2 Back     alignment and function description
>sp|Q9CWS4|INT11_MOUSE Integrator complex subunit 11 OS=Mus musculus GN=Cpsf3l PE=2 SV=1 Back     alignment and function description
>sp|Q3MHC2|INT11_RAT Integrator complex subunit 11 OS=Rattus norvegicus GN=Cpsf3l PE=2 SV=1 Back     alignment and function description
>sp|Q2YDM2|INT11_BOVIN Integrator complex subunit 11 OS=Bos taurus GN=CPSF3L PE=2 SV=2 Back     alignment and function description
>sp|Q54YL3|INT11_DICDI Integrator complex subunit 11 homolog OS=Dictyostelium discoideum GN=ints11 PE=3 SV=1 Back     alignment and function description
>sp|Q503E1|INT11_DANRE Integrator complex subunit 11 OS=Danio rerio GN=cpsf3l PE=2 SV=1 Back     alignment and function description
>sp|Q5ZIH0|INT11_CHICK Integrator complex subunit 11 OS=Gallus gallus GN=CPSF3L PE=2 SV=1 Back     alignment and function description
>sp|P79101|CPSF3_BOVIN Cleavage and polyadenylation specificity factor subunit 3 OS=Bos taurus GN=CPSF3 PE=2 SV=1 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query423
224108267 639 predicted protein [Populus trichocarpa] 0.971 0.643 0.705 1e-170
297737628 686 unnamed protein product [Vitis vinifera] 0.945 0.583 0.691 1e-167
359472593 2299 PREDICTED: uncharacterized protein LOC10 0.877 0.161 0.705 1e-153
449460766 649 PREDICTED: cleavage and polyadenylation 0.973 0.634 0.620 1e-149
449518964472 PREDICTED: LOW QUALITY PROTEIN: cleavage 0.936 0.838 0.622 1e-145
255570075 963 cleavage and polyadenylation specificity 0.754 0.331 0.768 1e-145
46360445 708 ACT11D09.9 [Cucumis melo] 0.966 0.577 0.582 1e-141
30677952 613 cleavage and polyadenylation specificity 0.903 0.623 0.577 1e-134
27372065 613 FEG protein [Arabidopsis thaliana] 0.903 0.623 0.570 1e-131
356502382516 PREDICTED: cleavage and polyadenylation 0.678 0.556 0.717 1e-126
>gi|224108267|ref|XP_002314781.1| predicted protein [Populus trichocarpa] gi|222863821|gb|EEF00952.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
 Score =  605 bits (1559), Expect = e-170,   Method: Compositional matrix adjust.
 Identities = 297/421 (70%), Positives = 347/421 (82%), Gaps = 10/421 (2%)

Query: 1   VHKCVAGGGKVLIPAFALGRAQELCILLDDYWERMNLRVPIYFSAGLTIQANMYYKMLIS 60
           VH+CVAGGGKVLIP FALGRAQELCILLDDYWERMNL+VPIYFSAGLTIQAN+YYK+LIS
Sbjct: 224 VHECVAGGGKVLIPTFALGRAQELCILLDDYWERMNLKVPIYFSAGLTIQANLYYKILIS 283

Query: 61  WTSQKVKETY---NAFDFKNVHNFDRSLIDAPGPCVLFATPGMLTGGFSLEVFKHWAPSE 117
           WTSQKVKETY   NAFDFK+VHNFDRSLI+APGPCVLFATPGM++GGFSLEVFK WAP E
Sbjct: 284 WTSQKVKETYATRNAFDFKHVHNFDRSLINAPGPCVLFATPGMISGGFSLEVFKQWAPCE 343

Query: 118 MNLITLPGYCLAGTIGNKLMSGNPT-IELE-GTKIDVRCQIHQLAFSPHTDGKGIMDLVK 175
           MNLITLPGYC+AGT+G+KLMSG PT I L+  T+IDVRCQIHQL+FSPHTD KGIMDL K
Sbjct: 344 MNLITLPGYCVAGTVGHKLMSGKPTKINLDKDTQIDVRCQIHQLSFSPHTDSKGIMDLTK 403

Query: 176 FLSPQHVILVHGEKPKMATLKERIQSELGIKCYDPANNESMCIPSTHYVKAGASDAFIRS 235
           FLSP++VILVHGEKPKM +LKERIQ+EL I CY PAN +++ IPST YVKA AS+ FIRS
Sbjct: 404 FLSPRNVILVHGEKPKMVSLKERIQTELRIPCYLPANCDAVHIPSTIYVKAHASNTFIRS 463

Query: 236 CMNPNFQYLKSGSEEKSVSGSKCTEGTLPLWIKDERVAEGILVLEKSEKAKVVHQDELLL 295
           C+NPNF++LK   E+ S    + T  T PL + DERVAEGIL++EK +KA+VVHQD+LLL
Sbjct: 464 CLNPNFRFLKRSKEDNSDQVLRNTNPTAPLQVNDERVAEGILIMEKGKKARVVHQDDLLL 523

Query: 296 MLGEKRHEVQFAYCCPVNVDELEKFTTTSLTPTARMLRDPNKSSLIRLLVAKLSRKLSEG 355
           ML +K+H+VQFAYCC   +D LE+   T     A  L D  K S ++LL  +LS   S  
Sbjct: 524 MLRQKKHDVQFAYCCAAQLDNLEE---TRNRDDALGLSD--KCSSLQLLFKELSNYFSGV 578

Query: 356 NIQDFGEHLQVESFHLSVCLKDTCPYRITNGLEDKPRTAFFCCTWSAADDKLARKIISAM 415
           NI+D GEHLQVESFH+SVCLKD CPYRI +  + +  T +FCC+WSAAD+KLA +IISAM
Sbjct: 579 NIEDLGEHLQVESFHVSVCLKDNCPYRIIDNSQKEAVTVYFCCSWSAADEKLAWEIISAM 638

Query: 416 E 416
           E
Sbjct: 639 E 639

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|297737628|emb|CBI26829.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|359472593|ref|XP_002281277.2| PREDICTED: uncharacterized protein LOC100261060 [Vitis vinifera] Back     alignment and taxonomy information
>gi|449460766|ref|XP_004148116.1| PREDICTED: cleavage and polyadenylation specificity factor subunit 3-II-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|449518964|ref|XP_004166505.1| PREDICTED: LOW QUALITY PROTEIN: cleavage and polyadenylation specificity factor subunit 3-II-like, partial [Cucumis sativus] Back     alignment and taxonomy information
>gi|255570075|ref|XP_002526000.1| cleavage and polyadenylation specificity factor, putative [Ricinus communis] gi|223534732|gb|EEF36424.1| cleavage and polyadenylation specificity factor, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|46360445|gb|AAS80153.1| ACT11D09.9 [Cucumis melo] Back     alignment and taxonomy information
>gi|30677952|ref|NP_178282.2| cleavage and polyadenylation specificity factor subunit 3-II [Arabidopsis thaliana] gi|332278175|sp|Q8GUU3.2|CPS3B_ARATH RecName: Full=Cleavage and polyadenylation specificity factor subunit 3-II; AltName: Full=Cleavage and polyadenylation specificity factor 73 kDa subunit II; Short=AtCPSF73-II; Short=CPSF 73 kDa subunit II; AltName: Full=Protein EMBRYO SAC DEVELOPMENT ARREST 26 gi|62320470|dbj|BAD94982.1| putative cleavage and polyadenylation specifity factor [Arabidopsis thaliana] gi|330250395|gb|AEC05489.1| cleavage and polyadenylation specificity factor subunit 3-II [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|27372065|gb|AAN87883.1| FEG protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|356502382|ref|XP_003519998.1| PREDICTED: cleavage and polyadenylation specificity factor subunit 3-II-like [Glycine max] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query423
TAIR|locus:2065368613 CPSF73-II "AT2G01730" [Arabido 0.704 0.486 0.664 5.2e-113
UNIPROTKB|G3V1S5606 CPSF3L "Integrator complex sub 0.541 0.377 0.532 1.4e-75
UNIPROTKB|Q5TA45600 CPSF3L "Integrator complex sub 0.541 0.381 0.532 1.4e-75
MGI|MGI:1919207600 Cpsf3l "cleavage and polyadeny 0.541 0.381 0.523 3e-75
RGD|1306841600 Cpsf3l "cleavage and polyadeny 0.541 0.381 0.523 3e-75
UNIPROTKB|E2QY53600 CPSF3L "Uncharacterized protei 0.541 0.381 0.523 6e-72
UNIPROTKB|E1B7Q9598 CPSF3L "Integrator complex sub 0.541 0.382 0.519 2e-71
UNIPROTKB|Q2YDM2599 CPSF3L "Integrator complex sub 0.541 0.382 0.519 2e-71
UNIPROTKB|F1RJE8599 CPSF3L "Uncharacterized protei 0.541 0.382 0.523 3.3e-71
ZFIN|ZDB-GENE-050522-13601 cpsf3l "cleavage and polyadeny 0.515 0.362 0.540 8.6e-71
TAIR|locus:2065368 CPSF73-II "AT2G01730" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1115 (397.6 bits), Expect = 5.2e-113, P = 5.2e-113
 Identities = 212/319 (66%), Positives = 253/319 (79%)

Query:     1 VHKCVAGGGKVLIPAFALGRAQELCILLDDYWERMNLRVPIYFSAGLTIQANMYYKMLIS 60
             VHKCVAGGGK LIP+FALGRAQELC+LLDDYWERMN++VPIYFS+GLTIQANMYYKMLIS
Sbjct:   224 VHKCVAGGGKALIPSFALGRAQELCMLLDDYWERMNIKVPIYFSSGLTIQANMYYKMLIS 283

Query:    61 WTSQKVKE---TYNAFDFKNVHNFDRSLIDAPGPCVLFATPGMLTGGFSLEVFKHWAPSE 117
             WTSQ VKE   T+N FDFKNV +FDRSLI APGPCVLFATPGML  GFSLEVFKHWAPS 
Sbjct:   284 WTSQNVKEKHNTHNPFDFKNVKDFDRSLIHAPGPCVLFATPGMLCAGFSLEVFKHWAPSP 343

Query:   118 MNLITLPGYCLAGTIGNKLMSGNPT-IEL-EGTKIDVRCQIHQLAFSPHTDGKGIMDLVK 175
             +NL+ LPGY +AGT+G+KLM+G PT ++L  GTK+DVRC++HQ+AFSPHTD KGIMDL K
Sbjct:   344 LNLVALPGYSVAGTVGHKLMAGKPTTVDLYNGTKVDVRCKVHQVAFSPHTDAKGIMDLTK 403

Query:   176 FLSPQHVILVHGEKPKMATLKERIQSELGIKCYDPANNESMCIPSTHYVKAGASDAFIRS 235
             FLSP++V+LVHGEKP M  LKE+I SEL I C+ PAN E++   ST Y+KA ASD F++S
Sbjct:   404 FLSPKNVVLVHGEKPSMMILKEKITSELDIPCFVPANGETVSFASTTYIKANASDMFLKS 463

Query:   236 CMNPNFQYLXXXXXXXXXXXXXCTEGTLPLWIKDERVAEGILVLEKSEKAKVVHQDELLL 295
             C NPNF++                  +  L + D R A+G+LV+EKS+KAK+VHQDE+  
Sbjct:   464 CSNPNFKF----------------SNSTQLRVTDHRTADGVLVIEKSKKAKIVHQDEISE 507

Query:   296 MLGEKRHEVQFAYCCPVNV 314
             +L EK H V  A+CCPV V
Sbjct:   508 VLHEKNHVVSLAHCCPVKV 526
GO:0003824 "catalytic activity" evidence=ISS
GO:0008152 "metabolic process" evidence=ISS
GO:0016787 "hydrolase activity" evidence=IEA
GO:0010197 "polar nucleus fusion" evidence=IMP
GO:0005515 "protein binding" evidence=IPI
GO:0005634 "nucleus" evidence=IDA
UNIPROTKB|G3V1S5 CPSF3L "Integrator complex subunit 11" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|Q5TA45 CPSF3L "Integrator complex subunit 11" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
MGI|MGI:1919207 Cpsf3l "cleavage and polyadenylation specific factor 3-like" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
RGD|1306841 Cpsf3l "cleavage and polyadenylation specific factor 3-like" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|E2QY53 CPSF3L "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|E1B7Q9 CPSF3L "Integrator complex subunit 11" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|Q2YDM2 CPSF3L "Integrator complex subunit 11" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|F1RJE8 CPSF3L "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-050522-13 cpsf3l "cleavage and polyadenylation specific factor 3-like" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q8GUU3CPS3B_ARATH3, ., 1, ., 2, 7, ., -0.57710.90300.6231yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
gw1.X.6411.1
hypothetical protein (639 aa)
(Populus trichocarpa)
Predicted Functional Partners:
 
Sorry, there are no predicted associations at the current settings.
 

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query423
COG1236427 COG1236, YSH1, Predicted exonuclease of the beta-l 2e-51
smart01027126 smart01027, Beta-Casp, Beta-Casp domain 4e-38
COG1782637 COG1782, COG1782, Predicted metal-dependent RNase, 3e-35
pfam10996124 pfam10996, Beta-Casp, Beta-Casp domain 6e-35
TIGR03675630 TIGR03675, arCOG00543, arCOG00543 universal archae 1e-34
pfam0752143 pfam07521, RMMBL, RNA-metabolising metallo-beta-la 2e-10
>gnl|CDD|224157 COG1236, YSH1, Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis] Back     alignment and domain information 
 Score =  178 bits (453), Expect = 2e-51
 Identities = 81/220 (36%), Positives = 115/220 (52%), Gaps = 7/220 (3%)

Query: 1   VHKCVAGGGKVLIPAFALGRAQELCILLDDYWERMNLRVPIYFSAGLTIQANMYYKMLIS 60
           V   +  GG VLIPAFALGRAQEL ++L +     +   PIY    +   A  Y K  I 
Sbjct: 209 VKAALERGGTVLIPAFALGRAQELLLILRELGFAGD--YPIYVDGPIARVALAYAKYPIG 266

Query: 61  WTSQKVKETY--NAFDFKNVHNFDRSLIDAPGPCVLFATPGMLTGGFSLEVFKHWAPSEM 118
                + +         ++  N  R  ID  GP V+ A PGML GG S    KH    E 
Sbjct: 267 LDLPDLLKVAESRFRFVESRRNSMREGID-KGPAVVLAAPGMLKGGRSRYYLKHLLSDEK 325

Query: 119 NLITLPGYCLAGTIGNKLMSGNPTIELEGTKIDVRCQIHQLAFSPHTDGKGIMDLVKFLS 178
           N + LPGY   GT+G  L+ G  ++ ++G +I V+ ++ +L FS H DG  +++ +K +S
Sbjct: 326 NWVLLPGYQAEGTLGRVLLEGGTSVHIKGIEIKVKARVEELDFSAHADGDELLEFIKDIS 385

Query: 179 PQHVILVHGEKPKMATLKERIQSE-LGIKCYD-PANNESM 216
           P  V+LVHGE    A L+ R+  E +GI+  + PAN E  
Sbjct: 386 PPKVVLVHGEPEYGAALRARLLEELIGIRELELPANGEEY 425

Length = 427
>gnl|CDD|214983 smart01027, Beta-Casp, Beta-Casp domain Back     alignment and domain information
>gnl|CDD|224696 COG1782, COG1782, Predicted metal-dependent RNase, consists of a metallo-beta-lactamase domain and an RNA-binding KH domain [General function prediction only] Back     alignment and domain information
>gnl|CDD|220932 pfam10996, Beta-Casp, Beta-Casp domain Back     alignment and domain information
>gnl|CDD|188365 TIGR03675, arCOG00543, arCOG00543 universal archaeal KH-domain/beta-lactamase-domain protein Back     alignment and domain information
>gnl|CDD|203663 pfam07521, RMMBL, RNA-metabolising metallo-beta-lactamase Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 423
KOG1136501 consensus Predicted cleavage and polyadenylation s 100.0
KOG1137668 consensus mRNA cleavage and polyadenylation factor 100.0
TIGR03675630 arCOG00543 arCOG00543 universal archaeal KH-domain 100.0
COG1782637 Predicted metal-dependent RNase, consists of a met 100.0
COG1236427 YSH1 Predicted exonuclease of the beta-lactamase f 100.0
KOG1135764 consensus mRNA cleavage and polyadenylation factor 99.96
PF10996126 Beta-Casp: Beta-Casp domain; InterPro: IPR022712 T 99.95
TIGR00649422 MG423 conserved hypothetical protein. Contains an 99.74
KOG1138653 consensus Predicted cleavage and polyadenylation s 99.62
PF0752143 RMMBL: RNA-metabolising metallo-beta-lactamase; In 99.39
COG0595555 mRNA degradation ribonucleases J1/J2 (metallo-beta 96.65
PF11718216 CPSF73-100_C: Pre-mRNA 3'-end-processing endonucle 96.22
PF07522110 DRMBL: DNA repair metallo-beta-lactamase; InterPro 96.11
PRK00685228 metal-dependent hydrolase; Provisional 89.81
PRK00055270 ribonuclease Z; Reviewed 82.56
>KOG1136 consensus Predicted cleavage and polyadenylation specificity factor (CPSF subunit) [RNA processing and modification] Back     alignment and domain information 
Probab=100.00  E-value=2.2e-67  Score=517.29  Aligned_cols=273  Identities=60%  Similarity=1.075  Sum_probs=255.5

Q ss_pred             ChhhhcCCCeEEEccCchhHHHHHHHHHHHHHHhcCCCccEEEecchHHHHHHHHHHhHHhhhHHHHhhc---CCCCCCc
Q 043917            1 VHKCVAGGGKVLIPAFALGRAQELCILLDDYWERMNLRVPIYFSAGLTIQANMYYKMLISWTSQKVKETY---NAFDFKN   77 (423)
Q Consensus         1 I~~tl~~GG~VLIPvFALGRaQELL~lL~~~w~~~~~~vPIyvdS~ma~~~~~~y~~~~~~~~~~i~~~~---npF~f~~   77 (423)
                      ||+|+++||+||||+||||||||||++|+.||+++++++|||+.+|++.+++.||+.++.|.++.+++.+   |+|+|+|
T Consensus       225 VhecVa~GGkvlIPvFALGRAQElCiLLd~YWERm~lk~Piyfs~Glte~an~yyk~fiswtn~~v~k~~~~rNmfdfkh  304 (501)
T KOG1136|consen  225 VHECVARGGKVLIPVFALGRAQELCILLDDYWERMNLKVPIYFSSGLTEKANMYYKMFISWTNENVKKKFVERNMFDFKH  304 (501)
T ss_pred             HHHHHhcCCeEEEEeeecchHHHHHHHHHHHHHhhccCCCccccccccchhchHhhhhhhhcccchhhhhccCCcccccc
Confidence            6899999999999999999999999999999999999999999999999999999999999999998876   9999999


Q ss_pred             ccccccccccCCCCeEEEECCCCCCcccHHHHHHHhCCCCCCeEeeccccCCCCcccccccCCCeeeecCeEEEEeeeEE
Q 043917           78 VHNFDRSLIDAPGPCVLFATPGMLTGGFSLEVFKHWAPSEMNLITLPGYCLAGTIGNKLMSGNPTIELEGTKIDVRCQIH  157 (423)
Q Consensus        78 v~~~~~~~~~~~~P~VIiAssGML~~G~S~~~~~~~~~d~kN~IiltGYq~eGTlGr~Ll~g~~~I~i~g~~i~Vr~~V~  157 (423)
                      ++.+++.....+||+|+|||||||.+|+|+.+|++||+||.|+|+++|||+.||+|.++++|+.++++.|+.++|||.|+
T Consensus       305 iKpfd~~~~~~pGp~VlFatPGMLhaG~SLkvFK~W~~~~~NlvimPGYcV~GTvG~kvl~G~~kvei~~~~~eirl~V~  384 (501)
T KOG1136|consen  305 IKPFDRSYIEAPGPMVLFATPGMLHAGFSLKVFKKWCPDPLNLVIMPGYCVAGTVGHKVLNGATKVEIYGTKVEIRLKVE  384 (501)
T ss_pred             CChhhhhhhcCCCCEEEEcCCcccccccchHHHHhhCCCccceEeecCceeccchhhhhhCCccEEEEeeeEEEEEEEEE
Confidence            99999999999999999999999999999999999999999999999999999999999999988999999999999999


Q ss_pred             EEecCCCCChHHHHHHHHhcCCCEEEEecCChhHHHHHHHHHHHHhCCeeecCCCCCEEEecCcceEEecccHHHHhccC
Q 043917          158 QLAFSPHTDGKGIMDLVKFLSPQHVILVHGEKPKMATLKERIQSELGIKCYDPANNESMCIPSTHYVKAGASDAFIRSCM  237 (423)
Q Consensus       158 ~i~fSaHAD~~~Ll~lI~~l~P~~ViLVHGe~~~~~~L~~~L~~~~g~~v~~P~~Ge~v~l~~~~~~~v~~s~~l~~~~~  237 (423)
                      +++||||||.++++++++++.|++|+|||||..+|..|++++++++++++|+|+|||++.|++.+.+++++++.++.++.
T Consensus       385 ~maFSaHaDAkGIm~li~~csPknVmlVHGE~~kM~~Lk~ki~~e~~ip~~mPaNGetv~i~s~~~i~~ri~~~~~~~~~  464 (501)
T KOG1136|consen  385 YMAFSAHADAKGIMQLIKQCSPKNVMLVHGEKSKMKFLKEKIESEFDIPTFMPANGETVVISSTTYIKARIPDEFLVSLS  464 (501)
T ss_pred             EeeeccccCchhHHHHHHhcCcceEEEEeccchhhHHHHHhhHhhcCCceeeCCCCCEEEecccceeeecCcHHHHHHhc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             CCcccccccCccccccCCCcccCCCCCCCCCCCceeeeEEEecCCCCceeeeh
Q 043917          238 NPNFQYLKSGSEEKSVSGSKCTEGTLPLWIKDERVAEGILVLEKSEKAKVVHQ  290 (423)
Q Consensus       238 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~lv~~~~~~~~l~~~  290 (423)
                      .+++++-   .              .++...+.+...|++|.+++++.++++.
T Consensus       465 k~~~k~s---~--------------~qlr~~~~r~~~g~~v~~kd~~~~i~~~  500 (501)
T KOG1136|consen  465 KPNLKFS---S--------------TQLRVTDHRTADGVLVIEKDKKAKIVHQ  500 (501)
T ss_pred             Ccccccc---c--------------ccCCCCcccccCceEEEEecchhhhccC
Confidence            8887431   0              1222344566667777778899888875

>KOG1137 consensus mRNA cleavage and polyadenylation factor II complex, BRR5 (CPSF subunit) [RNA processing and modification] Back     alignment and domain information
>TIGR03675 arCOG00543 arCOG00543 universal archaeal KH-domain/beta-lactamase-domain protein Back     alignment and domain information
>COG1782 Predicted metal-dependent RNase, consists of a metallo-beta-lactamase domain and an RNA-binding KH domain [General function prediction only] Back     alignment and domain information
>COG1236 YSH1 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG1135 consensus mRNA cleavage and polyadenylation factor II complex, subunit CFT2 (CPSF subunit) [RNA processing and modification] Back     alignment and domain information
>PF10996 Beta-Casp: Beta-Casp domain; InterPro: IPR022712 The beta-CASP domain is found C-terminal to the beta-lactamase domain in pre-mRNA 3'-end-processing endonuclease Back     alignment and domain information
>TIGR00649 MG423 conserved hypothetical protein Back     alignment and domain information
>KOG1138 consensus Predicted cleavage and polyadenylation specificity factor (CPSF subunit) [RNA processing and modification] Back     alignment and domain information
>PF07521 RMMBL: RNA-metabolising metallo-beta-lactamase; InterPro: IPR011108 The metallo-beta-lactamase fold contains five sequence motifs Back     alignment and domain information
>COG0595 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair] Back     alignment and domain information
>PF11718 CPSF73-100_C: Pre-mRNA 3'-end-processing endonuclease polyadenylation factor C-term; InterPro: IPR021718 This is the C-terminal conserved region of the pre-mRNA 3'-end-processing of the polyadenylation factor CPSF-73/CPSF-100 proteins Back     alignment and domain information
>PF07522 DRMBL: DNA repair metallo-beta-lactamase; InterPro: IPR011084 The metallo-beta-lactamase fold contains five sequence motifs Back     alignment and domain information
>PRK00685 metal-dependent hydrolase; Provisional Back     alignment and domain information
>PRK00055 ribonuclease Z; Reviewed Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query423
2i7t_A459 Structure Of Human Cpsf-73 Length = 459 2e-36
3af5_A651 The Crystal Structure Of An Archaeal Cpsf Subunit, 1e-27
2ycb_A636 Structure Of The Archaeal Beta-Casp Protein With N- 5e-22
3a4y_A431 Crystal Structure Of H61a Mutant Ttha0252 From Ther 1e-19
3iek_A431 Crystal Structure Of Native Ttha0252 From Thermus T 1e-19
3idz_A431 Crystal Structure Of S378q Mutant Ttha0252 From The 3e-19
2xr1_A640 Dimeric Archaeal Cleavage And Polyadenylation Speci 4e-19
3ie0_A431 Crystal Structure Of S378y Mutant Ttha0252 From The 5e-19
2dkf_A431 Crystal Structure Of Ttha0252 From Thermus Thermoph 1e-18
3ie1_A431 Crystal Structure Of H380a Mutant Ttha0252 From The 1e-18
3ie2_A431 Crystal Structure Of H400v Mutant Ttha0252 From The 2e-18
>pdb|2I7T|A Chain A, Structure Of Human Cpsf-73 Length = 459 Back     alignment and structure 
Iteration: 1

 Score =  150 bits (378), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 80/231 (34%), Positives = 131/231 (56%), Gaps = 13/231 (5%)
Query: 1   VHKCVAGGGKVLIPAFALGRAQELCILLDDYWERMN--LRVPIYFSAGLTIQANMYYKML 58
           VH  V  GG+ LIP FALGRAQEL ++LD+YW+       +PIY+++ L  +    Y+  
Sbjct: 226 VHDIVNRGGRGLIPVFALGRAQELLLILDEYWQNHPELHDIPIYYASSLAKKCMAVYQTY 285
Query: 59  ISWTSQKVKETYN---AFDFKNVHNFDR-SLIDAPGPCVLFATPGMLTGGFSLEVFKHWA 114
           ++  + K+++  N    F FK++ N       D  GP V+ A+PGM+  G S E+F+ W 
Sbjct: 286 VNAMNDKIRKQININNPFVFKHISNLKSMDHFDDIGPSVVMASPGMMQSGLSRELFESWC 345
Query: 115 PSEMNLITLPGYCLAGTIGNKLMSGNPTI-ELEGTKIDVRCQIHQLAFSPHTDGKGIMDL 173
             + N + + GYC+ GT+   +MS    I  + G K+ ++  +  ++FS HTD +   + 
Sbjct: 346 TDKRNGVIIAGYCVEGTLAKHIMSEPEEITTMSGQKLPLKMSVDYISFSAHTDYQQTSEF 405
Query: 174 VKFLSPQHVILVHGEKPKMATLKERI------QSELGIKCYDPANNESMCI 218
           ++ L P HVILVHGE+ +MA LK  +        E+ I+ ++P N E++ +
Sbjct: 406 IRALKPPHVILVHGEQNEMARLKAALIREYEDNDEVHIEVHNPRNTEAVTL 456
>pdb|3AF5|A Chain A, The Crystal Structure Of An Archaeal Cpsf Subunit, Ph1404 From Pyrococcus Horikoshii Length = 651 Back     alignment and structure
>pdb|2YCB|A Chain A, Structure Of The Archaeal Beta-Casp Protein With N-Terminal Kh Domains From Methanothermobacter Thermautotrophicus Length = 636 Back     alignment and structure
>pdb|3A4Y|A Chain A, Crystal Structure Of H61a Mutant Ttha0252 From Thermus Thermophilus Hb8 Length = 431 Back     alignment and structure
>pdb|3IEK|A Chain A, Crystal Structure Of Native Ttha0252 From Thermus Thermophilus Hb8 Length = 431 Back     alignment and structure
>pdb|3IDZ|A Chain A, Crystal Structure Of S378q Mutant Ttha0252 From Thermus Thermophilus Hb8 Length = 431 Back     alignment and structure
>pdb|2XR1|A Chain A, Dimeric Archaeal Cleavage And Polyadenylation Specificity Factor With N-Terminal Kh Domains (Kh-Cpsf) From Methanosarcina Mazei Length = 640 Back     alignment and structure
>pdb|3IE0|A Chain A, Crystal Structure Of S378y Mutant Ttha0252 From Thermus Thermophilus Hb8 Length = 431 Back     alignment and structure
>pdb|2DKF|A Chain A, Crystal Structure Of Ttha0252 From Thermus Thermophilus Hb8, A Rna Degradation Protein Of The Metallo-Beta-Lactamase Superfamily Length = 431 Back     alignment and structure
>pdb|3IE1|A Chain A, Crystal Structure Of H380a Mutant Ttha0252 From Thermus Thermophilus Hb8 Complexed With Rna Length = 431 Back     alignment and structure
>pdb|3IE2|A Chain A, Crystal Structure Of H400v Mutant Ttha0252 From Thermus Thermophilus Hb8 Length = 431 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query423
2i7t_A459 Cleavage and polyadenylation specificity factor 73 2e-86
3iek_A431 Ribonuclease TTHA0252; metallo beta lactamase fold 6e-85
3af5_A651 Putative uncharacterized protein PH1404; archaeal 7e-83
2xr1_A640 Cleavage and polyadenylation specificity factor 1 7e-80
2ycb_A636 Beta-CAsp RNAse, cleavage and polyadenylation spec 7e-79
2i7x_A717 Protein CFT2; polyadenylation, metallo-B-lactamase 4e-35
2i7x_A717 Protein CFT2; polyadenylation, metallo-B-lactamase 2e-04
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 3e-07
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 9e-04
>2i7t_A Cleavage and polyadenylation specificity factor 73 kDa subunit; metallo-B-lactamase, PRE-mRNA processing, artemis, V(D)J recombination; 2.10A {Homo sapiens} SCOP: d.157.1.10 PDB: 2i7v_A Length = 459 Back     alignment and structure
 Score =  269 bits (690), Expect = 2e-86
 Identities = 80/232 (34%), Positives = 131/232 (56%), Gaps = 13/232 (5%)

Query: 1   VHKCVAGGGKVLIPAFALGRAQELCILLDDYWERMNL--RVPIYFSAGLTIQANMYYKML 58
           VH  V  GG+ LIP FALGRAQEL ++LD+YW+       +PIY+++ L  +    Y+  
Sbjct: 226 VHDIVNRGGRGLIPVFALGRAQELLLILDEYWQNHPELHDIPIYYASSLAKKCMAVYQTY 285

Query: 59  ISWTSQKVKETY---NAFDFKNVHNFDRS-LIDAPGPCVLFATPGMLTGGFSLEVFKHWA 114
           ++  + K+++     N F FK++ N       D  GP V+ A+PGM+  G S E+F+ W 
Sbjct: 286 VNAMNDKIRKQININNPFVFKHISNLKSMDHFDDIGPSVVMASPGMMQSGLSRELFESWC 345

Query: 115 PSEMNLITLPGYCLAGTIGNKLMSGNPTI-ELEGTKIDVRCQIHQLAFSPHTDGKGIMDL 173
             + N + + GYC+ GT+   +MS    I  + G K+ ++  +  ++FS HTD +   + 
Sbjct: 346 TDKRNGVIIAGYCVEGTLAKHIMSEPEEITTMSGQKLPLKMSVDYISFSAHTDYQQTSEF 405

Query: 174 VKFLSPQHVILVHGEKPKMATLKERIQSE------LGIKCYDPANNESMCIP 219
           ++ L P HVILVHGE+ +MA LK  +  E      + I+ ++P N E++ + 
Sbjct: 406 IRALKPPHVILVHGEQNEMARLKAALIREYEDNDEVHIEVHNPRNTEAVTLN 457
>3iek_A Ribonuclease TTHA0252; metallo beta lactamase fold, endonuclease, hydrolase, metal- nuclease, RNA-binding, rRNA processing; HET: FLC; 2.05A {Thermus thermophilus} PDB: 2dkf_A* 3iel_A* 3iem_A* 2zdf_A* 3idz_A* 2zdd_A* 3ie0_A* 2zde_A* 3ie1_A* 2zdw_A* 3a4y_A* 2yvd_A* 3ie2_A* Length = 431 Back     alignment and structure
>3af5_A Putative uncharacterized protein PH1404; archaeal CPSF, beta-CAsp family, KH domain, ribonuclease, ME beta-lactamase superfamily, archaea; 2.60A {Pyrococcus horikoshii} PDB: 3af6_A* Length = 651 Back     alignment and structure
>2xr1_A Cleavage and polyadenylation specificity factor 1 subunit; hydrolase, metallo-beta-lactamase, beta-CAsp, RNA processing; 2.59A {Methanosarcina mazei} Length = 640 Back     alignment and structure
>2ycb_A Beta-CAsp RNAse, cleavage and polyadenylation specificity factor; hydrolase, KH, metallo-beta-lactamase; 3.10A {Methanothermobacter thermautotrophicusorganism_taxid} Length = 636 Back     alignment and structure
>2i7x_A Protein CFT2; polyadenylation, metallo-B-lactamase, PRE-mRNA processing, artemis, V(D)J recombination, double-strand break repair; 2.50A {Saccharomyces cerevisiae} SCOP: d.157.1.10 Length = 717 Back     alignment and structure
>2i7x_A Protein CFT2; polyadenylation, metallo-B-lactamase, PRE-mRNA processing, artemis, V(D)J recombination, double-strand break repair; 2.50A {Saccharomyces cerevisiae} SCOP: d.157.1.10 Length = 717 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query423
3iek_A431 Ribonuclease TTHA0252; metallo beta lactamase fold 100.0
2i7t_A459 Cleavage and polyadenylation specificity factor 73 100.0
3af5_A651 Putative uncharacterized protein PH1404; archaeal 100.0
2xr1_A640 Cleavage and polyadenylation specificity factor 1 100.0
2ycb_A636 Beta-CAsp RNAse, cleavage and polyadenylation spec 100.0
2i7x_A717 Protein CFT2; polyadenylation, metallo-B-lactamase 99.95
3zq4_A555 Ribonuclease J 1, RNAse J1; hydrolase, RNA maturat 99.85
3bk2_A562 RNAse J, metal dependent hydrolase; endoribonuclea 99.84
2az4_A429 Hypothetical protein EF2904; structural genomics, 99.43
4b87_A367 DNA cross-LINK repair 1A protein; dclre1A, DCLRE, 98.66
3zdk_A336 5' exonuclease apollo; hydrolase; HET: TLA; 2.16A 98.21
3rpc_A264 Possible metal-dependent hydrolase; structural gen 92.02
2wyl_A360 L-ascorbate-6-phosphate lactonase ULAG; hydrolase; 91.36
3bv6_A379 Metal-dependent hydrolase; metallo protein, beta-l 90.04
1zkp_A268 Hypothetical protein BA1088; zinc binding protein, 84.16
2e7y_A280 TRNAse Z; tRNA maturation, metallo-beta-lactaMSe, 83.21
>3iek_A Ribonuclease TTHA0252; metallo beta lactamase fold, endonuclease, hydrolase, metal- nuclease, RNA-binding, rRNA processing; HET: FLC; 2.05A {Thermus thermophilus} SCOP: d.157.1.10 PDB: 2dkf_A* 3iel_A* 3iem_A* 2zdf_A* 3idz_A* 2zdd_A* 3ie0_A* 2zde_A* 3ie1_A* 2zdw_A* 3a4y_A* 2yvd_A* 3ie2_A* Back     alignment and structure
Probab=100.00  E-value=3.5e-53  Score=436.31  Aligned_cols=214  Identities=30%  Similarity=0.505  Sum_probs=197.7

Q ss_pred             ChhhhcCCCeEEEccCchhHHHHHHHHHHHHHHhcCCCccEEEecchHHHHHHHHHHhHHhhhHHHHhhc----CCCCCC
Q 043917            1 VHKCVAGGGKVLIPAFALGRAQELCILLDDYWERMNLRVPIYFSAGLTIQANMYYKMLISWTSQKVKETY----NAFDFK   76 (423)
Q Consensus         1 I~~tl~~GG~VLIPvFALGRaQELL~lL~~~w~~~~~~vPIyvdS~ma~~~~~~y~~~~~~~~~~i~~~~----npF~f~   76 (423)
                      |.+++++||+||||+||+||+|||+++|+++|++. .++|||+|||||.+++++|+.+.+|+++++++.+    |||.|+
T Consensus       208 i~~~~~~gg~vlIp~fa~gR~qell~~l~~~~~~~-~~~pi~~~s~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~pf~~~  286 (431)
T 3iek_A          208 LEKTLSQGGKVLIPTFAVERAQEILYVLYTHGHRL-PRAPIYLDSPMAGRVLSLYPRLVRYFSEEVQAHFLQGKNPFRPA  286 (431)
T ss_dssp             HHHHHHTTCEEEEECCTTTHHHHHHHHHHHHGGGS-CCCCEEEECHHHHHHHHHGGGGGGGSCHHHHHHHHTTSCTTCCT
T ss_pred             HHHHHHcCCeEEEEeccchHHHHHHHHHHHHHHhc-cCCCEEEeChHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCCCCC
Confidence            35678999999999999999999999999999883 3899999999999999999999999999987654    899999


Q ss_pred             cccccc---c--ccccCCCCeEEEECCCCCCcccHHHHHHHhCCCCCCeEeeccccCCCCcccccccCCCeeeecCeEEE
Q 043917           77 NVHNFD---R--SLIDAPGPCVLFATPGMLTGGFSLEVFKHWAPSEMNLITLPGYCLAGTIGNKLMSGNPTIELEGTKID  151 (423)
Q Consensus        77 ~v~~~~---~--~~~~~~~P~VIiAssGML~~G~S~~~~~~~~~d~kN~IiltGYq~eGTlGr~Ll~g~~~I~i~g~~i~  151 (423)
                      +++.++   +  .++..++||||||+||||++|++++||++|++||+|+|+|||||++||+||+|++|++.|++.|+.++
T Consensus       287 ~~~~~~~~~~~~~~~~~~~p~viia~~gm~~~G~~~~~l~~~~~~~~n~ii~~gyq~~gt~g~~l~~~~~~v~~~g~~~~  366 (431)
T 3iek_A          287 GLEVVEHTEASKALNRAPGPMVVLAGSGMLAGGRILHHLKHGLSDPRNALVFVGYQPQGGLGAEIIARPPAVRILGEEVP  366 (431)
T ss_dssp             TEEECCSHHHHHHHHHSCSSEEEEESCTTSSSSHHHHHHHHHTTCTTCEEEECSCCCTTSHHHHHHTCCSEEEETTEEEE
T ss_pred             CeEEeCCHHHHHHHhcCCCCeEEEecCCCCCCChHHHHHHHhcCCCCCeEEEECCCCCCChHHHhhcCCcEEEECCEEEE
Confidence            986443   2  24557899999999999999999999999999999999999999999999999999989999999999


Q ss_pred             EeeeEEEE-ecCCCCChHHHHHHHHhcCCCEEEEecCChhHHHHHHHHHHHHhCCeeecCCCCCEEEe
Q 043917          152 VRCQIHQL-AFSPHTDGKGIMDLVKFLSPQHVILVHGEKPKMATLKERIQSELGIKCYDPANNESMCI  218 (423)
Q Consensus       152 Vr~~V~~i-~fSaHAD~~~Ll~lI~~l~P~~ViLVHGe~~~~~~L~~~L~~~~g~~v~~P~~Ge~v~l  218 (423)
                      |+|+|+++ +||||||+++|++|++.++  +|||||||+++++.|+++|+++++ +|++|++||++++
T Consensus       367 v~a~v~~~~~~saHad~~~l~~~~~~~~--~v~lvHge~~~~~~l~~~l~~~~~-~~~~p~~~~~~~~  431 (431)
T 3iek_A          367 LRASVHTLGGFSGHAGQDELLDWLQGEP--RVVLVHGEEEKLLALGKLLALRGQ-EVSLARFGEGVPV  431 (431)
T ss_dssp             CCSEEEECGGGCSSCCHHHHHHHHTTCS--EEEEESSCHHHHHHHHHHHHHTTC-EEEECCTTCCEEC
T ss_pred             EEEEEEEECCccccCCHHHHHHHHHhCC--eEEEECCCHHHHHHHHHHHHHhCC-cEEECCCCCEEeC
Confidence            99999999 6999999999999999774  999999999999999999998755 9999999999975
>2i7t_A Cleavage and polyadenylation specificity factor 73 kDa subunit; metallo-B-lactamase, PRE-mRNA processing, artemis, V(D)J recombination; 2.10A {Homo sapiens} SCOP: d.157.1.10 PDB: 2i7v_A Back     alignment and structure
>3af5_A Putative uncharacterized protein PH1404; archaeal CPSF, beta-CAsp family, KH domain, ribonuclease, ME beta-lactamase superfamily, archaea; 2.60A {Pyrococcus horikoshii} PDB: 3af6_A* Back     alignment and structure
>2xr1_A Cleavage and polyadenylation specificity factor 1 subunit; hydrolase, metallo-beta-lactamase, beta-CAsp, RNA processing; 2.59A {Methanosarcina mazei} Back     alignment and structure
>2ycb_A Beta-CAsp RNAse, cleavage and polyadenylation specificity factor; hydrolase, KH, metallo-beta-lactamase; 3.10A {Methanothermobacter thermautotrophicusorganism_taxid} Back     alignment and structure
>2i7x_A Protein CFT2; polyadenylation, metallo-B-lactamase, PRE-mRNA processing, artemis, V(D)J recombination, double-strand break repair; 2.50A {Saccharomyces cerevisiae} SCOP: d.157.1.10 Back     alignment and structure
>3zq4_A Ribonuclease J 1, RNAse J1; hydrolase, RNA maturation; 3.00A {Bacillus subtilis} Back     alignment and structure
>3bk2_A RNAse J, metal dependent hydrolase; endoribonuclease, exoribonuclease, metallo-beta-lactamase; HET: U5P; 2.10A {Thermus thermophilus} PDB: 3bk1_A* 3t3o_A* 3t3n_A* Back     alignment and structure
>2az4_A Hypothetical protein EF2904; structural genomics, PSI, protein STR initiative, midwest center for structural genomics, MCSG, U function; 2.00A {Enterococcus faecalis} SCOP: d.157.1.10 Back     alignment and structure
>4b87_A DNA cross-LINK repair 1A protein; dclre1A, DCLRE, interstrand crosslink repair, hydrolase, NIT mustard, cancer, chemotherapy, PSO2 homolog,; HET: DNA; 2.16A {Homo sapiens} Back     alignment and structure
>3zdk_A 5' exonuclease apollo; hydrolase; HET: TLA; 2.16A {Homo sapiens} Back     alignment and structure
>3rpc_A Possible metal-dependent hydrolase; structural genomics, PSI-biology, protein structure initiati midwest center for structural genomics; 1.49A {Veillonella parvula} Back     alignment and structure
>2wyl_A L-ascorbate-6-phosphate lactonase ULAG; hydrolase; 2.59A {Escherichia coli} PDB: 2wym_A* Back     alignment and structure
>3bv6_A Metal-dependent hydrolase; metallo protein, beta-lactamase like fold, MCSG, structural PSI-2, protein structure initiative; 1.80A {Vibrio cholerae o1 biovar eltor} Back     alignment and structure
>1zkp_A Hypothetical protein BA1088; zinc binding protein, structural genomics, PSI, protein STRU initiative; 1.50A {Bacillus anthracis str} SCOP: d.157.1.9 Back     alignment and structure
>2e7y_A TRNAse Z; tRNA maturation, metallo-beta-lactaMSe, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.97A {Thermotoga maritima} SCOP: d.157.1.7 PDB: 1ww1_A Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 423
d2i7xa1514 d.157.1.10 (A:1-422,A:626-717) Cleavage factor two 7e-41
d2dkfa1431 d.157.1.10 (A:1-431) Putative RNA-degradation prot 2e-37
d2i7ta1451 d.157.1.10 (A:9-459) Cleavage and polyadenylation 1e-32
>d2i7xa1 d.157.1.10 (A:1-422,A:626-717) Cleavage factor two protein 2, CFT2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 514 Back     information, alignment and structure

class: Alpha and beta proteins (a+b)
fold: Metallo-hydrolase/oxidoreductase
superfamily: Metallo-hydrolase/oxidoreductase
family: beta-CASP RNA-metabolising hydrolases
domain: Cleavage factor two protein 2, CFT2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  149 bits (378), Expect = 7e-41
 Identities = 34/281 (12%), Positives = 80/281 (28%), Gaps = 70/281 (24%)

Query: 2   HKCVAGGGKVLIPAFALGRAQELCILLDDYWERMNL-----RVPIYFSAGLTIQANMYYK 56
            K ++  G V+IP    G+  +L   + +            +VP+   +    +   Y K
Sbjct: 235 KKGLSSDGSVIIPVDMSGKFLDLFTQVHELLFESTKINAHTQVPVLILSYARGRTLTYAK 294

Query: 57  MLISWTSQKVKETY------NAFDFKNVHNFDRS--LIDAPGPCVLFATPGMLTGGFSLE 108
            ++ W S  + +T+      + F+  +         L   PG  + F +          E
Sbjct: 295 SMLEWLSPSLLKTWENRNNTSPFEIGSRIKIIAPNELSKYPGSKICFVSEVG---ALINE 351

Query: 109 VFKHWAPSEMNLI--TLPGYCLAGTIGNKLMSGNPTIE---------------------- 144
           V      SE   +  T P +  A ++   L                              
Sbjct: 352 VIIKVGNSEKTTLILTKPSFECASSLDKILEIVEQDERNWKTFPEDGKSFLCDNYISIDT 411

Query: 145 -----------------------------LEGTKIDVRCQIHQLAFSPHTDGKGIMDLVK 175
                                        +    + ++C +  L      D +    +  
Sbjct: 412 IKEEPLSKEETNFDNLDYLKIDKTLSKRTISTVNVQLKCSVVILNLQSLVDQRSASIIWP 471

Query: 176 FLSPQHVILVHGEKPKMATLKERIQSELGIKCYDPANNESM 216
            L  + ++L   ++ +   +  ++  +  I+  +   N+ +
Sbjct: 472 SLKSRKIVLSAPKQIQNEEITAKLIKK-NIEVVNMPLNKIV 511
>d2dkfa1 d.157.1.10 (A:1-431) Putative RNA-degradation protein TTHA0252 {Thermus thermophilus [TaxId: 274]} Length = 431 Back     information, alignment and structure
>d2i7ta1 d.157.1.10 (A:9-459) Cleavage and polyadenylation specificity factor subunit 3 {Human (Homo sapiens) [TaxId: 9606]} Length = 451 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

Original result of HHsearch against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query423
d2i7xa1514 Cleavage factor two protein 2, CFT2 {Baker's yeast 100.0
d2dkfa1431 Putative RNA-degradation protein TTHA0252 {Thermus 100.0
d2i7ta1451 Cleavage and polyadenylation specificity factor su 99.95
d1zkpa1244 Hypothetical protein BA1088 (BAS1016) {Bacillus an 90.44
d2e7ya1280 Ribonuclease Z (RNase Z) {Thermotoga maritima [Tax 88.85
d1uxoa_186 Hypothetical protein YdeN {Bacillus subtilis [TaxI 80.53
d1y44a1307 Ribonuclease Z (RNase Z) {Bacillus subtilis [TaxId 80.27
>d2i7xa1 d.157.1.10 (A:1-422,A:626-717) Cleavage factor two protein 2, CFT2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Metallo-hydrolase/oxidoreductase
superfamily: Metallo-hydrolase/oxidoreductase
family: beta-CASP RNA-metabolising hydrolases
domain: Cleavage factor two protein 2, CFT2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.7e-42  Score=361.53  Aligned_cols=215  Identities=15%  Similarity=0.243  Sum_probs=189.5

Q ss_pred             ChhhhcCCCeEEEccCchhHHHHHHHHHHHHHHhcC-----CCccEEEecchHHHHHHHHHHhHHhhhHHHHhhc-----
Q 043917            1 VHKCVAGGGKVLIPAFALGRAQELCILLDDYWERMN-----LRVPIYFSAGLTIQANMYYKMLISWTSQKVKETY-----   70 (423)
Q Consensus         1 I~~tl~~GG~VLIPvFALGRaQELL~lL~~~w~~~~-----~~vPIyvdS~ma~~~~~~y~~~~~~~~~~i~~~~-----   70 (423)
                      |.+++++||+||||+||+||+|||+++|+++|++..     .++|||++|+|+.+++++|+.+.+||++++++.+     
T Consensus       234 i~~~~~~gG~VlIP~fa~gR~QEil~~l~~~~~~~~~~~~~~~~pI~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~  313 (514)
T d2i7xa1         234 LKKGLSSDGSVIIPVDMSGKFLDLFTQVHELLFESTKINAHTQVPVLILSYARGRTLTYAKSMLEWLSPSLLKTWENRNN  313 (514)
T ss_dssp             HHHHTSTTCEEEEEECTTTHHHHHHHHHHHHHTTC-------CCCEEEECTTTTHHHHHHHTCGGGSCHHHHHHHHSSSS
T ss_pred             HHHHHhCCCEEEEEEcCchHHHHHHHHHHHHHHHHHhhccCCCceEEEEChHHHHHHHHHHHhHhhcCHHHHHHHhhhcC
Confidence            467899999999999999999999999999997542     3789999999999999999999999999887653     


Q ss_pred             -CCCCCCcccccc--cccccCCCCeEEEECCCCCCcccHHHHHHHhCCCCCCeEeec--cccCCCCcccccccCCC----
Q 043917           71 -NAFDFKNVHNFD--RSLIDAPGPCVLFATPGMLTGGFSLEVFKHWAPSEMNLITLP--GYCLAGTIGNKLMSGNP----  141 (423)
Q Consensus        71 -npF~f~~v~~~~--~~~~~~~~P~VIiAssGML~~G~S~~~~~~~~~d~kN~Iilt--GYq~eGTlGr~Ll~g~~----  141 (423)
                       +||+|++++.+.  +.+.+.++|||||||+||   |+++++|++|++||+|+|+||  |||.++|+|+++.....    
T Consensus       314 ~~pf~~~~~~~i~~~~~l~~~~~p~VIiat~~~---G~~~~~l~~~a~d~~n~Vi~t~~g~~~~~t~~~~~~~~~~~~~~  390 (514)
T d2i7xa1         314 TSPFEIGSRIKIIAPNELSKYPGSKICFVSEVG---ALINEVIIKVGNSEKTTLILTKPSFECASSLDKILEIVEQDERN  390 (514)
T ss_dssp             CCTTCCTTTEEECCGGGGGGCCSCEEEEEESCH---HHHHHHHHHHSSCTTEEEEECSSCCTTCHHHHHHHHHHHTCC--
T ss_pred             CCchhccCceeccCHHHHHhccCCcEEEEcCCC---chHHHHHHHHhcCCCCEEEEecCCCcccccHHHHHhhhhhhccc
Confidence             799999987553  345667899999999997   999999999999999999999  99999999998752100    


Q ss_pred             -----------------------------------------------eeeecCeEEEEeeeEEEEecCCCCChHHHHHHH
Q 043917          142 -----------------------------------------------TIELEGTKIDVRCQIHQLAFSPHTDGKGIMDLV  174 (423)
Q Consensus       142 -----------------------------------------------~I~i~g~~i~Vr~~V~~i~fSaHAD~~~Ll~lI  174 (423)
                                                                     +..+.+..++|+|+|++++||||||+++|++|+
T Consensus       391 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~v~~i~~SgHad~~el~~~~  470 (514)
T d2i7xa1         391 WKTFPEDGKSFLCDNYISIDTIKEEPLSKEETNFDNLDYLKIDKTLSKRTISTVNVQLKCSVVILNLQSLVDQRSASIIW  470 (514)
T ss_dssp             ------CCCCEECCEEEEEEEEEEEESCSCCCCCSCCGGGSCSSCCEEEEEEEEEEEECSEEEECCCCCSCCHHHHHHHG
T ss_pred             cccccccccccccCcceeecccccccccccccCcccccccccccccceeecccceEEEEEEEEEEEeeecCCHHHHHHHH
Confidence                                                           011235678999999999999999999999999


Q ss_pred             HhcCCCEEEEecCChhHHHHHHHHHHHHhCCeeecCCCCCEEEec
Q 043917          175 KFLSPQHVILVHGEKPKMATLKERIQSELGIKCYDPANNESMCIP  219 (423)
Q Consensus       175 ~~l~P~~ViLVHGe~~~~~~L~~~L~~~~g~~v~~P~~Ge~v~l~  219 (423)
                      +.++|++|||||||+.++++|++.|+++ |++|++|++||+|+++
T Consensus       471 ~~~~P~~vvlvHGe~~~~~~~a~~l~~~-g~~v~~p~~g~~ie~~  514 (514)
T d2i7xa1         471 PSLKSRKIVLSAPKQIQNEEITAKLIKK-NIEVVNMPLNKIVEFS  514 (514)
T ss_dssp             GGSCCSEEEECSCGGGSCHHHHHHHHHT-TCEEEECCSSCCEEEC
T ss_pred             HhhCCCEEEEeCCCHHHHHHHHHHHHHC-CCeEEecCCCCEEeeC
Confidence            9999999999999999999999999876 9999999999999874
>d2dkfa1 d.157.1.10 (A:1-431) Putative RNA-degradation protein TTHA0252 {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d2i7ta1 d.157.1.10 (A:9-459) Cleavage and polyadenylation specificity factor subunit 3 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1zkpa1 d.157.1.9 (A:1-244) Hypothetical protein BA1088 (BAS1016) {Bacillus anthracis [TaxId: 1392]} Back     information, alignment and structure
>d2e7ya1 d.157.1.7 (A:1-280) Ribonuclease Z (RNase Z) {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d1uxoa_ c.69.1.31 (A:) Hypothetical protein YdeN {Bacillus subtilis [TaxId: 1423]} Back     information, alignment and structure
>d1y44a1 d.157.1.7 (A:1-307) Ribonuclease Z (RNase Z) {Bacillus subtilis [TaxId: 1423]} Back     information, alignment and structure