Citrus Sinensis ID: 042473

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-------41
MFERKFYKTRICVLYQKGRCSRPTCSFAHGDAELRRPFRSHHGGPDYRVGDLRDKLDRRLSPQKIYSPGRDTRGRNRFRGLSPSRSPENKSDRKRWKKQHLDGPREFSASLKISDGINDRVKERKFTPSDSKVVLLEQLKEVQLDINVLEDRKLQLETNEEEKGQEADILSSRIKELETQLQKEKEESKRIASKIKKFVKAHNRHSQMQDDLKRSQARLQKLGYHLGLDATKVGGNEEDSSINIMSDEETTNYHLVDPQNEKQTIPSPNKKKLHVDRDTTNGFVPEANLTKDGGRVAESVHLKEVSWWNQHPTNHGSVADESKLKGKNVSTSWFSAQAKNVRSANALALPSTGIAAHVNDEEIEVEVEQIEEIDMASAGTGKGATYMAKGLQFRLPPPLPIPRNAYIE
ccccccHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHccccccccccccccccccccHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHccccccccccccHHHHHcccccccccHHHHHHccccccccccccccccccccccHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccc
ccccccHHHHHHHHHHcccccccccccccccHHHccccccccccccccccccccHHHccccccccccccccccccccccccccccccccccHHHHccccccccccccccccEEccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccEEEcccccccccccccHHHcccccccHHHHHHccccccccccccccccccccccEEEEEEEccccEEccccccccEEccccccccccEEEccccccccccccccEEEcccccccEEEccccEEEEcccccHHHHHHccccccccccccccccccccccccccccccc
mferkfykTRICVLyqkgrcsrptcsfahgdaelrrpfrshhggpdyrvgdlrdkldrrlspqkiyspgrdtrgrnrfrglspsrspenksdrkrwkkqhldgprefsasLKISDgindrvkerkftpsdsKVVLLEQLKEVQLDINVLEDRKlqletneeekgQEADILSSRIKELETQLQKEKEESKRIASKIKKFVKAHNRHSQMQDDLKRSQARLQKLGYHlgldatkvggneedssinimsdeettnyhlvdpqnekqtipspnkkklhvdrdttngfvpeanltkdggrvaESVHLKEVswwnqhptnhgsvadesklkgknvstSWFSAQAKNVRSanalalpstgiaahvndeeIEVEVEQIEEIDmasagtgkgatYMAKglqfrlppplpiprnayie
mferkfyktricvlyqkgrcsrptcSFAHGDAElrrpfrshhggpdyrvgdlrdkldrrlspqkiyspgrdtrgrnrfrglspsrspenksdrkrwkkqhldgprefsaslkisdgindrvkerkftpsdskvvLLEQlkevqldinvledrklqletneeekgqeadiLSSRIKELETqlqkekeeskRIASKIKKFVKahnrhsqmqddLKRSQARLQKLGYHlgldatkvggneEDSSINIMSDEETTNYHLVdpqnekqtipspnkkklhvdrdttngfvpeanltkdgGRVAESVHLKEVswwnqhptnhgsvadesklKGKNVSTSWFSAQAKNVRSANALALPSTGIAAHVNDEEIEVEVEQIEEIDMASAGTGKGATYMAKGLqfrlppplpiprnayie
MFERKFYKTRICVLYQKGRCSRPTCSFAHGDAELRRPFRSHHGGPDYRVGDLRDKLDRRLSPQKIYSPGRDTRGRNRFRGLSPSRSPENKSDRKRWKKQHLDGPREFSASLKISDGINDRVKERKFTPSDSkvvlleqlkevqlDINVLEDRKLQLETNEEEKGQEADILSSRIkeletqlqkekeeskRIASKIKKFVKAHNRHSQMQDDLKRSQARLQKLGYHLGLDATKVGGNEEDSSINIMSDEETTNYHLVDPQNEKQTIPSPNKKKLHVDRDTTNGFVPEANLTKDGGRVAESVHLKEVSWWNQHPTNHGSVADESKLKGKNVSTSWFSAQAKNVRSANALALPSTGIAAHVNDeeieveveqieeiDMASAGTGKGATYMAKGLQFRLPPPLPIPRNAYIE
****KFYKTRICVLYQKGRCSRPTCSFAHG******************************************************************************************************VVLLEQLKEVQLDINVL************************************************************************LGYHLGL*******************************************************************VAESVHLKEVSWWNQ**********************WF**********NALALPSTGIAAHVNDEEIEVEVEQIEEID*********ATYMAKGLQF***************
******Y*TRICVLYQKGRCSRPTCSFAHGD***********************************************************************************************************************************************************************VK************************************************************************************************************************************************************H**DE*IEVEVEQIEEID**********************************
MFERKFYKTRICVLYQKGRCSRPTCSFAHGDAELRRPFRSHHGGPDYRVGDLRDKLDRRLSPQKIYSPGRDTRGRNRFR************************PREFSASLKISDGINDRVKERKFTPSDSKVVLLEQLKEVQLDINVLEDRKLQLE***********ILSSRIKEL*************IASKIKKF****************SQARLQKLGYHLGLDATKVGGNEEDSSINIMSDEETTNYHLVDPQNEKQTIPSPNKKKLHVDRDTTNGFVPEANLTKDGGRVAESVHLKEVSWWNQHPTNHGSVADESKLKGKNVSTSWFSAQAKNVRSANALALPSTGIAAHVNDEEIEVEVEQIEEIDMASAGTGKGATYMAKGLQFRLPPPLPIPRNAYIE
***RKFYKTRICVLYQKGRCSRPTCSFAHGDAELRRPF***********GDLRDKLDR***********************************************************************DSKVVLLEQLKEVQLDINVLEDRKLQLETNEEEKGQEADILSSRIKELETQLQKEKEESKRIASKIKKFVKAHNRHSQMQDDLKRSQARLQKLGYHLGLDATKVG*****SSINIM***********************************************GGRVAESVHLKEVSWWNQHPTNHGSVADESKLKGKNVSTSWFSAQAKNVRSANALALPSTGIAAHVNDEEIEVEVEQIEEIDMASAGTGKGATYMAKGLQFRLPPPLPIPRN****
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MFERKFYKTRICVLYQKGRCSRPTCSFAHGDAELRRPFRSHHGGPDYRVGDLRDKLDRRLSPQKIYSPGRDTRGRNRFRGLSPSRSPENKSDRKRWKKQHLDGPREFSASLKISDGINDRVKERKFTPSDSxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxIKKFVKAHNRHSQMQDDLKRSQARLQKLGYHLGLDATKVGGNEEDSSINIMSDEETTNYHLVDPQNEKQTIPSPNKKKLHVDRDTTNGFVPEANLTKDGGRVAESVHLKEVSWWNQHPTNHGSVADESKLKGKNVSTSWFSAQAKNVRSANALALPSTGIAAHVNDEEIEVEVEQIEEIDMASAGTGKGATYMAKGLQFRLPPPLPIPRNAYIE
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 ?
Query408 2.2.26 [Sep-21-2011]
Q6H7U2426 Zinc finger CCCH domain-c yes no 0.911 0.873 0.382 7e-57
Q93XW7437 Zinc finger CCCH domain-c yes no 0.875 0.816 0.380 2e-55
>sp|Q6H7U2|C3H13_ORYSJ Zinc finger CCCH domain-containing protein 13 OS=Oryza sativa subsp. japonica GN=Os02g0161200 PE=2 SV=1 Back     alignment and function desciption
 Score =  221 bits (564), Expect = 7e-57,   Method: Compositional matrix adjust.
 Identities = 165/431 (38%), Positives = 234/431 (54%), Gaps = 59/431 (13%)

Query: 7   YKTRICVLYQKGRCSRPTCSFAHGDAELRRP------FRSHHGGPDYRVGDLRDKLDRRL 60
           YKT++C L+Q+G C+R TCSFAHG  ++RRP      F  H G  DYR GD R ++DRR 
Sbjct: 11  YKTKLCALWQRGNCNRDTCSFAHGHGDIRRPPSSRGAFTHHPGRRDYRAGDFRGRIDRRF 70

Query: 61  SPQKIYSPGRDTRGR---------NRFRGLSPSRSPENKSDRKRWKKQHLDGPREFSASL 111
           SP++ +SPGR++RG          +R R  S SRSP  KS+R+  KK   DG    S SL
Sbjct: 71  SPRRRHSPGRESRGHRPLYDRRPSSRERDSSYSRSPSRKSERRHEKKTD-DGETNSSRSL 129

Query: 112 KISDGINDRVKERKFTPSDSKVVLLEQLKEVQLDINVLEDRKLQLETNEEEKGQEADILS 171
            +SD  ND  K+ KF+  D K    +QLK+++LD+  L D K Q+E   +EK  E   +S
Sbjct: 130 SLSDN-NDEKKKDKFSSGDEKEDHEKQLKQIRLDMEALRDDKTQMEVILDEKIDEVRKIS 188

Query: 172 SRIKELETQLQKEKEESKRIASKIKKFVKAHNRHSQMQDDLKRSQARLQKLGYHLGLDAT 231
           S++ +LE QL++EK+E  R+ SK+KKF+KAH R  + Q+++KRSQAR ++LG  L  D  
Sbjct: 189 SKVNDLEVQLRREKDECHRMTSKMKKFIKAHARFLKAQEEVKRSQARFERLGDLLASDIL 248

Query: 232 KVGGNEEDSSINIMSDEETTNYHLVDPQNEKQTIPSPN-------KKKLHVDRDTTN--- 281
           K G NEE SS+N   +E + N        +K++IP          KK+   D DT     
Sbjct: 249 KRGANEEGSSVNEDLNERSPNTAAT----KKRSIPYSTSEEAKAVKKRRERDSDTMTRSD 304

Query: 282 ---GFVPEANLTKDGGRVAESVHLKEVSWWNQHPTNHGSVADESKLKGKNVSTSWFSAQA 338
                V + + T  G    +S++LK+  W ++          +SKL G N+    F+ + 
Sbjct: 305 KYRSDVTDFDKTSKGTEATKSLYLKKKLWEDE----------KSKL-GANI----FTEKV 349

Query: 339 KNVRSANALALPSTGIAAHVND---EEIEVEVEQIEEIDMASAGTGKGATYMAKGLQFRL 395
           K   S     LPSTG+AAH  D   E IE+E ++ E ID          T   +     L
Sbjct: 350 KG--SPVRHVLPSTGMAAHAIDDLNEAIELE-DRHESIDALLENDADDKT---RSPAIPL 403

Query: 396 PPPLPIPRNAY 406
            PP P+ +NAY
Sbjct: 404 QPP-PVVQNAY 413

Oryza sativa subsp. japonica (taxid: 39947)
>sp|Q93XW7|C3H40_ARATH Zinc finger CCCH domain-containing protein 40 OS=Arabidopsis thaliana GN=At3g21810 PE=1 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 ?
Query408
255549359448 conserved hypothetical protein [Ricinus 0.877 0.799 0.511 3e-86
225447336444 PREDICTED: zinc finger CCCH domain-conta 0.982 0.903 0.533 5e-85
356544832417 PREDICTED: zinc finger CCCH domain-conta 0.926 0.906 0.44 5e-75
356515288399 PREDICTED: zinc finger CCCH domain-conta 0.919 0.939 0.411 2e-64
297830876436 hypothetical protein ARALYDRAFT_898633 [ 0.872 0.816 0.390 1e-55
115444393426 Os02g0161200 [Oryza sativa Japonica Grou 0.911 0.873 0.382 4e-55
18403162437 zinc finger CCCH domain-containing prote 0.875 0.816 0.380 1e-53
116788784493 unknown [Picea sitchensis] 0.877 0.726 0.373 3e-52
224285176493 unknown [Picea sitchensis] 0.877 0.726 0.373 3e-52
224093208207 predicted protein [Populus trichocarpa] 0.5 0.985 0.574 4e-52
>gi|255549359|ref|XP_002515733.1| conserved hypothetical protein [Ricinus communis] gi|223545170|gb|EEF46680.1| conserved hypothetical protein [Ricinus communis] Back     alignment and taxonomy information
 Score =  325 bits (832), Expect = 3e-86,   Method: Compositional matrix adjust.
 Identities = 194/379 (51%), Positives = 238/379 (62%), Gaps = 21/379 (5%)

Query: 1   MFERKFYKTRICVLYQKGRCSRPTCSFAHGDAELRRPFRSHHGGPDYRVGDLRDKLDRRL 60
           M E K +KTR+C LYQKG C R  CSFAHG+A+LR+ F S++   D R GDLRDKLD + 
Sbjct: 1   MGEGKLFKTRLCALYQKGHCHRHNCSFAHGNADLRQSFASYNDKQDRRSGDLRDKLDMKF 60

Query: 61  SPQKIYSPGRDTRGRNRFRGLSPSRSPENKSDRKRWKKQHLDGPREFSASLKISDGINDR 120
           SP++ YSP +DTRG+ RFRG SPSRS E  SDRKR +K H DG  +FS SLK SDG  D+
Sbjct: 61  SPRRKYSPAKDTRGQRRFRGSSPSRSLERNSDRKRRRKPHFDGQSDFSGSLKSSDGAGDQ 120

Query: 121 VKERKFTPSDSKVVLLEQLKEVQLDINVLEDRKLQLETNEEEKGQEADILSSRIKELETQ 180
           VK RK T +DS+VVL EQLKEV+ +I++LE +K QL    +EK +EADILSSRI+EL++Q
Sbjct: 121 VKRRKNT-ADSRVVLKEQLKEVRTEISMLEQQKSQLRILVQEKIEEADILSSRIRELDSQ 179

Query: 181 LQKEKEESKRIASKIKKFVKAHNRHSQMQDDLKRSQARLQKLGYHLGLDATKVGGNEEDS 240
           L KEKEE KR  SKIKKFVKAH  + Q+Q++LKRSQ RLQKLG  LG      GGNEEDS
Sbjct: 180 LSKEKEECKRTISKIKKFVKAHKHYVQIQEELKRSQGRLQKLGDQLGSGIITTGGNEEDS 239

Query: 241 SINIMSDEETTNYHLVDPQNEKQTIPSPNKKKLHVDRDTTNGFVPEANLTKDGGRVAESV 300
           SINI+SD E    H + P+NE Q   SP +  LH   D       +AN T DGG   +++
Sbjct: 240 SINIVSDGEAPGSHAISPRNEVQNNSSPRENILHAKCDNAEE-SKKANSTNDGGYHTKTI 298

Query: 301 HL----------------KEVSWWNQHPTNHGSVADESKLK-GKNVSTSWFSAQAKNVRS 343
            L                KEV   +       S+ +E K K GK+V     SA       
Sbjct: 299 SLGKSFQLNANAALLNINKEVVMADNGNDRDRSIGNEGKQKRGKSVYACISSADKLKGSE 358

Query: 344 ANALALPSTGIAA-HVNDE 361
              LA PST +AA H  DE
Sbjct: 359 IGRLA-PSTSMAAFHAIDE 376

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|225447336|ref|XP_002274263.1| PREDICTED: zinc finger CCCH domain-containing protein 13 [Vitis vinifera] gi|297739310|emb|CBI28961.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|356544832|ref|XP_003540851.1| PREDICTED: zinc finger CCCH domain-containing protein 13-like [Glycine max] Back     alignment and taxonomy information
>gi|356515288|ref|XP_003526333.1| PREDICTED: zinc finger CCCH domain-containing protein 13-like [Glycine max] Back     alignment and taxonomy information
>gi|297830876|ref|XP_002883320.1| hypothetical protein ARALYDRAFT_898633 [Arabidopsis lyrata subsp. lyrata] gi|297329160|gb|EFH59579.1| hypothetical protein ARALYDRAFT_898633 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|115444393|ref|NP_001045976.1| Os02g0161200 [Oryza sativa Japonica Group] gi|75259316|sp|Q6H7U2.1|C3H13_ORYSJ RecName: Full=Zinc finger CCCH domain-containing protein 13; Short=OsC3H13; AltName: Full=BRI1-kinase domain-interacting protein 105; Short=BIP105 gi|49389245|dbj|BAD25207.1| putative BRI1-KD interacting protein [Oryza sativa Japonica Group] gi|50251275|dbj|BAD28055.1| putative BRI1-KD interacting protein [Oryza sativa Japonica Group] gi|113535507|dbj|BAF07890.1| Os02g0161200 [Oryza sativa Japonica Group] gi|215694419|dbj|BAG89412.1| unnamed protein product [Oryza sativa Japonica Group] Back     alignment and taxonomy information
>gi|18403162|ref|NP_566691.1| zinc finger CCCH domain-containing protein 40 [Arabidopsis thaliana] gi|75249392|sp|Q93XW7.1|C3H40_ARATH RecName: Full=Zinc finger CCCH domain-containing protein 40; Short=AtC3H40 gi|16649059|gb|AAL24381.1| Unknown protein [Arabidopsis thaliana] gi|22136226|gb|AAM91191.1| unknown protein [Arabidopsis thaliana] gi|332643033|gb|AEE76554.1| zinc finger CCCH domain-containing protein 40 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|116788784|gb|ABK25000.1| unknown [Picea sitchensis] Back     alignment and taxonomy information
>gi|224285176|gb|ACN40315.1| unknown [Picea sitchensis] Back     alignment and taxonomy information
>gi|224093208|ref|XP_002309834.1| predicted protein [Populus trichocarpa] gi|222852737|gb|EEE90284.1| predicted protein [Populus trichocarpa] 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 ?
Query408
TAIR|locus:2093044437 AT3G21810 [Arabidopsis thalian 0.865 0.807 0.347 1e-43
TAIR|locus:2093044 AT3G21810 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 461 (167.3 bits), Expect = 1.0e-43, P = 1.0e-43
 Identities = 131/377 (34%), Positives = 183/377 (48%)

Query:     7 YKTRICVLYQK-GRCSRPTCSFAHGDAELRRP----F--RSHHGGPDYRV------GDLR 53
             YKT++C+L+ K G CSRP C+FAHG+AELRRP    F  R H+   D R        DLR
Sbjct:     7 YKTKLCILFNKTGDCSRPNCTFAHGNAELRRPGESSFTGRRHNMDSDLRDRRHNMDSDLR 66

Query:    54 DKLDRRLSPQKIYSPGRDTRGRNRFRGLSPSRSPENKSDRKRWKKQHLDGPREFSASLKI 113
             D+L R+ SP++  S  R  R   RF G   S   EN+ D+   + +  D  R+++  LK+
Sbjct:    67 DRLGRQFSPERRPSLDRSGRRVQRFSGHDNSMPFENRRDKDYRENRRFDERRDYAGGLKV 126

Query:   114 SDGINDRVKERKFTPSDSXXXXXXXXXXXXXDINVLEDRKLQLETNEEEKGQEADILSSR 173
              + I DR ++ +                   D+ +L D KL+LE + E K  E DIL+SR
Sbjct:   127 GNRIEDRAEDGRNKFHGYNNVLEEQLKDVEMDVKMLTDDKLRLEASVERKAHEVDILTSR 186

Query:   174 IXXXXXXXXXXXXXXXRIASKIKKFVKAHNRHSQMQDDLKRSQARLQKLGYHLGLDATKV 233
             I               RI S  KKFVK +NR  + QDDLKRS+ARLQKLG  L       
Sbjct:   187 IQELETQLDREKDECRRITSSSKKFVKEYNRFLRAQDDLKRSEARLQKLGNQLSTYLAGS 246

Query:   234 GGNEEDSSINIMSDEETTNYHL---VDPQNEKQTIPSPNKKKLHVDRDTTNGFVPEANLT 290
              GN  D  ++I+SDEET   +L    DP NE Q   S ++KK +VD+ TT   V +  + 
Sbjct:   247 EGNNRDVGLDIVSDEETNGRNLRTACDPHNELQNTSSLSRKKHYVDQYTTKEPVEDGLIG 306

Query:   291 KDGGRVAESVHLKEVSWWNQHPTNH------GSVADESKL-KGKNVSTSWFSAQAKNVRS 343
             +      E+   K    WN   +        G+  DE  + +  +   +W   +     S
Sbjct:   307 RGEEEKVEN-EKKRPPCWNMLSSKSYSEEESGAWNDEDTINRSSSKEDNWKRRRFSIGTS 365

Query:   344 ANALALPSTGIAAHVND 360
             A    + ST +AA   D
Sbjct:   366 ATDKVILSTSMAAREFD 382


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.314   0.131   0.384    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      408       367   0.00084  117 3  11 23  0.45    34
                                                     34  0.45    37


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  1
  No. of states in DFA:  611 (65 KB)
  Total size of DFA:  240 KB (2130 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  34.80u 0.11s 34.91t   Elapsed:  00:00:01
  Total cpu time:  34.80u 0.11s 34.91t   Elapsed:  00:00:01
  Start:  Fri May 10 09:36:26 2013   End:  Fri May 10 09:36:27 2013
GO:0003676 "nucleic acid binding" evidence=IEA;ISS
GO:0005634 "nucleus" evidence=ISM
GO:0008150 "biological_process" evidence=ND
GO:0008270 "zinc ion binding" evidence=IEA
GO:0006355 "regulation of transcription, DNA-dependent" evidence=RCA

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) ?
Q6H7U2C3H13_ORYSJNo assigned EC number0.38280.91170.8732yesno
Q93XW7C3H40_ARATHNo assigned EC number0.38030.8750.8169yesno

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:
GSVIVG00026060001
SubName- Full=Chromosome chr12 scaffold_36, whole genome shotgun sequence; (426 aa)
(Vitis vinifera)
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 ?
Query408
smart0035627 smart00356, ZnF_C3H1, zinc finger 9e-05
pfam0064227 pfam00642, zf-CCCH, Zinc finger C-x8-C-x5-C-x3-H t 0.001
TIGR04211198 TIGR04211, SH3_and_anchor, SH3 domain protein 0.002
COG0419 908 COG0419, SbcC, ATPase involved in DNA repair [DNA 0.003
COG1196 1163 COG1196, Smc, Chromosome segregation ATPases [Cell 0.003
COG3937108 COG3937, COG3937, Uncharacterized conserved protei 0.003
TIGR02168 1179 TIGR02168, SMC_prok_B, chromosome segregation prot 0.004
>gnl|CDD|214632 smart00356, ZnF_C3H1, zinc finger Back     alignment and domain information 
 Score = 39.1 bits (92), Expect = 9e-05
 Identities = 11/26 (42%), Positives = 15/26 (57%), Gaps = 1/26 (3%)

Query: 7  YKTRICVLYQKGRCSR-PTCSFAHGD 31
          YKT +C  +++G C R   C FAH  
Sbjct: 2  YKTELCKFFKRGYCPRGDRCKFAHPL 27

Length = 27
>gnl|CDD|144294 pfam00642, zf-CCCH, Zinc finger C-x8-C-x5-C-x3-H type (and similar) Back     alignment and domain information
>gnl|CDD|234501 TIGR04211, SH3_and_anchor, SH3 domain protein Back     alignment and domain information
>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair] Back     alignment and domain information
>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning] Back     alignment and domain information
>gnl|CDD|226447 COG3937, COG3937, Uncharacterized conserved protein [Function unknown] Back     alignment and domain information
>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 408
PF0064227 zf-CCCH: Zinc finger C-x8-C-x5-C-x3-H type (and si 98.39
KOG1677332 consensus CCCH-type Zn-finger protein [General fun 98.16
smart0035627 ZnF_C3H1 zinc finger. 97.81
KOG1677332 consensus CCCH-type Zn-finger protein [General fun 97.65
COG5063351 CTH1 CCCH-type Zn-finger protein [General function 96.97
KOG1595528 consensus CCCH-type Zn-finger protein [General fun 93.94
COG5063351 CTH1 CCCH-type Zn-finger protein [General function 93.82
KOG1763343 consensus Uncharacterized conserved protein, conta 93.22
PF11559151 ADIP: Afadin- and alpha -actinin-Binding; InterPro 93.02
PRK11637 428 AmiB activator; Provisional 92.79
PF11559151 ADIP: Afadin- and alpha -actinin-Binding; InterPro 92.28
COG5252299 Uncharacterized conserved protein, contains CCCH-t 92.28
PF11932251 DUF3450: Protein of unknown function (DUF3450); In 91.91
KOG2202260 consensus U2 snRNP splicing factor, small subunit, 91.79
KOG1595528 consensus CCCH-type Zn-finger protein [General fun 91.24
PF04156191 IncA: IncA protein; InterPro: IPR007285 Chlamydia 91.22
PRK11637 428 AmiB activator; Provisional 91.2
PF07106169 TBPIP: Tat binding protein 1(TBP-1)-interacting pr 91.19
TIGR00998334 8a0101 efflux pump membrane protein (multidrug res 90.98
PHA02562562 46 endonuclease subunit; Provisional 90.79
PF07888 546 CALCOCO1: Calcium binding and coiled-coil domain ( 90.49
PF15619194 Lebercilin: Ciliary protein causing Leber congenit 89.86
PRK10476346 multidrug resistance protein MdtN; Provisional 89.64
PF1460819 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type 88.62
KOG0982502 consensus Centrosomal protein Nuf [Cell cycle cont 88.61
PF0450823 Pox_A_type_inc: Viral A-type inclusion protein rep 88.42
KOG0995581 consensus Centromere-associated protein HEC1 [Cell 87.31
KOG2185486 consensus Predicted RNA-processing protein, contai 87.27
PF04156191 IncA: IncA protein; InterPro: IPR007285 Chlamydia 87.21
KOG2494331 consensus C3H1-type Zn-finger protein [Transcripti 87.06
PF04111314 APG6: Autophagy protein Apg6; InterPro: IPR007243 86.24
PF09304107 Cortex-I_coil: Cortexillin I, coiled coil; InterPr 86.06
PRK09039343 hypothetical protein; Validated 85.87
PF00038312 Filament: Intermediate filament protein; InterPro: 85.08
PF12718143 Tropomyosin_1: Tropomyosin like; InterPro: IPR0005 85.08
TIGR01837118 PHA_granule_1 poly(hydroxyalkanoate) granule-assoc 84.47
PRK02224 880 chromosome segregation protein; Provisional 84.21
PF07888546 CALCOCO1: Calcium binding and coiled-coil domain ( 84.19
KOG1040325 consensus Polyadenylation factor I complex, subuni 83.9
PF07106169 TBPIP: Tat binding protein 1(TBP-1)-interacting pr 83.73
TIGR021681179 SMC_prok_B chromosome segregation protein SMC, com 83.5
TIGR01843423 type_I_hlyD type I secretion membrane fusion prote 83.45
PF11932251 DUF3450: Protein of unknown function (DUF3450); In 83.44
PF10146230 zf-C4H2: Zinc finger-containing protein ; InterPro 83.39
PF08317325 Spc7: Spc7 kinetochore protein; InterPro: IPR01325 82.76
TIGR03007498 pepcterm_ChnLen polysaccharide chain length determ 82.23
KOG2494331 consensus C3H1-type Zn-finger protein [Transcripti 82.19
PF05266190 DUF724: Protein of unknown function (DUF724); Inte 81.96
PRK03918880 chromosome segregation protein; Provisional 81.77
PRK10884206 SH3 domain-containing protein; Provisional 81.69
TIGR02169 1164 SMC_prok_A chromosome segregation protein SMC, pri 81.08
PF10186302 Atg14: UV radiation resistance protein and autopha 80.2
>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 
Probab=98.39  E-value=7.4e-08  Score=63.91  Aligned_cols=25  Identities=44%  Similarity=1.169  Sum_probs=20.6

Q ss_pred             hhhhhhhhccc-CCCCC-CCCCcccCc
Q 042473            7 YKTRICVLYQK-GRCSR-PTCSFAHGD   31 (408)
Q Consensus         7 yKTkLC~~f~~-G~C~~-~~C~FAHGe   31 (408)
                      |||.+|.+|.+ |.|++ ++|.|+|++
T Consensus         1 ~k~~~C~~f~~~g~C~~G~~C~f~H~~   27 (27)
T PF00642_consen    1 YKTKLCRFFMRTGTCPFGDKCRFAHGE   27 (27)
T ss_dssp             TTSSB-HHHHHTS--TTGGGSSSBSSG
T ss_pred             CccccChhhccCCccCCCCCcCccCCC
Confidence            89999999987 99999 999999985

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents C-x8-C-x5-C-x3-H (CCCH) type Zinc finger (Znf) domains. Proteins containing CCCH Znf domains include Znf proteins from eukaryotes involved in cell cycle or growth phase-related regulation, e.g. human TIS11B (butyrate response factor 1), a probable regulatory protein involved in regulating the response to growth factors, and the mouse TTP growth factor-inducible nuclear protein, which has the same function. The mouse TTP protein is induced by growth factors. Another protein containing this domain is the human splicing factor U2AF 35kDa subunit, which plays a critical role in both constitutive and enhancer-dependent splicing by mediating essential protein-protein interactions and protein-RNA interactions required for 3' splice site selection. It has been shown that different CCCH-type Znf proteins interact with the 3'-untranslated region of various mRNA [, ]. This type of Znf is very often present in two copies. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 1M9O_A 1RGO_A 2CQE_A 2FC6_A 2D9M_A 2E5S_A 2RHK_C 2D9N_A 3D2S_A 3D2Q_C ....
>KOG1677 consensus CCCH-type Zn-finger protein [General function prediction only] Back     alignment and domain information
>smart00356 ZnF_C3H1 zinc finger Back     alignment and domain information
>KOG1677 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
>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
>KOG1763 consensus Uncharacterized conserved protein, contains CCCH-type Zn-finger [General function prediction only] Back     alignment and domain information
>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch Back     alignment and domain information
>PRK11637 AmiB activator; Provisional Back     alignment and domain information
>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch Back     alignment and domain information
>COG5252 Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only] Back     alignment and domain information
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function Back     alignment and domain information
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification] Back     alignment and domain information
>KOG1595 consensus CCCH-type Zn-finger protein [General function prediction only] Back     alignment and domain information
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion Back     alignment and domain information
>PRK11637 AmiB activator; Provisional Back     alignment and domain information
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences Back     alignment and domain information
>TIGR00998 8a0101 efflux pump membrane protein (multidrug resistance protein A) Back     alignment and domain information
>PHA02562 46 endonuclease subunit; Provisional Back     alignment and domain information
>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT) Back     alignment and domain information
>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease Back     alignment and domain information
>PRK10476 multidrug resistance protein MdtN; Provisional Back     alignment and domain information
>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type Back     alignment and domain information
>KOG0982 consensus Centrosomal protein Nuf [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton] Back     alignment and domain information
>PF04508 Pox_A_type_inc: Viral A-type inclusion protein repeat ; InterPro: IPR007596 The repeat is found in the A-type inclusion protein of the Poxvirus family [] Back     alignment and domain information
>KOG0995 consensus Centromere-associated protein HEC1 [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>KOG2185 consensus Predicted RNA-processing protein, contains G-patch domain [RNA processing and modification] Back     alignment and domain information
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion Back     alignment and domain information
>KOG2494 consensus C3H1-type Zn-finger protein [Transcription] Back     alignment and domain information
>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells Back     alignment and domain information
>PF09304 Cortex-I_coil: Cortexillin I, coiled coil; InterPro: IPR015383 This domain is predominantly found in the actin-bundling protein cortexillin I from Dictyostelium discoideum (Slime mold) Back     alignment and domain information
>PRK09039 hypothetical protein; Validated Back     alignment and domain information
>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope Back     alignment and domain information
>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells Back     alignment and domain information
>TIGR01837 PHA_granule_1 poly(hydroxyalkanoate) granule-associated protein Back     alignment and domain information
>PRK02224 chromosome segregation protein; Provisional Back     alignment and domain information
>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT) Back     alignment and domain information
>KOG1040 consensus Polyadenylation factor I complex, subunit, Yth1 (CPSF subunit) [RNA processing and modification] Back     alignment and domain information
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences Back     alignment and domain information
>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type Back     alignment and domain information
>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family Back     alignment and domain information
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function Back     alignment and domain information
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 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
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [] Back     alignment and domain information
>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily Back     alignment and domain information
>KOG2494 consensus C3H1-type Zn-finger protein [Transcription] Back     alignment and domain information
>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana Back     alignment and domain information
>PRK03918 chromosome segregation protein; Provisional Back     alignment and domain information
>PRK10884 SH3 domain-containing protein; Provisional Back     alignment and domain information
>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type Back     alignment and domain information
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query408
2dfs_A1080 Myosin-5A; myosin-V, inhibited state, cryoelectron 5e-06
2dfs_A1080 Myosin-5A; myosin-V, inhibited state, cryoelectron 8e-05
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-05
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-04
3d2q_A70 Muscleblind-like protein 1; tandem zinc finger dom 1e-04
2e5s_A98 Otthump00000018578; ZF-CCCHX2 domain, muscleblind- 2e-04
1m9o_A77 Tristetraproline; Cys3His type zinc finger, metal 2e-04
1i84_S1184 Smooth muscle myosin heavy chain; muscle protein, 4e-04
1i84_S1184 Smooth muscle myosin heavy chain; muscle protein, 4e-04
1i84_S1184 Smooth muscle myosin heavy chain; muscle protein, 5e-04
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080 Back     alignment and structure
 Score = 47.8 bits (114), Expect = 5e-06
 Identities = 24/154 (15%), Positives = 58/154 (37%), Gaps = 6/154 (3%)

Query: 70  RDTRGRNRFRGLSPSRSPENKSDRKRWKKQHLDGPREFSASLKISDGINDRVKERKFTPS 129
           R    R R++ +  +        R    +           S+ I   +   +    +  +
Sbjct: 827 RMYVVRKRYQCMRDATIALQALLRGYLVRNKYQMMLREHKSIIIQKHVRGWLARVHYHRT 886

Query: 130 DSKVVLLEQLKEVQLDINVLEDRKLQLETNEEEKGQEADI-LSSRIKELETQLQKEKEES 188
              +V L+      +     E +KL++E    E+ ++  I L ++I +L+ ++ ++ +E 
Sbjct: 887 LKAIVYLQCCYRRMMAK--RELKKLKIEARSVERYKKLHIGLENKIMQLQRKIDEQNKEY 944

Query: 189 KRIASKIKKFVKAHNRHSQMQDDLKRSQARLQKL 222
           K +  K+         +S   + L+    RL+  
Sbjct: 945 KSLLEKMNN---LEITYSTETEKLRSDVERLRMS 975
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080 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
>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
>2e5s_A Otthump00000018578; ZF-CCCHX2 domain, muscleblind-like 2, isoform 1, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 98 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
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184 Back     alignment and structure
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184 Back     alignment and structure
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query408
2d9m_A69 Zinc finger CCCH-type domain containing protein 7A 98.98
1m9o_A77 Tristetraproline; Cys3His type zinc finger, metal 98.65
1m9o_A77 Tristetraproline; Cys3His type zinc finger, metal 97.74
2d9n_A77 Cleavage and polyadenylation specificity factor, 3 97.36
2cqe_A98 KIAA1064 protein; CCCH zinc-finger, structural gen 97.1
2rhk_C72 Cleavage and polyadenylation specificity factor su 96.88
3d2q_A70 Muscleblind-like protein 1; tandem zinc finger dom 96.86
3d2q_A70 Muscleblind-like protein 1; tandem zinc finger dom 95.83
2e5s_A98 Otthump00000018578; ZF-CCCHX2 domain, muscleblind- 95.61
3d2n_A83 Muscleblind-like protein 1; tandem zinc finger dom 94.86
2e5s_A98 Otthump00000018578; ZF-CCCHX2 domain, muscleblind- 94.84
2d9n_A77 Cleavage and polyadenylation specificity factor, 3 93.56
2rhk_C72 Cleavage and polyadenylation specificity factor su 93.55
2cqe_A98 KIAA1064 protein; CCCH zinc-finger, structural gen 93.53
2rpp_A89 Muscleblind-like protein 2; zinc finger domain, C3 93.46
2fc6_A50 Nuclear, target of EGR1, member 1; structure genom 90.9
1c1g_A284 Tropomyosin; contractIle protein; 7.00A {Sus scrof 90.14
3d2n_A83 Muscleblind-like protein 1; tandem zinc finger dom 89.08
3nmd_A72 CGMP dependent protein kinase; leucine zipper, coi 89.07
1c1g_A284 Tropomyosin; contractIle protein; 7.00A {Sus scrof 87.7
2efr_A155 General control protein GCN4 and tropomyosin 1 Al; 87.1
2dfs_A1080 Myosin-5A; myosin-V, inhibited state, cryoelectron 86.96
3o0z_A168 RHO-associated protein kinase 1; coiled-coil, tran 85.92
1ytz_T107 Troponin T; muscle, THIN filament, actin binding, 85.0
2rpp_A89 Muscleblind-like protein 2; zinc finger domain, C3 84.15
3u1l_A240 PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 84.11
1jcd_A52 Major outer membrane lipoprotein; protein folding, 83.6
1j1d_B106 Troponin T, TNT; THIN filament, muscle regulation, 83.14
3na7_A256 HP0958; flagellar biogenesis, flagellum export, C4 83.05
3tnu_B129 Keratin, type II cytoskeletal 5; coiled-coil, stru 81.83
3i00_A120 HIP-I, huntingtin-interacting protein 1; transcrip 81.47
3tnu_A131 Keratin, type I cytoskeletal 14; coiled-coil, stru 81.46
>2d9m_A Zinc finger CCCH-type domain containing protein 7A; CCCH zinc-finger, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
Probab=98.98  E-value=6.6e-11  Score=93.86  Aligned_cols=37  Identities=35%  Similarity=0.555  Sum_probs=32.5

Q ss_pred             CCcchhhhhhhhcccCCCCC-CCCCcccCcccccCCCC
Q 042473            3 ERKFYKTRICVLYQKGRCSR-PTCSFAHGDAELRRPFR   39 (408)
Q Consensus         3 n~~~yKTkLC~~f~~G~C~~-~~C~FAHGe~ELR~~~~   39 (408)
                      ..+..||+||..|+.|.|+| ++|+||||++|||....
T Consensus        14 R~P~~k~~LC~~~~~G~C~~G~~C~FAHG~~ELr~~~~   51 (69)
T 2d9m_A           14 RFPTGYFSICDRYMNGTCPEGNSCKFAHGNAELHEWEE   51 (69)
T ss_dssp             CCCCSCCSBCHHHHHSCCSSCSSCSSBSSHHHHHHHHH
T ss_pred             cCCCCCcccCcccCcCCCCCCCccCCcCCHHHHhhHHH
Confidence            35667889999998899999 99999999999998643
>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
>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
>2d9n_A Cleavage and polyadenylation specificity factor, 30 kDa subunit; CCCH zinc-finger, structural genomics, NPPSFA; NMR {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
>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
>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
>2e5s_A Otthump00000018578; ZF-CCCHX2 domain, muscleblind-like 2, isoform 1, structural genomics, NPPSFA; 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
>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
>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
>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A 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
>3nmd_A CGMP dependent protein kinase; leucine zipper, coiled-coil, structural genomics, berkeley S genomics center, BSGC, dimerization; HET: MSE; 2.27A {Homo sapiens} Back     alignment and structure
>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Back     alignment and structure
>2efr_A General control protein GCN4 and tropomyosin 1 Al; destabilizing cluster, hydrophobic core, contractIle protein; 1.80A {Saccharomyces cerevisiae} PDB: 2efs_A 2d3e_A Back     alignment and structure
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Back     alignment and structure
>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens} Back     alignment and structure
>1ytz_T Troponin T; muscle, THIN filament, actin binding, calcium, contractIle protein; HET: DR6; 3.00A {Gallus gallus} SCOP: h.1.25.1 PDB: 1yv0_T 2w49_1 2w4u_1 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
>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A Back     alignment and structure
>1jcd_A Major outer membrane lipoprotein; protein folding, coiled coil, helix capping, alanine-zipper, membrane protein; 1.30A {Escherichia coli} SCOP: h.1.16.1 PDB: 1eq7_A 1t8z_A* 2guv_A 2gus_A 1jcc_A 1kfn_A 1kfm_A Back     alignment and structure
>1j1d_B Troponin T, TNT; THIN filament, muscle regulation, Ca2+ binding protein, EF- hand, coiled-coil, contractIle protein; 2.61A {Homo sapiens} SCOP: h.1.25.1 PDB: 1j1e_B Back     alignment and structure
>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori} Back     alignment and structure
>3tnu_B Keratin, type II cytoskeletal 5; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens} Back     alignment and structure
>3i00_A HIP-I, huntingtin-interacting protein 1; transcription; 2.30A {Homo sapiens} PDB: 2qa7_A Back     alignment and structure
>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens} 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 408
d1m9oa_40 g.66.1.1 (A:) Tristetraproline (ttp, tis11, nup475 4e-08
d1rgoa136 g.66.1.1 (A:151-186) Butyrate response factor 2 (T 5e-07
d1rgoa234 g.66.1.1 (A:187-220) Butyrate response factor 2 (T 5e-04
>d1m9oa_ g.66.1.1 (A:) Tristetraproline (ttp, tis11, nup475) {Mouse (Mus musculus) [TaxId: 10090]} Length = 40 Back     information, alignment and structure

class: Small proteins
fold: CCCH zinc finger
superfamily: CCCH zinc finger
family: CCCH zinc finger
domain: Tristetraproline (ttp, tis11, nup475)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 46.7 bits (111), Expect = 4e-08
 Identities = 16/34 (47%), Positives = 19/34 (55%), Gaps = 2/34 (5%)

Query: 6  FYKTRICVLYQK-GRCSR-PTCSFAHGDAELRRP 37
           YKT +C  Y + GRC     C FAHG  ELR+ 
Sbjct: 6  RYKTELCRTYSESGRCRYGAKCQFAHGLGELRQA 39
>d1rgoa1 g.66.1.1 (A:151-186) Butyrate response factor 2 (Tis11D) {Human (Homo sapiens) [TaxId: 9606]} Length = 36 Back     information, alignment and structure
>d1rgoa2 g.66.1.1 (A:187-220) Butyrate response factor 2 (Tis11D) {Human (Homo sapiens) [TaxId: 9606]} Length = 34 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 ?
Query408
d1m9oa_40 Tristetraproline (ttp, tis11, nup475) {Mouse (Mus 99.52
d1rgoa136 Butyrate response factor 2 (Tis11D) {Human (Homo s 99.45
d1rgoa234 Butyrate response factor 2 (Tis11D) {Human (Homo s 99.23
d2cqea229 Zinc finger CCCH domain-containing protein C19orf7 95.9
d1ez3a_124 Syntaxin 1A N-terminal domain {Rat (Rattus norvegi 85.32
>d1m9oa_ g.66.1.1 (A:) Tristetraproline (ttp, tis11, nup475) {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
class: Small proteins
fold: CCCH zinc finger
superfamily: CCCH zinc finger
family: CCCH zinc finger
domain: Tristetraproline (ttp, tis11, nup475)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.52  E-value=1.4e-15  Score=107.18  Aligned_cols=38  Identities=45%  Similarity=0.835  Sum_probs=35.6

Q ss_pred             CCCCcchhhhhhhhccc-CCCCC-CCCCcccCcccccCCC
Q 042473            1 MFERKFYKTRICVLYQK-GRCSR-PTCSFAHGDAELRRPF   38 (408)
Q Consensus         1 m~n~~~yKTkLC~~f~~-G~C~~-~~C~FAHGe~ELR~~~   38 (408)
                      |.++.+|||+||++|.. |.|+| ++|+||||++|||.+.
T Consensus         1 mt~~~~yKT~lC~~~~~~g~C~~G~~C~FAHg~~ELr~~n   40 (40)
T d1m9oa_           1 MTTSSRYKTELCRTYSESGRCRYGAKCQFAHGLGELRQAN   40 (40)
T ss_dssp             CCCSSCCCSCCCSGGGGTSCCTTTTTCSSCSSSCCGGGTC
T ss_pred             CCCCCccccccChhhhcCCcCCCCCCCCCCCCHHHhcCCC
Confidence            78999999999999985 99999 9999999999999873
>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
>d1ez3a_ a.47.2.1 (A:) Syntaxin 1A N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]} Back     information, alignment and structure