Citrus Sinensis ID: 005338

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-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-
MEDSEGGLSFDFEGGLDAGPGMPTASNPAIQSDSTAAAAAAAANANHAAPSSSGAAPDHASAPVPHHSGRRSFRQTVCRHWLRSLCMKGDACGFLHQYDKSRMPVCRFFRLFGECREQDCVYKHTNEDIKECNMYKLGFCPNGPDCRYRHVKLPGPPPSVEEVLQKIQQISSYNHGNPNKHFQQRGAFSHQTDKSQFSQGPNAVNQGAAGKSSTAESANVHQQQLVQQPQQQGTQTTQMQNLPNGLPNQTNRNATPLPQGISRYFIVKSCNRENLELSVQQGVWATQRSNEAKLNEAFDSAENVILIFSVNRTRHFQGCAKMTSKIGGSVGGGNWKYAHGTAHYGRNFSVKWLKLCELSFHKTRHLRNPYNENLPVKISRDCQELEPSIGEQLAALLYLEPDSELMAISVAAEAKREEEKAKGVNPDNGGDNPDIVPFEDNEEEEEEESEEEEESLGTASQGRGRGRGMMWPGPMPLARGARPVPGMRGFPPMMIGADGFSYGVTPDGFPMPDLFGVAPRPFAPYGPRFSGDFTGPGGMMFPGRPPQPGSVFPPNGFGGMMMGPGRPPFMGGMGPAATNPRGGRPVGVPPPFPNQPQSSQNSSRAAKRDVRGSINDRNDRYSAGSDQGRAQEMGGPGRGPDDEVQYQQEGSKANQEDQYGSRNFRNDESESEDEAPRRSRHGEGKKKRRDSEGDAAASSDN
ccccccccEEEccccccccccccccccccccccHHHHHHHHHccccccccccccccccccccccccccccccccEEEcccHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccHHHHcccccccccccccccccccccccccccccccccccccccEEEEEccccHHHHHHHHHHcEEEEccccHHHHHHHHHHcccEEEEEEEcccccEEEEEEEcccccccccccccccccccccccccEEEEEEEEEccccccccccccccccccccccccccccccHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHccccccccccccccccccccHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccc
cccccccEEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHcccHccHHHHHHHcccHHHHHHHHcccccccccccccccccHHccccHHcccccccccccHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEcccccccccccccccccccccHHccccccccccccccEEEEEEEccccccHEEEEEEEEEccccccHHHHHHHHHHccEEEEEEEcccccEEEEEEEEccccccccccEEEEccccccccccccEEEEEEEEcccccEEEEEEEcccccccccccccccccHHHHHHHHHHHHcccccccHHHcHHHHHHHHHHHHHccccccccccccEEEcccccHHHHHccHHHHccccccHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHccccccccccccccccccccccccccccc
medsegglsfdfeggldagpgmptasnpaiqsdSTAAAAAAAANanhaapsssgaapdhasapvphhsgrrsfrQTVCRHWLRSLCmkgdacgflhqydksrmpvCRFFRLFgecreqdcvykhtnedikecnmyklgfcpngpdcryrhvklpgpppsVEEVLQKIQQIssynhgnpnkhfqqrgafshqtdksqfsqgpnavnqgaagksstaeSANVHQQqlvqqpqqqgtqttqmqnlpnglpnqtnrnatplpqgiSRYFIVKSCNRENLELSVQQGVWATQRSNEAKLNEAFDSAENVILIFSVNRTRHFQGCAKMTskiggsvgggnwkyahgtahygrnfSVKWLKLCELSfhktrhlrnpynenlpvkisrdcqelEPSIGEQLAALLYLEPDSELMAISVAAEAKREeekakgvnpdnggdnpdivpfedneeeeeeeseeeeeslgtasqgrgrgrgmmwpgpmplargarpvpgmrgfppmmigadgfsygvtpdgfpmpdlfgvaprpfapygprfsgdftgpggmmfpgrppqpgsvfppngfggmmmgpgrppfmggmgpaatnprggrpvgvpppfpnqpqssqnssraakrdvrgsindrndrysagsdqgraqemggpgrgpddevqyqqegskanqedqygsrnfrndesesedeaprrsrhgegkkkrrdsegdaaassdn
MEDSEGGLSFDFEGGLDAGPGMPTASNPAIQSDSTAAAAAAAANANHAAPSSSGAAPDHASapvphhsgrrsFRQTVCRHWLRSLCMKGDACGFLHQYDKSRMPVCRFFRLFGECREQDCVYKHTNEDIKECNMYKLGFCPNGPDCRYRHVKLPGPPPSVEEVLQKIQQISSYNHGNPNKHFQQRGAFSHQTDKSQFSQGPNAVNQGAAGKSSTAESANVHQQQLVQQPQQQGTQTTQMQNLPNGLPNQTNRNATPLPQGISRYFIVKSCNRENLELSVQQGVWATQRSNEAKLNEAFDSAENVILIFSVNRTRHFQGCAKMTSKIGGSVGGGNWKYAHGTAHYGRNFSVKWLKLCELSFHKTrhlrnpynenlpVKISRDCQELEPSIGEQLAALLYLEPDSELMAISVAAEAKREeekakgvnpdnggdnpdiVPFEDNEEEEeeeseeeeeslgtasqgrgrgrgMMWPGPMPLARGARPVPGMRGFPPMMIGADGFSYGVTPDGFPMPDLFGVAPRPFAPYGPRFSGDFTGPGGMMFPGRPPQPGSVFPPNGFGGMMMGPGRPPFMGGMGPAATNPRGGRPVGVPPPFpnqpqssqnssraakrdvrgsindrndrysagsdqgraqemggpgrgpDDEVQYQQEGskanqedqygsrnfrndesesedeaprrsrhgegkkkrrdsegdaaassdn
MEDSEGGLSFDFEGGLDAGPGMPTASNPAIQsdstaaaaaaaananhaapsssgaapdhasaPVPHHSGRRSFRQTVCRHWLRSLCMKGDACGFLHQYDKSRMPVCRFFRLFGECREQDCVYKHTNEDIKECNMYKLGFCPNGPDCRYRHVKLPGPPPSVEEVLQKIQQISSYNHGNPNKHFQQRGAFSHQTDKSQFSQGPNAVNQGAAGKSSTAESANVHqqqlvqqpqqqgtqttqmqNLPNGLPNQTNRNATPLPQGISRYFIVKSCNRENLELSVQQGVWATQRSNEAKLNEAFDSAENVILIFSVNRTRHFQGCAKMTSKIGGSVGGGNWKYAHGTAHYGRNFSVKWLKLCELSFHKTRHLRNPYNENLPVKISRDCQELEPSIGEQLAALLYLEPDSELMAISVaaeakreeekakGVNPDNGGDNPDIVPFEDNeeeeeeeseeeeesLGTASQgrgrgrgmmwpgpmpLARGARPVPGMRGFPPMMIGADGFSYGVTPDGFPMPDLFGVAPRPFAPYGPRFSGDFTgpggmmfpgrppqpgSVfppngfggmmmgpgrppfmggmgpAATnprggrpvgvpppfpnqpqssqnssrAAKRDVRGSINDRNDRYSAGSDQGRAQEMGGPGRGPDDEVQYQQEGSKANQEDQYGSRNFRNDESESEDEAPRRSRHGEGKKKRRDSEGDAAASSDN
************************************************************************FRQTVCRHWLRSLCMKGDACGFLHQYDKSRMPVCRFFRLFGECREQDCVYKHTNEDIKECNMYKLGFCPNGPDCRYRHVKL**********************************************************************************************************GISRYFIVKSCNRENLELSVQQGVWATQRSNEAKLNEAFDSAENVILIFSVNRTRHFQGCAKMTSKIGGSVGGGNWKYAHGTAHYGRNFSVKWLKLCELSFHKTRHLRNPYNENLPVKISRDCQELEPSIGEQLAALLYLEPD**LM*************************************************************************************PMMIGADGFSYGVTPDGFPMPDLFGVAPRPFAPYGPR*****************************************************************************************************************************************************************************
****EGGLSFDFEGGLDAGPGM*********SDSTAAAAAAAANANHAAP*****AP*HASAPVPHHSGRRSFRQTVCRHWLRSLCMKGDACGFLHQYDKSRMPVCRFFRLFGECREQDCVYKHTNEDIKECNMYKLGFCPNGPDCRYRHVKLPGPPPSVEEVLQKIQQISSYNHGNPNKHFQQRGAFSHQTDKSQFSQGPNAVNQGAAGKSSTAESANVHQQQLVQQPQQQGTQTTQMQNLPNGLPNQTNRNATPLPQGISRYFIVKSCNRENLELSVQQGVWATQRSNEAKLNEAFDSAENVILIFSVNRTRHFQGCAKMTSKIGGSVGGGNWKYAHGTAHYGRNFSVKWLKLCELSFHKTRHLRNPYNENLPVKISRDCQELEPSIGEQLAALLYLEPDSELMAI***************************************************************************************************************RPF***********************************************************************************************************************************************************************************
MEDSEGGLSFDFEGGLDAGPGMPTASNPAIQ******************************************RQTVCRHWLRSLCMKGDACGFLHQYDKSRMPVCRFFRLFGECREQDCVYKHTNEDIKECNMYKLGFCPNGPDCRYRHVKLPGPPPSVEEVLQKIQQISSYNHGNPNKHFQQR****************************************************QMQNLPNGLPNQTNRNATPLPQGISRYFIVKSCNRENLELSVQQGVWATQRSNEAKLNEAFDSAENVILIFSVNRTRHFQGCAKMTSKIGGSVGGGNWKYAHGTAHYGRNFSVKWLKLCELSFHKTRHLRNPYNENLPVKISRDCQELEPSIGEQLAALLYLEPDSELMAISVAA************NPDNGGDNPDIVPFE*************************RGRGMMWPGPMPLARGARPVPGMRGFPPMMIGADGFSYGVTPDGFPMPDLFGVAPRPFAPYGPRFSGDFTGPGGMMFPGRPPQPGSVFPPNGFGGMMMGPGRPPFMGGMGPAATNPRGGRPVGVPPPFP******************GSINDRND**********************************************************************************
*****GGLSFDFEGGLDAGPGMPTASN******************************************RRSFRQTVCRHWLRSLCMKGDACGFLHQYDKSRMPVCRFFRLFGECREQDCVYKHTNEDIKECNMYKLGFCPNGPDCRYRHVKLPGPPPSVEEVLQKIQ************************************************************************NLPNGLPNQTNRNATPLPQGISRYFIVKSCNRENLELSVQQGVWATQRSNEAKLNEAFDSAENVILIFSVNRTRHFQGCAKMTSKIGGSVGGGNWKYAHGTAHYGRNFSVKWLKLCELSFHKTRHLRNPYNENLPVKISRDCQELEPSIGEQLAALLYLEPDSELMAISVAAEAKREEEKAK********DNPDIV*FED****************************MMWPGPMPLARGARPVPGMRGFPPMMIGADGFSYGVTPDGFPMPDLFGVAPRPFAPYGPRFSGDFTGPGGMMFPGRPPQPGSVFPPNGFGGMMMGPGRPPFMGGMGPAATNPRGGRPVGVPPPFPNQPQS*******************************************************************************************************
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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MEDSEGGLSFDFEGGLDAGPGMPTASNPAIQSDSTAAAAAAAANANHAAPSSSGAAPDHASAPVPHHSGRRSFRQTVCRHWLRSLCMKGDACGFLHQYDKSRMPVCRFFRLFGECREQDCVYKHTNEDIKECNMYKLGFCPNGPDCRYRHVKLPGPPPSVEEVLQKIQQISSYNHGNPNKHFQQRGAFSHQTDKSQFSQGPNAVNQGAAGKSSTAESANVHQQQLVQQPQQQGTQTTQMQNLPNGLPNQTNRNATPLPQGISRYFIVKSCNRENLELSVQQGVWATQRSNEAKLNEAFDSAENVILIFSVNRTRHFQGCAKMTSKIGGSVGGGNWKYAHGTAHYGRNFSVKWLKLCELSFHKTRHLRNPYNENLPVKISRDCQELEPSIGEQLAALLYLEPDSELMAISVAAEAKREEEKAKGVNPDNGGDNPDIVPFEDNEEEEEEESEEEEESLGTASQGRGRGRGMMWPGPMPLARGARPVPGMRGFPPMMIGADGFSYGVTPDGFPMPDLFGVAPRPFAPYGPRFSGDFTGPGGMMFPGRPPQPGSVFPPNGFGGMMMGPGRPPFMGGMGPAATNPRGGRPVGVPPPFPNQPQSSQNSSRAAKRDVRGSINDRNDRYSAGSDQGRAQEMGGPGRGPDDEVQYQQEGSKANQEDQYGSRNFRNDESESEDEAPRRSRHGEGKKKRRDSEGDAAASSDN
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 ?
Query701 2.2.26 [Sep-21-2011]
A9LNK9631 Cleavage and polyadenylat yes no 0.890 0.988 0.610 0.0
Q0DA50665 Zinc finger CCCH domain-c yes no 0.914 0.963 0.577 0.0
Q5R746671 YTH domain-containing pro yes no 0.184 0.192 0.492 5e-27
B2RR831445 Probable ATP-dependent RN yes no 0.184 0.089 0.492 7e-27
Q9H6S01430 Probable ATP-dependent RN yes no 0.184 0.090 0.492 1e-26
Q96MU7727 YTH domain-containing pro no no 0.194 0.187 0.442 9e-24
Q9QY02738 YTH domain-containing pro no no 0.211 0.200 0.421 1e-23
A6NMK7179 Putative cleavage and pol no no 0.122 0.480 0.483 9e-21
O95639269 Cleavage and polyadenylat no no 0.125 0.327 0.473 5e-20
Q6DJP7269 Cleavage and polyadenylat N/A no 0.188 0.490 0.367 7e-20
>sp|A9LNK9|CPSF_ARATH Cleavage and polyadenylation specificity factor CPSF30 OS=Arabidopsis thaliana GN=CPSF30 PE=1 SV=1 Back     alignment and function desciption
 Score =  680 bits (1754), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 424/695 (61%), Positives = 485/695 (69%), Gaps = 71/695 (10%)

Query: 1   MEDSEGGLSFDFEGGLDAGPGMPTASNPAIQSDSTAAAAAAAANANHAAPSSSGAAPDHA 60
           MED++G LSFDFEGGLD+GP   TAS P    +++++AA       + AP+      DH+
Sbjct: 1   MEDADG-LSFDFEGGLDSGPVQNTASVPVAPPENSSSAAV------NVAPTY-----DHS 48

Query: 61  SAPVPHHSGRRSFRQTVCRHWLRSLCMKGDACGFLHQYDKSRMPVCRFFRLFGECREQDC 120
           SA V      RSFRQTVCRHWLR LCMKGDACGFLHQ+DK+RMP+CRFFRL+GECREQDC
Sbjct: 49  SATVAGAGRGRSFRQTVCRHWLRGLCMKGDACGFLHQFDKARMPICRFFRLYGECREQDC 108

Query: 121 VYKHTNEDIKECNMYKLGFCPNGPDCRYRHVKLPGPPPSVEEVLQKIQQISSYNHGNPNK 180
           VYKHTNEDIKECNMYKLGFCPNGPDCRYRH KLPGPPP VEEVLQKIQQ+++YN+G  N+
Sbjct: 109 VYKHTNEDIKECNMYKLGFCPNGPDCRYRHAKLPGPPPPVEEVLQKIQQLTTYNYGT-NR 167

Query: 181 HFQQRGAFSHQTDKSQFSQGPNAVNQGAAGKSSTAESANVHQQQLVQQPQQQGTQTTQMQ 240
            +Q R       D+ Q  Q P         +    ES N+ QQQ  Q  Q Q   +  + 
Sbjct: 168 LYQARNVAPQLQDRPQ-GQVPM--------QGQPQESGNLQQQQQQQPQQSQHQVSQTL- 217

Query: 241 NLPNGLPNQTNRNATPLPQGISRYFIVKSCNRENLELSVQQGVWATQRSNEAKLNEAFDS 300
            +PN   +QTNR + PLPQG++RYF+VKS NREN ELSVQQGVWATQRSNEAKLNEAFDS
Sbjct: 218 -IPNPA-DQTNRTSHPLPQGVNRYFVVKSNNRENFELSVQQGVWATQRSNEAKLNEAFDS 275

Query: 301 AENVILIFSVNRTRHFQGCAKMTSKIGGSVGGGNWKYAHGTAHYGRNFSVKWLKLCELSF 360
            ENVILIFSVNRTRHFQGCAKMTS+IGG +GGGNWK+ HGTA YGRNFSVKWLKLCELSF
Sbjct: 276 VENVILIFSVNRTRHFQGCAKMTSRIGGYIGGGNWKHEHGTAQYGRNFSVKWLKLCELSF 335

Query: 361 HKTRHLRNPYNENLPVKISRDCQELEPSIGEQLAALLYLEPDSELMAISVAAEAKREEEK 420
           HKTR+LRNPYNENLPVKISRDCQELEPS+GEQLA+LLYLEPDSELMAIS+AAEAKREEEK
Sbjct: 336 HKTRNLRNPYNENLPVKISRDCQELEPSVGEQLASLLYLEPDSELMAISIAAEAKREEEK 395

Query: 421 AKGVNPDNGGDNPDIVPF--EDNEEEEEEESEEEEESLGTASQGRGRGRGMMWPGPMPLA 478
           AKGVNP++  +NPDIVPF   + EEEEE+ESEEEEES+    QGRGRGRG+MWP  MPL 
Sbjct: 396 AKGVNPESRAENPDIVPFEDNEEEEEEEDESEEEEESMAGGPQGRGRGRGIMWPPQMPLG 455

Query: 479 RGARPVPGMRGFPPMMIG-ADGFSYGVTPDGFP-MPDLFGVAPRPFAPYGPRFSGDFTGP 536
           RG RP+PGM GFP  ++G  D F YG  P G+  MPD FG+ PRPF PYGPRF GDF GP
Sbjct: 456 RGIRPMPGMGGFPLGVMGPGDAFPYG--PGGYNGMPDPFGMGPRPFGPYGPRFGGDFRGP 513

Query: 537 G-GMMFPGRPPQPGSVFPPNGFGGMMMGPGRPPFMGGMGPAATNPRGGRPVGVPPPFPNQ 595
             GMMFPGRPPQ         F     G         MG     PRGGRP+  PP   + 
Sbjct: 514 VPGMMFPGRPPQ--------QFPHGGYGMMGGGRGPHMGGMGNAPRGGRPMYYPPATSSA 565

Query: 596 PQSSQNSSRAAKRDVRGSINDRNDRYSAGSDQGRAQEMGGPGRGPDDEVQYQQEGSKANQ 655
                N     + D RG   D                            Q  Q+ S   +
Sbjct: 566 RPGPSNRKTPERSDERGVSGD----------------------------QQNQDASHDME 597

Query: 656 EDQYGSRNFRN--DESESEDEAPRRSRHGEGKKKR 688
           + + G+ + RN   ESE EDEAPRRSRHGEGKK+R
Sbjct: 598 QFEVGN-SLRNEESESEDEDEAPRRSRHGEGKKRR 631
Component of the cleavage and polyadenylation specificity factor (CPSF) complex that play a key role in pre-mRNA 3'-end formation. May interact with poly(A) polymerase and other factors to bring about cleavage and poly(A) addition (By similarity). Binds RNA in a calcium-dependent manner.
Arabidopsis thaliana (taxid: 3702)
>sp|Q0DA50|C3H45_ORYSJ Zinc finger CCCH domain-containing protein 45 OS=Oryza sativa subsp. japonica GN=Os06g0677700 PE=2 SV=1 Back     alignment and function description
>sp|Q5R746|YTDC2_PONAB YTH domain-containing protein 2 OS=Pongo abelii GN=YTHDC2 PE=2 SV=1 Back     alignment and function description
>sp|B2RR83|YTDC2_MOUSE Probable ATP-dependent RNA helicase YTHDC2 OS=Mus musculus GN=Ythdc2 PE=2 SV=1 Back     alignment and function description
>sp|Q9H6S0|YTDC2_HUMAN Probable ATP-dependent RNA helicase YTHDC2 OS=Homo sapiens GN=YTHDC2 PE=1 SV=2 Back     alignment and function description
>sp|Q96MU7|YTDC1_HUMAN YTH domain-containing protein 1 OS=Homo sapiens GN=YTHDC1 PE=1 SV=3 Back     alignment and function description
>sp|Q9QY02|YTDC1_RAT YTH domain-containing protein 1 OS=Rattus norvegicus GN=Ythdc1 PE=1 SV=1 Back     alignment and function description
>sp|A6NMK7|CPS4L_HUMAN Putative cleavage and polyadenylation specificity factor subunit 4-like protein OS=Homo sapiens GN=CPSF4L PE=2 SV=3 Back     alignment and function description
>sp|O95639|CPSF4_HUMAN Cleavage and polyadenylation specificity factor subunit 4 OS=Homo sapiens GN=CPSF4 PE=1 SV=1 Back     alignment and function description
>sp|Q6DJP7|CPSF4_XENLA Cleavage and polyadenylation specificity factor subunit 4 OS=Xenopus laevis GN=cpsf4 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 ?
Query701
225444019673 PREDICTED: cleavage and polyadenylation 0.948 0.988 0.765 0.0
449447537707 PREDICTED: cleavage and polyadenylation 0.985 0.977 0.724 0.0
255564409702 conserved hypothetical protein [Ricinus 0.977 0.975 0.764 0.0
356555859691 PREDICTED: cleavage and polyadenylation 0.964 0.978 0.746 0.0
224116602722 predicted protein [Populus trichocarpa] 0.944 0.916 0.670 0.0
356532407681 PREDICTED: cleavage and polyadenylation 0.955 0.983 0.738 0.0
224061049669 predicted protein [Populus trichocarpa] 0.918 0.962 0.702 0.0
297740812485 unnamed protein product [Vitis vinifera] 0.647 0.936 0.830 0.0
297851474631 hypothetical protein ARALYDRAFT_890588 [ 0.890 0.988 0.614 0.0
79356321631 cleavage and polyadenylation specificity 0.890 0.988 0.610 0.0
>gi|225444019|ref|XP_002281594.1| PREDICTED: cleavage and polyadenylation specificity factor CPSF30-like [Vitis vinifera] Back     alignment and taxonomy information
 Score =  979 bits (2531), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 533/696 (76%), Positives = 579/696 (83%), Gaps = 31/696 (4%)

Query: 1   MEDSEGGLSFDFEGGLDAGPGMPTASNPAIQSDSTAAAAAAAANANHAAPSSSGAAPDHA 60
           MED+EG LSFDFEGGLDA PG      P IQSD+TAAAAA ++  +     + G AP   
Sbjct: 1   MEDAEGVLSFDFEGGLDAAPGTAATVAPLIQSDATAAAAAPSSVVSAEP--TPGGAP--- 55

Query: 61  SAPVPHHSGRRSFRQTVCRHWLRSLCMKGDACGFLHQYDKSRMPVCRFFRLFGECREQDC 120
                   GRRSFRQTVCRHWLRSLCMKGDACGFLHQYDKSRMPVCRFFRL+GECREQDC
Sbjct: 56  --------GRRSFRQTVCRHWLRSLCMKGDACGFLHQYDKSRMPVCRFFRLYGECREQDC 107

Query: 121 VYKHTNEDIKECNMYKLGFCPNGPDCRYRHVKLPGPPPSVEEVLQKIQQISSYNHGNPNK 180
           VYKHTNEDIKECNMYKLGFCPNG DCRYRH KLPGPPP++EEV QKIQQ+SS+N+G+ N+
Sbjct: 108 VYKHTNEDIKECNMYKLGFCPNGSDCRYRHAKLPGPPPTMEEVFQKIQQLSSFNYGSSNR 167

Query: 181 HFQQRGAFSHQTDKSQFSQGPNAVNQGAAGKSSTAESANVHQQQLVQQPQQQGTQTTQMQ 240
            +Q R  ++ QT+KSQ  QG NAVN G   KSST E+ NV QQQ+     QQ    T MQ
Sbjct: 168 FYQNRNPYNQQTEKSQILQGSNAVNLGTVAKSSTTEAINVQQQQVQPP--QQQVSQTPMQ 225

Query: 241 NLPNGLPNQTNRNATPLPQGISRYFIVKSCNRENLELSVQQGVWATQRSNEAKLNEAFDS 300
           NLPNGLPNQ N+ A+PLPQGISRYFIVKSCNRENLELSVQQGVWATQRSNEAKLNEAFDS
Sbjct: 226 NLPNGLPNQANKTASPLPQGISRYFIVKSCNRENLELSVQQGVWATQRSNEAKLNEAFDS 285

Query: 301 AENVILIFSVNRTRHFQGCAKMTSKIGGSVGGGNWKYAHGTAHYGRNFSVKWLKLCELSF 360
            ENVILIFSVNRTRHFQGCAKMTSKIGG VGGGNWKYAHGTAHYGRNFSVKWLKLCELSF
Sbjct: 286 VENVILIFSVNRTRHFQGCAKMTSKIGGFVGGGNWKYAHGTAHYGRNFSVKWLKLCELSF 345

Query: 361 HKTRHLRNPYNENLPVKISRDCQELEPSIGEQLAALLYLEPDSELMAISVAAEAKREEEK 420
           HKTRHLRNPYNENLPVKISRDCQELEPSIGEQLA+LLYLEPDSELMAIS+AAE+KREEEK
Sbjct: 346 HKTRHLRNPYNENLPVKISRDCQELEPSIGEQLASLLYLEPDSELMAISLAAESKREEEK 405

Query: 421 AKGVNPDNGGDNPDIVPFEDNEEEEEEESEEEE----ESLGTASQGRGRGRGMMWPGPMP 476
           AKGVNPDNGG+NPDIVPFEDNEEEEEEESEEEE    ++LG A+QGRGRGRG+MWP  MP
Sbjct: 406 AKGVNPDNGGENPDIVPFEDNEEEEEEESEEEEESFGQALGPAAQGRGRGRGIMWPPHMP 465

Query: 477 LARGARPVPGMRGFPPMMIGADGFSY-GVTPDGFPMPDLFGVAPRPFAPYGPRFSGDFTG 535
           LARGARP+P MRGFPP+M+GADGFSY  V PDGF MPD+FGV PR F PYGPRFSGDFTG
Sbjct: 466 LARGARPIPSMRGFPPVMMGADGFSYSAVPPDGFAMPDIFGVGPRAFPPYGPRFSGDFTG 525

Query: 536 PG-GMMFPGRPPQPGSVFPPNGFGGMMMGPGRPPFMGGMG-PAATNPRGGRPVGVPPPFP 593
           P  GMMFPGR  QPG+VFP +G+G MMMGPGR PFMGGMG PAA   R GRPVG+PP FP
Sbjct: 526 PASGMMFPGRG-QPGAVFPASGYG-MMMGPGRAPFMGGMGVPAAAPTRAGRPVGMPPMFP 583

Query: 594 NQPQSSQNSSRAAKRDVRGSINDRNDRYSAGSDQGRAQEMGGPGRGPDDEVQYQQEGSKA 653
             P  +  ++R  KRD R  +NDRNDRYS GSDQGR Q+M GP    DDE QY Q G K+
Sbjct: 584 PPPPPNSQNNRT-KRDQRTPVNDRNDRYSGGSDQGRGQDMAGP----DDETQYLQ-GLKS 637

Query: 654 NQEDQYGSRN-FRNDESESEDEAPRRSRHGEGKKKR 688
            Q+DQ+G  N FRNDESESEDEAPRRSRHGEGKKKR
Sbjct: 638 QQDDQFGGGNSFRNDESESEDEAPRRSRHGEGKKKR 673

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|449447537|ref|XP_004141524.1| PREDICTED: cleavage and polyadenylation specificity factor CPSF30-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|255564409|ref|XP_002523201.1| conserved hypothetical protein [Ricinus communis] gi|223537608|gb|EEF39232.1| conserved hypothetical protein [Ricinus communis] Back     alignment and taxonomy information
>gi|356555859|ref|XP_003546247.1| PREDICTED: cleavage and polyadenylation specificity factor CPSF30-like [Glycine max] Back     alignment and taxonomy information
>gi|224116602|ref|XP_002317344.1| predicted protein [Populus trichocarpa] gi|222860409|gb|EEE97956.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356532407|ref|XP_003534764.1| PREDICTED: cleavage and polyadenylation specificity factor CPSF30-like [Glycine max] Back     alignment and taxonomy information
>gi|224061049|ref|XP_002300333.1| predicted protein [Populus trichocarpa] gi|222847591|gb|EEE85138.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|297740812|emb|CBI30994.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|297851474|ref|XP_002893618.1| hypothetical protein ARALYDRAFT_890588 [Arabidopsis lyrata subsp. lyrata] gi|297339460|gb|EFH69877.1| hypothetical protein ARALYDRAFT_890588 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|79356321|ref|NP_174334.2| cleavage and polyadenylation specificity factor CPSF30 [Arabidopsis thaliana] gi|229553918|sp|A9LNK9.1|CPSF_ARATH RecName: Full=Cleavage and polyadenylation specificity factor CPSF30; AltName: Full=Zinc finger CCCH domain-containing protein 11; Short=AtC3H11 gi|160338218|gb|ABX26048.1| cleavage and polyadenylation specificity factor-YT521B [Arabidopsis thaliana] gi|332193100|gb|AEE31221.1| cleavage and polyadenylation specificity factor CPSF30 [Arabidopsis thaliana] Back     alignment and taxonomy information

Prediction of Gene Ontology (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) ?
A9LNK9CPSF_ARATHNo assigned EC number0.61000.89010.9889yesno
Q0DA50C3H45_ORYSJNo assigned EC number0.57750.91440.9639yesno

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

Fail to connect to STRING server

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 ?
Query701
pfam04146135 pfam04146, YTH, YT521-B-like domain 2e-63
COG5084285 COG5084, YTH1, Cleavage and polyadenylation specif 1e-11
TIGR009271096 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger 5e-04
smart0035627 smart00356, ZnF_C3H1, zinc finger 5e-04
smart0035627 smart00356, ZnF_C3H1, zinc finger 0.001
pfam09770 804 pfam09770, PAT1, Topoisomerase II-associated prote 0.001
pfam07271279 pfam07271, Cytadhesin_P30, Cytadhesin P30/P32 0.002
>gnl|CDD|217926 pfam04146, YTH, YT521-B-like domain Back     alignment and domain information 
 Score =  207 bits (528), Expect = 2e-63
 Identities = 65/135 (48%), Positives = 87/135 (64%), Gaps = 2/135 (1%)

Query: 263 RYFIVKSCNRENLELSVQQGVWATQRSNEAKLNEAFDSAENVILIFSVNRTRHFQGCAKM 322
           R+FI+KS N +N+ LS++ GVWA+   N  KLN+AF  AE V LIFSVN++  F G A+M
Sbjct: 1   RFFIIKSYNEDNVHLSIKYGVWASTSHNNKKLNKAFKEAEPVYLIFSVNKSGKFCGYARM 60

Query: 323 TSKIGGSVGGGNWKYAHGTAHYGRNFSVKWLKLCELSFHKTRHLRNPYNENLPVKISRDC 382
           TS I       +      +  +G  F V+WL + +L FH+ RHL+NP NEN PV ISRD 
Sbjct: 61  TSPIDFDSTANSQDS--SSQKWGGPFKVEWLSVKDLPFHRLRHLKNPNNENKPVTISRDG 118

Query: 383 QELEPSIGEQLAALL 397
           QE+EP IGE+L  + 
Sbjct: 119 QEIEPEIGEELLKIF 133

A protein of the YTH family has been shown to selectively remove transcripts of meiosis-specific genes expressed in mitotic cells. It has been speculated that in higher eukaryotic YTH-family members may be involved in similar mechanisms to suppress gene regulation during gametogenesis or general silencing. The rat protein YT521-B is a tyrosine-phosphorylated nuclear protein, that interacts with the nuclear transcriptosomal component scaffold attachment factor B, and the 68-kDa Src substrate associated during mitosis, Sam68. In vivo splicing assays demonstrated that YT521-B modulates alternative splice site selection in a concentration-dependent manner. The YTH domain has been identified as part of the PUA superfamily. Length = 135
>gnl|CDD|227416 COG5084, YTH1, Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only] Back     alignment and domain information
>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger Back     alignment and domain information
>gnl|CDD|214632 smart00356, ZnF_C3H1, zinc finger Back     alignment and domain information
>gnl|CDD|214632 smart00356, ZnF_C3H1, zinc finger Back     alignment and domain information
>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1 Back     alignment and domain information
>gnl|CDD|219358 pfam07271, Cytadhesin_P30, Cytadhesin P30/P32 Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 701
KOG1902441 consensus Putative signal transduction protein inv 100.0
PF04146140 YTH: YT521-B-like domain; InterPro: IPR007275 A pr 100.0
KOG1901487 consensus Uncharacterized high-glucose-regulated p 100.0
KOG1040325 consensus Polyadenylation factor I complex, subuni 99.83
KOG1902441 consensus Putative signal transduction protein inv 99.47
KOG1492377 consensus C3H1-type Zn-finger protein [General fun 99.46
COG5084285 YTH1 Cleavage and polyadenylation specificity fact 99.05
KOG1040325 consensus Polyadenylation factor I complex, subuni 99.04
KOG1492377 consensus C3H1-type Zn-finger protein [General fun 98.88
KOG1677332 consensus CCCH-type Zn-finger protein [General fun 98.72
KOG2494331 consensus C3H1-type Zn-finger protein [Transcripti 98.54
COG5084285 YTH1 Cleavage and polyadenylation specificity fact 98.46
KOG4791667 consensus Uncharacterized conserved protein [Funct 98.45
KOG4791667 consensus Uncharacterized conserved protein [Funct 98.32
KOG1763343 consensus Uncharacterized conserved protein, conta 98.02
KOG1924 1102 consensus RhoA GTPase effector DIA/Diaphanous [Sig 97.71
PF0064227 zf-CCCH: Zinc finger C-x8-C-x5-C-x3-H type (and si 97.69
KOG1924 1102 consensus RhoA GTPase effector DIA/Diaphanous [Sig 97.52
smart0035627 ZnF_C3H1 zinc finger. 97.51
KOG1595528 consensus CCCH-type Zn-finger protein [General fun 97.4
COG5252299 Uncharacterized conserved protein, contains CCCH-t 97.21
KOG1677332 consensus CCCH-type Zn-finger protein [General fun 97.19
KOG0132894 consensus RNA polymerase II C-terminal domain-bind 97.0
smart0035627 ZnF_C3H1 zinc finger. 96.92
PF0064227 zf-CCCH: Zinc finger C-x8-C-x5-C-x3-H type (and si 96.83
KOG1595528 consensus CCCH-type Zn-finger protein [General fun 96.81
COG5063351 CTH1 CCCH-type Zn-finger protein [General function 96.74
KOG3702681 consensus Nuclear polyadenylated RNA binding prote 96.71
KOG2494331 consensus C3H1-type Zn-finger protein [Transcripti 96.45
COG5063351 CTH1 CCCH-type Zn-finger protein [General function 96.29
PRK00809144 hypothetical protein; Provisional 96.26
KOG1763343 consensus Uncharacterized conserved protein, conta 96.0
KOG3702681 consensus Nuclear polyadenylated RNA binding prote 95.43
KOG2185486 consensus Predicted RNA-processing protein, contai 95.34
KOG2333614 consensus Uncharacterized conserved protein [Gener 95.05
KOG2185486 consensus Predicted RNA-processing protein, contai 94.62
PF1460819 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type 94.17
KOG2893341 consensus Zn finger protein [General function pred 93.83
COG5252299 Uncharacterized conserved protein, contains CCCH-t 93.26
PF1460819 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type 92.64
KOG2893341 consensus Zn finger protein [General function pred 92.58
KOG0132894 consensus RNA polymerase II C-terminal domain-bind 92.3
KOG4672487 consensus Uncharacterized conserved low complexity 90.35
KOG1039344 consensus Predicted E3 ubiquitin ligase [Posttrans 86.67
PF1065023 zf-C3H1: Putative zinc-finger domain; InterPro: IP 86.01
COG5152259 Uncharacterized conserved protein, contains RING a 84.32
KOG1039344 consensus Predicted E3 ubiquitin ligase [Posttrans 83.33
COG5152259 Uncharacterized conserved protein, contains RING a 81.96
>KOG1902 consensus Putative signal transduction protein involved in RNA splicing [Signal transduction mechanisms; RNA processing and modification] Back     alignment and domain information 
Probab=100.00  E-value=1e-83  Score=667.15  Aligned_cols=368  Identities=33%  Similarity=0.395  Sum_probs=313.0

Q ss_pred             CCCCccEEEEEeeCChhhHHHHHHcCeeeeccccHHHHHHHhccCCcEEEEEEeCCCCceeEEEEeccCCCCCcCCCCcc
Q 005338          257 LPQGISRYFIVKSCNRENLELSVQQGVWATQRSNEAKLNEAFDSAENVILIFSVNRTRHFQGCAKMTSKIGGSVGGGNWK  336 (701)
Q Consensus       257 ~p~~~aRFFIIKS~n~enI~~Sik~gVWaTt~~ne~kLn~AF~~~~~V~LfFSVN~Sg~FqG~ArM~S~~~~~~~~~~W~  336 (701)
                      .+-..+|||||||+|++||.+|+++|||+||+.||+|||.||.++..||||||||.|+||||||+|+|.|+..+...+|+
T Consensus        67 ~~~~~~rYFIiKS~N~eN~elSvqkGiWaTq~sNE~kLn~AF~~s~~ViLIFSVn~SghFQG~ArMsS~IG~~~~q~~W~  146 (441)
T KOG1902|consen   67 YVLQDARYFIIKSNNHENVELSVQKGVWSTQPSNEKKLNLAFRSSRSVILIFSVNESGHFQGFARMSSEIGHGGSQIHWV  146 (441)
T ss_pred             ccCCceEEEEEecCCccceeeehhcceeccccccHHHHHHHHhhcCcEEEEEEecccccchhhhhhcchhccCCCCcccc
Confidence            34456899999999999999999999999999999999999999999999999999999999999999999999888999


Q ss_pred             ccCCC-CCcCCcceeeeEEeeecCccccccccCCCCCCCccccCCCCcccChHHHHHHHHHhhcCCCchhhhhhHHHHHH
Q 005338          337 YAHGT-AHYGRNFSVKWLKLCELSFHKTRHLRNPYNENLPVKISRDCQELEPSIGEQLAALLYLEPDSELMAISVAAEAK  415 (701)
Q Consensus       337 ~~~~~-~~~gg~F~VeWl~v~~LpF~~~~HL~Np~NenkPV~~sRDGQEIe~~~G~qL~~Lf~~~p~s~l~~~~~~~E~~  415 (701)
                      ...++ +.|+++|+|+||++++|||+++.||+|||||||||+||||||||++++|+|||.||+..+.++|.+++..+++|
T Consensus       147 ~~~G~~a~~G~~FkVkWiRl~eLpFqkt~hL~NP~NdnkpVKISRD~QELep~VGEqL~~Ll~~~p~~el~~~s~~~~~k  226 (441)
T KOG1902|consen  147 LPAGMSAMLGGVFKVKWIRLRELPFQKTAHLTNPWNENKPVKISRDGQELEPEVGEQLCLLLPPDPSIDLYQVSHKMRHK  226 (441)
T ss_pred             ccCCcccccCceeeEeEEeeccccchhhhhcCCcccccCceeecccccccChhHHHHHHHhcCCCcchhhhhhhHHHHHh
Confidence            97777 89999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCCCCCCCCCCCCCccCCCCchhhhhhhHHHHhhccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccc
Q 005338          416 REEEKAKGVNPDNGGDNPDIVPFEDNEEEEEEESEEEEESLGTASQGRGRGRGMMWPGPMPLARGARPVPGMRGFPPMMI  495 (701)
Q Consensus       416 ~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~eee~e~~~~~~~~~~~grg~~~~~~~~~~~p~~~~~~p~~g~~~~~~~~~  495 (701)
                      ++++++    +.+.++ ++++++++++++.++|+|+++++-++ +||+++.+.+|||+.|+..|+..+|++|.||+...|
T Consensus       227 r~~~~A----p~sr~E-p~~~~p~~~~~~~~ped~d~~~~~~~-p~G~~p~~~h~~Pg~~~~~r~q~~~~rf~g~~L~v~  300 (441)
T KOG1902|consen  227 RRMHSA----PRSRGE-PSRREPVRDVGRRRPEDYDIHNSRKK-PRGDYPPEFHQRPGYLKDPRYQEVDRRFSGVRLDVF  300 (441)
T ss_pred             hhhhcC----CccCCC-cccCCcccCccccCcccchhhhhhhC-CCCCCCcccccCCCcCCCccccccccccCceecccc
Confidence            999999    466666 99999999999988888887776666 999999999999999999999999999999999999


Q ss_pred             CC-CCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 005338          496 GA-DGFSYGVTPDGF-PMPDLFGVAPRPFAPYGPRFSGDFTGP-GGMMFPGRPPQPGSVFPPNGFGGMMMGPGRPPFMGG  572 (701)
Q Consensus       496 ~~-~~~~~g~~p~~f-~~~d~~g~~~~~~~p~~~~~~g~f~g~-~~~m~~g~~~~~g~~~~~~~~g~~~~~~~~~~~~~g  572 (701)
                      +| +-|+|+  ++++ .|||.|+++               ++| ++||+||+||+   .||+||.|  ||+|++|+.|||
T Consensus       301 ~Pg~~~~y~--~~f~nm~p~p~~~g---------------~~p~pgm~~p~~p~~---q~~~~~~~--~~~~~~g~h~~~  358 (441)
T KOG1902|consen  301 LPGSYNDYV--REFHNMGPPPPWQG---------------MPPYPGMEQPPHPYY---QHHAPPPQ--AHPPYSGHHPVP  358 (441)
T ss_pred             cCccccccc--chhhhcCCCccccC---------------cCCcCCcccCCCCcc---ccCCCCcc--cCCCCCCCCCCc
Confidence            85 556888  4555 448888875               244 89999999998   78999887  558899999999


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCccCCcccccccccCCCCCCCCcccCCCcccccccCCCCCCCCCchhhHhhhccc
Q 005338          573 MGPAATNPRGGRPVGVPPPFPNQPQSSQNSSRAAKRDVRGSINDRNDRYSAGSDQGRAQEMGGPGRGPDDEVQYQQEGSK  652 (701)
Q Consensus       573 m~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  652 (701)
                      |+-   .+|+.|+.-..   ....+..++++..+.         +.|..+...|+.|                     -+
T Consensus       359 ~~~---~~r~~r~~~y~---~~~~~~~~~~~~~~~---------~~~~r~~~~d~~~---------------------~~  402 (441)
T KOG1902|consen  359 HEA---RYRDKRVHDYD---MRVDDFLRRTQAVVS---------GRRSRPRERDRER---------------------ER  402 (441)
T ss_pred             ccc---ccCCCCccccc---ccccccccccccccc---------cccccccccchhh---------------------cc
Confidence            873   36888776551   122222222222222         1122222223333                     23


Q ss_pred             cccccccCCc-ccCCCCCCCCcc--ccccccCCCCcccc
Q 005338          653 ANQEDQYGSR-NFRNDESESEDE--APRRSRHGEGKKKR  688 (701)
Q Consensus       653 ~~~~~~~~~~-~~~~~~~~~~~~--~~~~~~~~~~~~~~  688 (701)
                      ++..|+|..+ ++|+.|+|+|+|  ||||++||||||.|
T Consensus       403 ~~~~~~~~~~~~~r~~~~e~e~e~~~~r~~~~ge~~~~r  441 (441)
T KOG1902|consen  403 DRPRDNRRDRERDRGRDRERERERLCDRDRDRGERGRYR  441 (441)
T ss_pred             ccchhhhhhhhhhcccchhhhhhhhcccccccccccccC
Confidence            6778888888 999999999888  99999999999876

>PF04146 YTH: YT521-B-like domain; InterPro: IPR007275 A protein of the YTH family has been shown to selectively remove transcripts of meiosis-specific genes expressed in mitotic cells [] Back     alignment and domain information
>KOG1901 consensus Uncharacterized high-glucose-regulated protein [General function prediction only] Back     alignment and domain information
>KOG1040 consensus Polyadenylation factor I complex, subunit, Yth1 (CPSF subunit) [RNA processing and modification] Back     alignment and domain information
>KOG1902 consensus Putative signal transduction protein involved in RNA splicing [Signal transduction mechanisms; RNA processing and modification] Back     alignment and domain information
>KOG1492 consensus C3H1-type Zn-finger protein [General function prediction only] Back     alignment and domain information
>COG5084 YTH1 Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only] Back     alignment and domain information
>KOG1040 consensus Polyadenylation factor I complex, subunit, Yth1 (CPSF subunit) [RNA processing and modification] Back     alignment and domain information
>KOG1492 consensus C3H1-type Zn-finger protein [General function prediction only] Back     alignment and domain information
>KOG1677 consensus CCCH-type Zn-finger protein [General function prediction only] Back     alignment and domain information
>KOG2494 consensus C3H1-type Zn-finger protein [Transcription] Back     alignment and domain information
>COG5084 YTH1 Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only] Back     alignment and domain information
>KOG4791 consensus Uncharacterized conserved protein [Function unknown] Back     alignment and domain information
>KOG4791 consensus Uncharacterized conserved protein [Function unknown] Back     alignment and domain information
>KOG1763 consensus Uncharacterized conserved protein, contains CCCH-type Zn-finger [General function prediction only] Back     alignment and domain information
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton] Back     alignment and domain information
>PF00642 zf-CCCH: Zinc finger C-x8-C-x5-C-x3-H type (and similar); InterPro: IPR000571 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule Back     alignment and domain information
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton] Back     alignment and domain information
>smart00356 ZnF_C3H1 zinc finger Back     alignment and domain information
>KOG1595 consensus CCCH-type Zn-finger protein [General function prediction only] Back     alignment and domain information
>COG5252 Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only] Back     alignment and domain information
>KOG1677 consensus CCCH-type Zn-finger protein [General function prediction only] Back     alignment and domain information
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription] Back     alignment and domain information
>smart00356 ZnF_C3H1 zinc finger Back     alignment and domain information
>PF00642 zf-CCCH: Zinc finger C-x8-C-x5-C-x3-H type (and similar); InterPro: IPR000571 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule Back     alignment and domain information
>KOG1595 consensus CCCH-type Zn-finger protein [General function prediction only] Back     alignment and domain information
>COG5063 CTH1 CCCH-type Zn-finger protein [General function prediction only] Back     alignment and domain information
>KOG3702 consensus Nuclear polyadenylated RNA binding protein [RNA processing and modification] Back     alignment and domain information
>KOG2494 consensus C3H1-type Zn-finger protein [Transcription] Back     alignment and domain information
>COG5063 CTH1 CCCH-type Zn-finger protein [General function prediction only] Back     alignment and domain information
>PRK00809 hypothetical protein; Provisional Back     alignment and domain information
>KOG1763 consensus Uncharacterized conserved protein, contains CCCH-type Zn-finger [General function prediction only] Back     alignment and domain information
>KOG3702 consensus Nuclear polyadenylated RNA binding protein [RNA processing and modification] Back     alignment and domain information
>KOG2185 consensus Predicted RNA-processing protein, contains G-patch domain [RNA processing and modification] Back     alignment and domain information
>KOG2333 consensus Uncharacterized conserved protein [General function prediction only] Back     alignment and domain information
>KOG2185 consensus Predicted RNA-processing protein, contains G-patch domain [RNA processing and modification] Back     alignment and domain information
>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type Back     alignment and domain information
>KOG2893 consensus Zn finger protein [General function prediction only] Back     alignment and domain information
>COG5252 Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only] Back     alignment and domain information
>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type Back     alignment and domain information
>KOG2893 consensus Zn finger protein [General function prediction only] Back     alignment and domain information
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription] Back     alignment and domain information
>KOG4672 consensus Uncharacterized conserved low complexity protein [Function unknown] Back     alignment and domain information
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>PF10650 zf-C3H1: Putative zinc-finger domain; InterPro: IPR019607 This domain is conserved in fungi and might be a zinc-finger domain as it contains three conserved Cs and an H in the C-x8-C-x5-C-x3-H conformation typical of a zinc-finger Back     alignment and domain information
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only] Back     alignment and domain information
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only] 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 ?
Query701
2yu6_A141 Solution Structure Of The Yth Domain In Yth Domain- 3e-28
2yud_A180 Solution Structure Of The Yth Domain In Yth Domain- 6e-24
2d9n_A77 Solution Structure Of Ccch Type Zinc-Finger Domain 5e-14
2rhk_C72 Crystal Structure Of Influenza A Ns1a Protein In Co 2e-13
>pdb|2YU6|A Chain A, Solution Structure Of The Yth Domain In Yth Domain- Containing Protein 2 Length = 141 Back     alignment and structure 
Iteration: 1

 Score =  123 bits (308), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 66/134 (49%), Positives = 87/134 (64%), Gaps = 5/134 (3%)
Query: 263 RYFIVKSCNRENLELSVQQGVWATQRSNEAKLNEAFDSAENVILIFSVNRTRHFQGCAKM 322
           RYFI+KS N  NLE+S Q+G+W+T  SNE KLN AF  +  V L+FSV  + HFQG ++M
Sbjct: 9   RYFIMKSSNLRNLEISQQKGIWSTTPSNERKLNRAFWESSIVYLVFSVQGSGHFQGFSRM 68
Query: 323 TSKIGGSVGGGNWKYAHGTAHYGRNFSVKWLKLCELSFHKTRHLRNPYNENLPVKISRDC 382
           +S+IG      +W    G+A  G  F V+W++   L F    HL NP+N+N  V+ISRD 
Sbjct: 69  SSEIGRE-KSQDW----GSAGLGGVFKVEWIRKESLPFQFAHHLLNPWNDNKKVQISRDG 123
Query: 383 QELEPSIGEQLAAL 396
           QELEP +GEQL  L
Sbjct: 124 QELEPQVGEQLLQL 137
>pdb|2YUD|A Chain A, Solution Structure Of The Yth Domain In Yth Domain- Containing Protein 1 (Putative Splicing Factor Yt521) Length = 180 Back     alignment and structure
>pdb|2D9N|A Chain A, Solution Structure Of Ccch Type Zinc-Finger Domain 2 In Cleavage And Polyadenylation Specificity Factor Length = 77 Back     alignment and structure
>pdb|2RHK|C Chain C, Crystal Structure Of Influenza A Ns1a Protein In Complex With F2f3 Fragment Of Human Cellular Factor Cpsf30, Northeast Structural Genomics Targets Or8c And Hr6309a Length = 72 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 ?
Query701
2yud_A180 YTH domain-containing protein 1; structure genomic 9e-57
2yu6_A141 YTH domain-containing protein 2; structural genomi 2e-53
2rhk_C72 Cleavage and polyadenylation specificity factor su 5e-24
2d9n_A77 Cleavage and polyadenylation specificity factor, 3 3e-21
2d9n_A77 Cleavage and polyadenylation specificity factor, 3 2e-04
2cqe_A98 KIAA1064 protein; CCCH zinc-finger, structural gen 1e-10
3pgw_B231 SM B; protein-RNA complex, U1 snRNA, SM fold, SM c 5e-08
1m9o_A77 Tristetraproline; Cys3His type zinc finger, metal 5e-08
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 9e-08
3d2q_A70 Muscleblind-like protein 1; tandem zinc finger dom 3e-07
3u9g_A229 Zinc finger CCCH-type antiviral protein 1; zinc fi 5e-06
3u9g_A229 Zinc finger CCCH-type antiviral protein 1; zinc fi 2e-04
2rpp_A89 Muscleblind-like protein 2; zinc finger domain, C3 2e-05
3d2n_A83 Muscleblind-like protein 1; tandem zinc finger dom 3e-05
2lhn_A80 Nuclear polyadenylated RNA-binding protein NAB2; n 3e-05
2e5s_A98 Otthump00000018578; ZF-CCCHX2 domain, muscleblind- 4e-05
1m2v_B 926 SEC24, protein transport protein SEC24, SEC24P, SE 7e-05
1m2v_B 926 SEC24, protein transport protein SEC24, SEC24P, SE 2e-04
1m2v_B 926 SEC24, protein transport protein SEC24, SEC24P, SE 4e-04
>2yud_A YTH domain-containing protein 1; structure genomics, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 180 Back     alignment and structure
 Score =  189 bits (482), Expect = 9e-57
 Identities = 64/171 (37%), Positives = 92/171 (53%), Gaps = 4/171 (2%)

Query: 240 QNLPNGLPNQTNRNATPLPQGISRYFIVKSCNRENLELSVQQGVWATQRSNEAKLNEAFD 299
             +     +QT++    L    +R+F++KS N EN+ L+  +GVW+T   NE KLN AF 
Sbjct: 6   SGVRAVRKDQTSKLKYVLQD--ARFFLIKSNNHENVSLAKAKGVWSTLPVNEKKLNLAFR 63

Query: 300 SAENVILIFSVNRTRHFQGCAKMTSKIGGSVGGGNWK--YAHGTAHYGRNFSVKWLKLCE 357
           SA +VILIFSV  +  FQG A+++S+        +W           G  F + W+   E
Sbjct: 64  SARSVILIFSVRESGKFQGFARLSSESHHGGSPIHWVLPAGMSAKMLGGVFKIDWICRRE 123

Query: 358 LSFHKTRHLRNPYNENLPVKISRDCQELEPSIGEQLAALLYLEPDSELMAI 408
           L F K+ HL NP+NE+ PVKI RD QE+E   G QL  L   +   +L  +
Sbjct: 124 LPFTKSAHLTNPWNEHKPVKIGRDGQEIELECGTQLCLLFPPDESIDLYQV 174
>2yu6_A YTH domain-containing protein 2; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 141 Back     alignment and structure
>2rhk_C Cleavage and polyadenylation specificity factor subunit 4; influenza A, nonstructural protein, viral protein: HOST complex, Zn finger; 1.95A {Homo sapiens} Length = 72 Back     alignment and structure
>2d9n_A Cleavage and polyadenylation specificity factor, 30 kDa subunit; CCCH zinc-finger, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 77 Back     alignment and structure
>2d9n_A Cleavage and polyadenylation specificity factor, 30 kDa subunit; CCCH zinc-finger, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 77 Back     alignment and structure
>2cqe_A KIAA1064 protein; CCCH zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.66.1.1 g.66.1.1 Length = 98 Back     alignment and structure
>3pgw_B SM B; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_A Length = 231 Back     alignment and structure
>1m9o_A Tristetraproline; Cys3His type zinc finger, metal binding protein; NMR {Mus musculus} SCOP: g.66.1.1 PDB: 1rgo_A Length = 77 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
>3d2q_A Muscleblind-like protein 1; tandem zinc finger domain, alternative splicing, metal- binding, nucleus, RNA-binding, zinc, zinc-finger, metal binding; 1.50A {Homo sapiens} PDB: 3d2s_A Length = 70 Back     alignment and structure
>3u9g_A Zinc finger CCCH-type antiviral protein 1; zinc finger protein; 1.80A {Rattus norvegicus} Length = 229 Back     alignment and structure
>3u9g_A Zinc finger CCCH-type antiviral protein 1; zinc finger protein; 1.80A {Rattus norvegicus} Length = 229 Back     alignment and structure
>2rpp_A Muscleblind-like protein 2; zinc finger domain, C3H, alternative splicing, cytoplasm, metal-binding, nucleus, RNA-binding, zinc, zinc-finger; NMR {Homo sapiens} Length = 89 Back     alignment and structure
>3d2n_A Muscleblind-like protein 1; tandem zinc finger domain, alternative splicing, metal- binding, nucleus, RNA-binding, zinc, zinc-finger, metal binding; 2.70A {Homo sapiens} Length = 83 Back     alignment and structure
>2lhn_A Nuclear polyadenylated RNA-binding protein NAB2; nuclear protein; NMR {Saccharomyces cerevisiae S288C} Length = 80 Back     alignment and structure
>2e5s_A Otthump00000018578; ZF-CCCHX2 domain, muscleblind-like 2, isoform 1, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 98 Back     alignment and structure
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926 Back     alignment and structure
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926 Back     alignment and structure
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query701
2yud_A180 YTH domain-containing protein 1; structure genomic 100.0
2yu6_A141 YTH domain-containing protein 2; structural genomi 100.0
2d9n_A77 Cleavage and polyadenylation specificity factor, 3 99.52
2rhk_C72 Cleavage and polyadenylation specificity factor su 99.32
2cqe_A98 KIAA1064 protein; CCCH zinc-finger, structural gen 99.18
1m9o_A77 Tristetraproline; Cys3His type zinc finger, metal 99.14
3d2q_A70 Muscleblind-like protein 1; tandem zinc finger dom 99.06
2e5s_A98 Otthump00000018578; ZF-CCCHX2 domain, muscleblind- 99.04
3d2n_A83 Muscleblind-like protein 1; tandem zinc finger dom 99.01
2rpp_A89 Muscleblind-like protein 2; zinc finger domain, C3 99.0
2d9n_A77 Cleavage and polyadenylation specificity factor, 3 98.91
2rhk_C72 Cleavage and polyadenylation specificity factor su 98.57
3d2q_A70 Muscleblind-like protein 1; tandem zinc finger dom 98.52
3u9g_A229 Zinc finger CCCH-type antiviral protein 1; zinc fi 98.5
2cqe_A98 KIAA1064 protein; CCCH zinc-finger, structural gen 98.37
3d2n_A83 Muscleblind-like protein 1; tandem zinc finger dom 98.36
2e5s_A98 Otthump00000018578; ZF-CCCHX2 domain, muscleblind- 98.32
2rpp_A89 Muscleblind-like protein 2; zinc finger domain, C3 98.23
1m9o_A77 Tristetraproline; Cys3His type zinc finger, metal 98.21
2lhn_A80 Nuclear polyadenylated RNA-binding protein NAB2; n 97.19
3u9g_A229 Zinc finger CCCH-type antiviral protein 1; zinc fi 97.17
2lhn_A80 Nuclear polyadenylated RNA-binding protein NAB2; n 96.21
2hd9_A145 UPF0310 protein PH1033; pyrococcus horikoshii OT3, 96.62
2d9m_A69 Zinc finger CCCH-type domain containing protein 7A 96.6
2p5d_A147 UPF0310 protein mjecl36; NPPSFA, national project 95.51
2d9m_A69 Zinc finger CCCH-type domain containing protein 7A 95.45
2fc6_A50 Nuclear, target of EGR1, member 1; structure genom 94.45
2fc6_A50 Nuclear, target of EGR1, member 1; structure genom 94.38
3u1l_A240 PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 91.22
3u1l_A240 PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 91.19
>2yud_A YTH domain-containing protein 1; structure genomics, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
Probab=100.00  E-value=8.3e-50  Score=391.36  Aligned_cols=161  Identities=40%  Similarity=0.618  Sum_probs=148.3

Q ss_pred             CCCCCCCCCCCCCCccEEEEEeeCChhhHHHHHHcCeeeeccccHHHHHHHhccCCcEEEEEEeCCCCceeEEEEeccCC
Q 005338          247 PNQTNRNATPLPQGISRYFIVKSCNRENLELSVQQGVWATQRSNEAKLNEAFDSAENVILIFSVNRTRHFQGCAKMTSKI  326 (701)
Q Consensus       247 ~~~~nr~~~~~p~~~aRFFIIKS~n~enI~~Sik~gVWaTt~~ne~kLn~AF~~~~~V~LfFSVN~Sg~FqG~ArM~S~~  326 (701)
                      .+|||+..+.+  .++|||||||+|++||++|++|||||||++|+++|++||+++++||||||||+||+|||||+|+|++
T Consensus        13 ~~~~~~~~~~~--~~arfFIIKS~s~~ni~~Sik~gvWatt~~n~~kL~~Af~~~~~V~L~FSVn~Sg~F~G~A~M~s~~   90 (180)
T 2yud_A           13 KDQTSKLKYVL--QDARFFLIKSNNHENVSLAKAKGVWSTLPVNEKKLNLAFRSARSVILIFSVRESGKFQGFARLSSES   90 (180)
T ss_dssp             CCSSHHHHHHT--TTCEEEEEEESCHHHHHHHHHHTEECCCHHHHHHHHHHHHHSSCEEEEEEETTTSEEEEEEEEEEEE
T ss_pred             hhhcccccccc--CceEEEEEEeCCHHHHHHHHHcCEeecccccHHHHHHHHhhCCeEEEEEEeCCCCcEEEEEEEccCC
Confidence            37888877654  5789999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             CCCcCCCCccccCC--CCCcCCcceeeeEEeeecCccccccccCCCCCCCccccCCCCcccChHHHHHHHHHhhcCCCch
Q 005338          327 GGSVGGGNWKYAHG--TAHYGRNFSVKWLKLCELSFHKTRHLRNPYNENLPVKISRDCQELEPSIGEQLAALLYLEPDSE  404 (701)
Q Consensus       327 ~~~~~~~~W~~~~~--~~~~gg~F~VeWl~v~~LpF~~~~HL~Np~NenkPV~~sRDGQEIe~~~G~qL~~Lf~~~p~s~  404 (701)
                      +.......|....+  ..+|++.|+|+||++++|||+.++||+||||+||||+++||||||++++|++||+||..+++++
T Consensus        91 ~~~~~~~~W~~~~~~~~~~~~g~F~V~Wi~~~dvPf~~~~hl~n~~NenkpV~~sRDgqEI~~~~G~~L~~lf~~~~~~~  170 (180)
T 2yud_A           91 HHGGSPIHWVLPAGMSAKMLGGVFKIDWICRRELPFTKSAHLTNPWNEHKPVKIGRDGQEIELECGTQLCLLFPPDESID  170 (180)
T ss_dssp             ECSSCCCCCCCCSSCCGGGGCSEEEEEEEECSCEEHHHHTTCCBTTTTSBCTTSCCTTEEECHHHHHHHHHHSCCCSSSC
T ss_pred             CCCCCCccccccCccchhhcCCceEEEEEEeecCCchhhhhccccccCCCeeeeCCCCEEcCHHHHHHHHHhcccCcCcc
Confidence            87776778975432  3579999999999999999999999999999999999999999999999999999999999988


Q ss_pred             hhhhh
Q 005338          405 LMAIS  409 (701)
Q Consensus       405 l~~~~  409 (701)
                      +..+.
T Consensus       171 ~~~~~  175 (180)
T 2yud_A          171 LYQVI  175 (180)
T ss_dssp             SHHHH
T ss_pred             HHHHH
Confidence            87665
>2yu6_A YTH domain-containing protein 2; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2d9n_A Cleavage and polyadenylation specificity factor, 30 kDa subunit; CCCH zinc-finger, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2rhk_C Cleavage and polyadenylation specificity factor subunit 4; influenza A, nonstructural protein, viral protein: HOST complex, Zn finger; 1.95A {Homo sapiens} Back     alignment and structure
>2cqe_A KIAA1064 protein; CCCH zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.66.1.1 g.66.1.1 Back     alignment and structure
>1m9o_A Tristetraproline; Cys3His type zinc finger, metal binding protein; NMR {Mus musculus} SCOP: g.66.1.1 PDB: 1rgo_A Back     alignment and structure
>3d2q_A Muscleblind-like protein 1; tandem zinc finger domain, alternative splicing, metal- binding, nucleus, RNA-binding, zinc, zinc-finger, metal binding; 1.50A {Homo sapiens} PDB: 3d2s_A Back     alignment and structure
>2e5s_A Otthump00000018578; ZF-CCCHX2 domain, muscleblind-like 2, isoform 1, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>3d2n_A Muscleblind-like protein 1; tandem zinc finger domain, alternative splicing, metal- binding, nucleus, RNA-binding, zinc, zinc-finger, metal binding; 2.70A {Homo sapiens} Back     alignment and structure
>2rpp_A Muscleblind-like protein 2; zinc finger domain, C3H, alternative splicing, cytoplasm, metal-binding, nucleus, RNA-binding, zinc, zinc-finger; NMR {Homo sapiens} Back     alignment and structure
>2d9n_A Cleavage and polyadenylation specificity factor, 30 kDa subunit; CCCH zinc-finger, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2rhk_C Cleavage and polyadenylation specificity factor subunit 4; influenza A, nonstructural protein, viral protein: HOST complex, Zn finger; 1.95A {Homo sapiens} Back     alignment and structure
>3d2q_A Muscleblind-like protein 1; tandem zinc finger domain, alternative splicing, metal- binding, nucleus, RNA-binding, zinc, zinc-finger, metal binding; 1.50A {Homo sapiens} PDB: 3d2s_A Back     alignment and structure
>3u9g_A Zinc finger CCCH-type antiviral protein 1; zinc finger protein; 1.80A {Rattus norvegicus} Back     alignment and structure
>2cqe_A KIAA1064 protein; CCCH zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.66.1.1 g.66.1.1 Back     alignment and structure
>3d2n_A Muscleblind-like protein 1; tandem zinc finger domain, alternative splicing, metal- binding, nucleus, RNA-binding, zinc, zinc-finger, metal binding; 2.70A {Homo sapiens} Back     alignment and structure
>2e5s_A Otthump00000018578; ZF-CCCHX2 domain, muscleblind-like 2, isoform 1, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2rpp_A Muscleblind-like protein 2; zinc finger domain, C3H, alternative splicing, cytoplasm, metal-binding, nucleus, RNA-binding, zinc, zinc-finger; NMR {Homo sapiens} Back     alignment and structure
>1m9o_A Tristetraproline; Cys3His type zinc finger, metal binding protein; NMR {Mus musculus} SCOP: g.66.1.1 PDB: 1rgo_A Back     alignment and structure
>2lhn_A Nuclear polyadenylated RNA-binding protein NAB2; nuclear protein; NMR {Saccharomyces cerevisiae S288C} Back     alignment and structure
>3u9g_A Zinc finger CCCH-type antiviral protein 1; zinc finger protein; 1.80A {Rattus norvegicus} Back     alignment and structure
>2lhn_A Nuclear polyadenylated RNA-binding protein NAB2; nuclear protein; NMR {Saccharomyces cerevisiae S288C} Back     alignment and structure
>2hd9_A UPF0310 protein PH1033; pyrococcus horikoshii OT3, structural genomics, NPPSFA, NATI project on protein structural and functional analyses; HET: CIT; 1.35A {Pyrococcus horikoshii} SCOP: b.122.1.8 PDB: 1wmm_A* 2zbn_A Back     alignment and structure
>2d9m_A Zinc finger CCCH-type domain containing protein 7A; CCCH zinc-finger, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2p5d_A UPF0310 protein mjecl36; NPPSFA, national project on protein structural and functional analyses; 1.70A {Methanocaldococcus jannaschii} Back     alignment and structure
>2d9m_A Zinc finger CCCH-type domain containing protein 7A; CCCH zinc-finger, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2fc6_A Nuclear, target of EGR1, member 1; structure genomics, ZF-CCCH domain, member 1(nuclear), structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.66.1.1 Back     alignment and structure
>2fc6_A Nuclear, target of EGR1, member 1; structure genomics, ZF-CCCH domain, member 1(nuclear), structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.66.1.1 Back     alignment and structure
>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A Back     alignment and structure
>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query701
d2cqea229 Zinc finger CCCH domain-containing protein C19orf7 98.01
d1m9oa_40 Tristetraproline (ttp, tis11, nup475) {Mouse (Mus 97.94
d1rgoa136 Butyrate response factor 2 (Tis11D) {Human (Homo s 97.81
d1rgoa234 Butyrate response factor 2 (Tis11D) {Human (Homo s 97.76
d2cqea229 Zinc finger CCCH domain-containing protein C19orf7 97.58
d1rgoa234 Butyrate response factor 2 (Tis11D) {Human (Homo s 97.09
d1m9oa_40 Tristetraproline (ttp, tis11, nup475) {Mouse (Mus 96.67
d1rgoa136 Butyrate response factor 2 (Tis11D) {Human (Homo s 96.49
d2hd9a1145 Hypothetical protein PH1033 {Pyrococcus horikoshii 96.09
d2cqea156 Zinc finger CCCH domain-containing protein C19orf7 94.89
d2cqea156 Zinc finger CCCH domain-containing protein C19orf7 94.23
d2fc6a137 Target of EGR1 protein 1, TOE1 {Human (Homo sapien 92.04
>d2cqea2 g.66.1.1 (A:429-457) Zinc finger CCCH domain-containing protein C19orf7 (KIAA1064) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: Small proteins
fold: CCCH zinc finger
superfamily: CCCH zinc finger
family: CCCH zinc finger
domain: Zinc finger CCCH domain-containing protein C19orf7 (KIAA1064)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.01  E-value=1.1e-06  Score=59.58  Aligned_cols=25  Identities=16%  Similarity=0.866  Sum_probs=23.3

Q ss_pred             cccccccccccCCCCCCCCCCCCCC
Q 005338           73 FRQTVCRHWLRSLCMKGDACGFLHQ   97 (701)
Q Consensus        73 ~Kt~VCrfFlrG~C~kGd~C~FaH~   97 (701)
                      .|..+|+||+.|.|.+|++|.|.|.
T Consensus         4 kkkelCKfYvqGyCtrgenC~ymH~   28 (29)
T d2cqea2           4 KKRELCKFYITGFCARAENCPYMHG   28 (29)
T ss_dssp             CCCSBCTTTTTTCCSCSTTCSSBSS
T ss_pred             hhhhhhhhheeeeecCCcCcccccC
Confidence            4779999999999999999999995
>d1m9oa_ g.66.1.1 (A:) Tristetraproline (ttp, tis11, nup475) {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1rgoa1 g.66.1.1 (A:151-186) Butyrate response factor 2 (Tis11D) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1rgoa2 g.66.1.1 (A:187-220) Butyrate response factor 2 (Tis11D) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cqea2 g.66.1.1 (A:429-457) Zinc finger CCCH domain-containing protein C19orf7 (KIAA1064) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1rgoa2 g.66.1.1 (A:187-220) Butyrate response factor 2 (Tis11D) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1m9oa_ g.66.1.1 (A:) Tristetraproline (ttp, tis11, nup475) {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1rgoa1 g.66.1.1 (A:151-186) Butyrate response factor 2 (Tis11D) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2hd9a1 b.122.1.8 (A:1-145) Hypothetical protein PH1033 {Pyrococcus horikoshii [TaxId: 53953]} Back     information, alignment and structure
>d2cqea1 g.66.1.1 (A:458-513) Zinc finger CCCH domain-containing protein C19orf7 (KIAA1064) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cqea1 g.66.1.1 (A:458-513) Zinc finger CCCH domain-containing protein C19orf7 (KIAA1064) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2fc6a1 g.66.1.1 (A:8-44) Target of EGR1 protein 1, TOE1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure