Citrus Sinensis ID: 006619

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-------64
MENSPVTVITSSEEEKEEGNGSKEKNIERGVAAKSKLDEYKEISDLTGFDNLKAMILAESIMKRKKKRNRKKKKKDKTKLDSLYREVADLTGFENLKAMIEAEAPMRRKSSERMRGNLETQFCAQENDTVNVAEEQGQLGEDDGLNKVEETERNGREEKRRRANRAKLDEYEKISDLSGFDNLKAMIEAEAFMRRKKRNRKRKKREIEFCGQEDVSVSAEEEKGQLDKSQPLKVVEVSKPESVLTTEMDGSRHLFIDPAKDNEGASMGEPMPMVRVVGGNDGGNSFEVIDLCLSSTDDDKSVSGVSLERSVEDMGKAVQTTATITGANDGVKSVEMNNLYSLRLEDDKPLSDMRLGRRVEDTVSVGPIVGERQQKKRRKKTRVIEAKDKVEDARKENEAKYNVVLRMLLRKPRYFDPPGWNSETCSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNCKQGQDCFINKGSEHLASDCPGTDQGNNLSSNFCLRCGDSGHDLSSCEGEYHADDLKKIQCYICKSFGHLCCVNSSIIGLKQVSCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGHFARRCGSNFKDRLRISDLLFTAERPPTRARHFVGSNGTPHGLGNAQGRENDDQREKG
cccccEEEEEccHHHHHHcccHHHHHHHHHHcccccHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHcHHHHcccccccccccccHHccccHHHHHHHHHccccccccccHHHHHHHHcHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccHHHHcccccccccccHHccccccccEEcccccccccccccccccccccccccccccccccccccccccEEEEEEccccccccccccccHHHHHHHHHHHHHHHHHHcccccccccHHccHHHHHcccccccccccccccccccccccccccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
cccccEEEEEccccHHccccccHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcHHHHHHHHHHHcccccccHHHHcccccHHHHccccccHEHHHHHcccccccccccEEEcccccHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHcEEEEcccccEEEEcEHcccccccccccEEEEEcccccEEEEccccccEEEEccccccccccccccccEEEEEEcccccccEEEEEEEccccccccHcccccHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHcccccccccHHHHcccccccEEEEEccccccccEEEccccccccccccccccccccHHHHHHcccccccccccccccccccccccccccccccccccccccEcccccccccccccccccccccccccccccccccccccccccccEEEccccccccccccccccccccccccEEEcccccccccccccccccccccEEEccccccccccccccccccccccccccEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
menspvtvitsseeekeegngskekniERGVAAKSKLDeykeisdltgfdnLKAMILAESIMKRKKKRnrkkkkkdktKLDSLYREVADLTGFENLKAMIEAEApmrrkssermrgnletqfcaqendtVNVAeeqgqlgeddglnkveETERNGREEKRRRANRAKldeyekisdlsgfdNLKAMIEAEAFMRRKKRNRKRKKreiefcgqedvsvsaeeekgqldksqplkvvevskpesvlttemdgsrhlfidpakdnegasmgepmpmvrvvggndggnSFEVIDLCLsstdddksvsgvsLERSVEDMGKAVQTtatitgandgvkSVEMNNlyslrleddkplsdmrlgrrvedtvsvgpivgerqqkkrrkktrVIEAKDKVEDARKENEAKYNVVLRMLlrkpryfdppgwnsetcsncgkenhtaatckmqkqnkpcflcgsfkhrwknckqgqdcfinkgsehlasdcpgtdqgnnlssnfclrcgdsghdlsscegeyhaddlKKIQCYICksfghlccvnssiiglkqvscyncgqsghlgpecanscealngkksnlicykcgkeghfarrcgsnfkdrlrisdllftaerpptrarhfvgsngtphglgnaqgrenddqrekg
menspvtvitsseeekeegngskekniergvaakskldeykeisdltgfdnlkAMILAESimkrkkkrnrkkkkkdktkldslyrevadltgfenlkaMIEAEapmrrkssermRGNLETQFCAQENDTVNVAEEqgqlgeddglnkveeterngreekrrranrakldeyekisdlsgfdnlKAMIEAEAfmrrkkrnrkrkkreiefcgqedvsvsaeeekgqldksqplkvvevskpesvlttemdgsrhlFIDPAKdnegasmgepMPMVRVVGGNDGGNSFEVIDLCLsstdddksvsGVSLERSVEDMGKAVQttatitgandgvksVEMNNLYslrleddkplsdmrlgrrvedtvsvgpivgerqqkkrrkktrvieakdkvedarkeneakynVVLRMLLRKPRYFDPPGWNSETCSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNCKQGQDCFINKGSEHLASDCPGTDQGNNLSSNFCLRCGDSGHDLSSCEGEYHADDLKKIQCYICKSFGHLCCVNSSIIGLKQVSCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGhfarrcgsnfkdrLRISDLlftaerpptrarhfvgsngtphglgnaqgrenddqrekg
MENSPvtvitsseeekeegngskeknieRGVAAKSKLDEYKEISDLTGFDNLKAMILAESIMkrkkkrnrkkkkkdktkLDSLYREVADLTGFENLKAMIEAEAPMRRKSSERMRGNLETQFCAQENDTVNVAEEQGQLGEDDGLNKVeeterngreekrrranrakLDEYEKISDLSGFDNLKAMIEAEAFMrrkkrnrkrkkrEIEFCGQEDVSVSAEEEKGQLDKSQPLKVVEVSKPESVLTTEMDGSRHLFIDPAKDNEGASMGEPMPMVRVVGGNDGGNSFEVIDLCLSSTDDDKSVSGVSLERSVEDMGKAVQTTATITGANDGVKSVEMNNLYSLRLEDDKPLSDMRLGRRVEDTVSVGPIVGErqqkkrrkktrVIEAKDKVEDARKENEAKYNVVLRMLLRKPRYFDPPGWNSETCSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNCKQGQDCFINKGSEHLASDCPGTDQGNNLSSNFCLRCGDSGHDLSSCEGEYHADDLKKIQCYICKSFGHLCCVNSSIIGLKQVSCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGHFARRCGSNFKDRLRISDLLFTAERPPTRARHFVGSNGTPHGLGNAQGRENDDQREKG
******************************************ISDLTGFDNLKAMILA****************************VADLTGFE**************************************************************************************************************************************************************************************V****GGNSFEVIDLCL**********************************************Y***********************************************************KYNVVLRMLLRKPRYFDPPGWNSETCSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNCKQGQDCFINKGSEHL************LSSNFCLRCGDSGHDLSSCEGEYHADDLKKIQCYICKSFGHLCCVNSSIIGLKQVSCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGHFARRCGSNFKDRLRISDLLFTA***********************************
****PVT**********************************EISDLTGFDNLKAMIL*************************LYREVADLTGFEN*************************************************************************************************************************************************************************************************************************************************************************************************************************LRKPRYFDPPGWNSETCSNCGKENHTAATC*********FLCGSFKHRWKNCKQGQDCFINKGSEHLASDCPGTDQGNNLSSNFCLRCGDSGHDLSSCEGEYHADDLKKIQCYICKSFGHLCCVNSSIIGLKQVSCYNCGQSGH*******************ICYKCGKEGHFA*******************************************************
***********************EKNIERGVAAKSKLDEYKEISDLTGFDNLKAMILAESIM****************KLDSLYREVADLTGFENLKAMIEAEAPMRRKSSERMRGNLETQFCAQENDTVNVAEEQGQLGEDDGLNKVE**************NRAKLDEYEKISDLSGFDNLKAMIEAEAFMR************IEFCGQ***************KSQPLKVVEVSKPESVLTTEMDGSRHLFIDPAKDNEGASMGEPMPMVRVVGGNDGGNSFEVIDLCLSST******************GKAVQTTATITGANDGVKSVEMNNLYSLRLEDDKPLSDMRLGRRVEDTVSVGPIVGE************IEAKDKVEDARKENEAKYNVVLRMLLRKPRYFDPPGWNSETCSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNCKQGQDCFINKGSEHLASDCPGTDQGNNLSSNFCLRCGDSGHDLSSCEGEYHADDLKKIQCYICKSFGHLCCVNSSIIGLKQVSCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGHFARRCGSNFKDRLRISDLLFTAERPPTRARHFVGSNGTPHGLG**************
*********************SKEKNIERGVAAKSKLDEYKEISDLTGFDNLKAMILAESIMKRKKKRNRKKKKKDKTKLDSLYREVADLTGFENLKAMIEAE**************LETQFCAQENDTVNVAEEQGQLGEDDGLNKVEETERN**EEKRRRANRAKLDEYEKISDLSGFDNLKAMIEAEAFMRRKKRNRKRKKREIEFCGQEDVSVSAEEEKGQLDKSQPLKVVEVSKPESVLTTEMDGSRHLFIDPAKDN**ASMGEPMPMVRVVGGNDGGNSFEVIDLCLS********SGVSLERSVEDMGKAVQTTATIT*A*DGVKSVEMNNLYSLRLEDDKPLSDMRLGRRVEDTVSVGPIVGERQQKKRRKKTRVIEAK************KYNVVLRMLLRKPRYFDPPGWNSETCSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNCKQGQDCFINKGSEHLASDCPGTD****LSSNFCLRCGDSGHDLSSCEGEYHADDLKKIQCYICKSFGHLCCVNSSIIGLKQVSCYNCGQSGHLGPECANSC*******SNLIC****KEGHFARRC****************************************************
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MENSPVTVITSSEEEKEEGNGSKEKNIERGVAAKSKLDEYKEISDLTGFDNLKAMILAESIMKRKKKRNRKKKKKDKTKLDSLYREVADLTGFENLKAMIEAEAPMRRKSSERMRGNLETQFCAQENDTVNVAEEQGQLGEDDGLNKVEETERNGREEKRRRANRAKLDEYEKISDLSGFDNLKAMIEAEAFMRRKKRNRKRKKREIEFCGQEDVSVSAEEEKGQLDKSQPLKVVEVSKPESVLTTEMDGSRHLFIDPAKDNEGASMGEPMPMVRVVGGNDGGNSFEVIDLCLSSTDDDKSVSGVSLERSVEDMGKAVQTTATITGANDGVKSVEMNNLYSLRLEDDKPLSDMRLGRRVEDTVSVGPIVGERQQKxxxxxxxxxxxxxxxxxxxxxNEAKYNVVLRMLLRKPRYFDPPGWNSETCSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNCKQGQDCFINKGSEHLASDCPGTDQGNNLSSNFCLRCGDSGHDLSSCEGEYHADDLKKIQCYICKSFGHLCCVNSSIIGLKQVSCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGHFARRCGSNFKDRLRISDLLFTAERPPTRARHFVGSNGTPHGLGNAQGRENDDQREKG
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 ?
Query638 2.2.26 [Sep-21-2011]
Q04832271 DNA-binding protein HEXBP yes no 0.250 0.590 0.298 2e-11
O65639299 Cold shock protein 1 OS=A no no 0.230 0.491 0.314 5e-10
O42395172 Cellular nucleic acid-bin yes no 0.189 0.703 0.310 1e-08
P36627179 Cellular nucleic acid-bin yes no 0.230 0.821 0.306 1e-08
P62634177 Cellular nucleic acid-bin yes no 0.183 0.661 0.340 2e-08
Q5R5R5177 Cellular nucleic acid-bin yes no 0.183 0.661 0.340 2e-08
P62633177 Cellular nucleic acid-bin yes no 0.183 0.661 0.340 2e-08
P53996178 Cellular nucleic acid-bin no no 0.189 0.679 0.304 2e-08
Q3T0Q6170 Cellular nucleic acid-bin yes no 0.183 0.688 0.340 2e-08
P53849153 Zinc finger protein GIS2 yes no 0.194 0.810 0.274 1e-05
>sp|Q04832|HEXP_LEIMA DNA-binding protein HEXBP OS=Leishmania major GN=HEXBP PE=4 SV=1 Back     alignment and function desciption
 Score = 71.6 bits (174), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 60/201 (29%), Positives = 86/201 (42%), Gaps = 41/201 (20%)

Query: 422 SETCSNCGKENHTAATCKMQKQNKP-----CFLCGSFKHRWKNCK--------QGQDCFI 468
           S TC  CG+E H +  C  + ++       CF CG   H  ++C         +G +C+ 
Sbjct: 42  STTCFRCGEEGHMSRECPNEARSGAAGAMTCFRCGEAGHMSRDCPNSAKPGAAKGFECYK 101

Query: 469 NKGSEHLASDCPGTD----------------QGNNLSSNFCLRCGDSGH---DLSSCEGE 509
                HL+ DCP +                 QG       C +CGD+GH   D  + +G 
Sbjct: 102 CGQEGHLSRDCPSSQGGSRGGYGQKRGRSGAQGGYSGDRTCYKCGDAGHISRDCPNGQGG 161

Query: 510 YHADDLKKIQCYICKSFGHLC--CVNS--SIIGLKQVSCYNCGQSGHLGPECANSCEALN 565
           Y     +   CY C   GH+   C N      G     CY CG+SGH+  EC ++    +
Sbjct: 162 YSGAGDR--TCYKCGDAGHISRDCPNGQGGYSGAGDRKCYKCGESGHMSRECPSAGSTGS 219

Query: 566 GKKSNLICYKCGKEGHFARRC 586
           G ++   CYKCGK GH +R C
Sbjct: 220 GDRA---CYKCGKPGHISREC 237
Binds to single-stranded DNA located in the 5' hexanucleotide repeat region of the L.major leishmanolysin (GP63) gene.
Leishmania major (taxid: 5664)
>sp|O65639|CSP1_ARATH Cold shock protein 1 OS=Arabidopsis thaliana GN=CSP1 PE=2 SV=1 Back     alignment and function description
>sp|O42395|CNBP_CHICK Cellular nucleic acid-binding protein OS=Gallus gallus GN=CNBP PE=2 SV=1 Back     alignment and function description
>sp|P36627|BYR3_SCHPO Cellular nucleic acid-binding protein homolog OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=byr3 PE=4 SV=1 Back     alignment and function description
>sp|P62634|CNBP_RAT Cellular nucleic acid-binding protein OS=Rattus norvegicus GN=Cnbp PE=2 SV=1 Back     alignment and function description
>sp|Q5R5R5|CNBP_PONAB Cellular nucleic acid-binding protein OS=Pongo abelii GN=CNBP PE=2 SV=1 Back     alignment and function description
>sp|P62633|CNBP_HUMAN Cellular nucleic acid-binding protein OS=Homo sapiens GN=CNBP PE=1 SV=1 Back     alignment and function description
>sp|P53996|CNBP_MOUSE Cellular nucleic acid-binding protein OS=Mus musculus GN=Cnbp PE=2 SV=2 Back     alignment and function description
>sp|Q3T0Q6|CNBP_BOVIN Cellular nucleic acid-binding protein OS=Bos taurus GN=CNBP PE=2 SV=1 Back     alignment and function description
>sp|P53849|GIS2_YEAST Zinc finger protein GIS2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=GIS2 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 ?
Query638
222616180 800 hypothetical protein OsJ_34326 [Oryza sa 0.302 0.241 0.536 2e-55
218185703492 hypothetical protein OsI_36043 [Oryza sa 0.302 0.392 0.536 5e-55
296084007441 unnamed protein product [Vitis vinifera] 0.362 0.523 0.465 1e-54
224132214683 predicted protein [Populus trichocarpa] 0.376 0.351 0.475 3e-54
224102939640 predicted protein [Populus trichocarpa] 0.413 0.412 0.439 3e-53
296089311686 unnamed protein product [Vitis vinifera] 0.623 0.580 0.346 2e-52
357156364476 PREDICTED: uncharacterized protein LOC10 0.343 0.460 0.479 1e-51
359479082481 PREDICTED: uncharacterized protein LOC10 0.354 0.469 0.441 2e-51
449532848425 PREDICTED: DNA-binding protein HEXBP-lik 0.329 0.494 0.504 5e-51
449439166406 PREDICTED: cold shock domain-containing 0.293 0.460 0.534 6e-51
>gi|222616180|gb|EEE52312.1| hypothetical protein OsJ_34326 [Oryza sativa Japonica Group] Back     alignment and taxonomy information
 Score =  223 bits (569), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 104/194 (53%), Positives = 125/194 (64%), Gaps = 1/194 (0%)

Query: 402 NVVLRMLLRKPRYFDPPGWNSETCSNCGKENHTAATCKMQKQNKPCFLCGSFKHRWKNCK 461
           N+VLR LLR PRYFDP     ETC NCG+E H A  C M+K+ +PCF+CG F H  K C 
Sbjct: 197 NIVLRKLLRIPRYFDPGETLLETCFNCGEEGHVAVNCPMEKRKRPCFVCGLFGHNSKQCT 256

Query: 462 QGQDCFINKGSEHLASDCPGTDQGNNLSSNFCLRCGDSGHDLSSCEGEYHADDLKKIQCY 521
           QGQDCFI K   H+A DCP     N   S FCLRCG+SGHD+  C  +Y  DD+K+I+CY
Sbjct: 257 QGQDCFICKKGGHIAKDCPEKHNRNTQQSTFCLRCGESGHDMFGCANDYPRDDVKEIKCY 316

Query: 522 ICKSFGHLCCVNSSIIGLKQVSCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGH 581
           +C   GHLCC + S I  K+VSCYNC Q GH G  CA      +   +  +CYKCG+EGH
Sbjct: 317 VCNQKGHLCCADFSDICPKEVSCYNCAQPGHTGLGCAKQRREASTAATPTLCYKCGEEGH 376

Query: 582 FARRCGSNFK-DRL 594
           FAR C  N K DR+
Sbjct: 377 FARGCTKNTKSDRM 390

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|218185703|gb|EEC68130.1| hypothetical protein OsI_36043 [Oryza sativa Indica Group] Back     alignment and taxonomy information
>gi|296084007|emb|CBI24395.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|224132214|ref|XP_002328213.1| predicted protein [Populus trichocarpa] gi|222837728|gb|EEE76093.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224102939|ref|XP_002312862.1| predicted protein [Populus trichocarpa] gi|222849270|gb|EEE86817.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|296089311|emb|CBI39083.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|357156364|ref|XP_003577431.1| PREDICTED: uncharacterized protein LOC100831383 isoform 1 [Brachypodium distachyon] Back     alignment and taxonomy information
>gi|359479082|ref|XP_002272646.2| PREDICTED: uncharacterized protein LOC100259916 [Vitis vinifera] Back     alignment and taxonomy information
>gi|449532848|ref|XP_004173390.1| PREDICTED: DNA-binding protein HEXBP-like, partial [Cucumis sativus] Back     alignment and taxonomy information
>gi|449439166|ref|XP_004137358.1| PREDICTED: cold shock domain-containing protein 3-like [Cucumis sativus] 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 ?
Query638
TAIR|locus:2079859 551 AT3G43590 [Arabidopsis thalian 0.440 0.509 0.401 1.5e-49
TAIR|locus:2183607254 AT5G36240 [Arabidopsis thalian 0.158 0.397 0.428 1.6e-21
UNIPROTKB|B4DP17160 CNBP "cDNA FLJ61146, highly si 0.224 0.893 0.318 2.9e-18
ZFIN|ZDB-GENE-030131-7782243 cnbpb "CCHC-type zinc finger, 0.224 0.588 0.305 2.2e-17
ZFIN|ZDB-GENE-030131-5045163 cnbpa "CCHC-type zinc finger, 0.224 0.877 0.299 2e-16
UNIPROTKB|E2RPD7179 CNBP "Uncharacterized protein" 0.183 0.653 0.342 2.6e-16
UNIPROTKB|F8WFK2179 Cnbp "Cellular nucleic acid-bi 0.183 0.653 0.342 2.6e-16
ASPGD|ASPL0000028407171 AN5111 [Emericella nidulans (t 0.247 0.923 0.281 2.6e-16
UNIPROTKB|Q3T0Q6170 CNBP "Cellular nucleic acid-bi 0.224 0.841 0.306 3.3e-16
UNIPROTKB|P62633177 CNBP "Cellular nucleic acid-bi 0.183 0.661 0.340 4.3e-16
TAIR|locus:2079859 AT3G43590 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 516 (186.7 bits), Expect = 1.5e-49, P = 1.5e-49
 Identities = 126/314 (40%), Positives = 167/314 (53%)

Query:   297 DDDKSVSGVSL---ERSVE--DMGKAVQTTATITGANDGVKSVEMNNLYSLRLEDDKPLS 351
             DDD++   +SL   E+++   D+G  + +  +   ++ GV S  M N    +++  +   
Sbjct:    36 DDDEANEDLSLKILEKALSRRDVGNKLDSDLS---SDSGVVSTVMVNGVKSKVKKSESSK 92

Query:   352 DMRLGRRVEDTVSVGPIVGEXXXXXXXXXXXVI-EAKD-KVE--DARKENEAKYNVVLRM 407
              M+  + +E    + PIV             V  E +D +VE  D  K  E   N+VL+ 
Sbjct:    93 KMKRNK-LEADHEI-PIVWNDQDEEKVVEEIVKGEGEDDEVERSDEPKTEETASNLVLKK 150

Query:   408 LLRKPRYFDPP--GWNSETCSNCGKENHTAATCKMQ-KQNKPCFLCGSFKHRWKNCKQGQ 464
             LLR  RYFDPP  GW S  C +CG++ HT+  C    K+ KPCF+CGS +H  K C +G 
Sbjct:   151 LLRGARYFDPPDAGWVS--CYSCGEQGHTSFNCPTPTKRRKPCFICGSLEHGAKQCSKGH 208

Query:   465 DCFINKGSEHLASDCPGTDQGNNLSSN-FCLRCGDSGHDLSSCEGEYHADDLKKIQCYIC 523
             DC+I K + H A DCP  D+  N S    CLRCGD GHD+  C+ EY  +DLK +QCYIC
Sbjct:   209 DCYICKKTGHRAKDCP--DKYKNGSKGAVCLRCGDFGHDMILCKYEYSKEDLKDVQCYIC 266

Query:   524 KSFGHLCCVNSSIIGLKQVSCYNCGQSGHLGPECANSCEALNGKKS----NLI------- 572
             KSFGHLCCV         VSCY CGQ GH G  C    E  N   S     L        
Sbjct:   267 KSFGHLCCVEPGNSLSWAVSCYRCGQLGHSGLACGRHYEESNENDSATPERLFNSREASE 326

Query:   573 CYKCGKEGHFARRC 586
             CY+CG+EGHFAR C
Sbjct:   327 CYRCGEEGHFAREC 340
GO:0003676 "nucleic acid binding" evidence=IEA;ISS
GO:0005634 "nucleus" evidence=ISM
GO:0008270 "zinc ion binding" evidence=IEA
TAIR|locus:2183607 AT5G36240 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|B4DP17 CNBP "cDNA FLJ61146, highly similar to Cellular nucleic acid-binding protein" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-030131-7782 cnbpb "CCHC-type zinc finger, nucleic acid binding protein b" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-030131-5045 cnbpa "CCHC-type zinc finger, nucleic acid binding protein a" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|E2RPD7 CNBP "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|F8WFK2 Cnbp "Cellular nucleic acid-binding protein" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
ASPGD|ASPL0000028407 AN5111 [Emericella nidulans (taxid:162425)] Back     alignment and assigned GO terms
UNIPROTKB|Q3T0Q6 CNBP "Cellular nucleic acid-binding protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|P62633 CNBP "Cellular nucleic acid-binding protein" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

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

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

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:
GSVIVG00017443001
SubName- Full=Chromosome chr6 scaffold_15, whole genome shotgun sequence; (482 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 ?
Query638
PTZ00368148 PTZ00368, PTZ00368, universal minicircle sequence 6e-19
COG5082190 COG5082, AIR1, Arginine methyltransferase-interact 1e-09
COG5082190 COG5082, AIR1, Arginine methyltransferase-interact 4e-07
COG5082190 COG5082, AIR1, Arginine methyltransferase-interact 2e-04
PTZ001212084 PTZ00121, PTZ00121, MAEBL; Provisional 0.001
pfam0009818 pfam00098, zf-CCHC, Zinc knuckle 0.002
smart0034317 smart00343, ZnF_C2HC, zinc finger 0.004
>gnl|CDD|173561 PTZ00368, PTZ00368, universal minicircle sequence binding protein (UMSBP); Provisional Back     alignment and domain information 
 Score = 83.7 bits (207), Expect = 6e-19
 Identities = 50/174 (28%), Positives = 70/174 (40%), Gaps = 35/174 (20%)

Query: 424 TCSNCGKENHTAATC-----KMQKQNKPCFLCGSFKHRWKNCKQGQDCFINKGSEHLASD 478
            C  CG   H +  C         + +PC+ CG         + G          HL+ +
Sbjct: 2   VCYRCGGVGHQSRECPNSAPAGAAKARPCYKCG---------EPG----------HLSRE 42

Query: 479 CPGTDQGNNLSSNFCLRCGDSGHDLSSC-EGEYHADDLKKIQCYICKSFGHLC--CVNSS 535
           CP    G    S  C  CG +GH    C E    +       CY C   GH+   C N +
Sbjct: 43  CPSAPGGRGERS--CYNCGKTGHLSRECPEAPPGSGPRS---CYNCGQTGHISRECPNRA 97

Query: 536 IIGLKQVSCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGHFARRCGSN 589
             G  + +CYNCG  GH+  +C N+ +   G K+   CY CG+ GH +R C   
Sbjct: 98  KGGAARRACYNCGGEGHISRDCPNAGKRPGGDKT---CYNCGQTGHLSRDCPDK 148

Length = 148
>gnl|CDD|227414 COG5082, AIR1, Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion] Back     alignment and domain information
>gnl|CDD|227414 COG5082, AIR1, Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion] Back     alignment and domain information
>gnl|CDD|227414 COG5082, AIR1, Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion] Back     alignment and domain information
>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional Back     alignment and domain information
>gnl|CDD|189387 pfam00098, zf-CCHC, Zinc knuckle Back     alignment and domain information
>gnl|CDD|197667 smart00343, ZnF_C2HC, zinc finger Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 638
PTZ00368148 universal minicircle sequence binding protein (UMS 99.93
COG5082190 AIR1 Arginine methyltransferase-interacting protei 99.83
PTZ00368148 universal minicircle sequence binding protein (UMS 99.82
COG5082190 AIR1 Arginine methyltransferase-interacting protei 99.73
KOG4400261 consensus E3 ubiquitin ligase interacting with arg 99.66
KOG4400261 consensus E3 ubiquitin ligase interacting with arg 99.55
PF0009818 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc fi 97.72
PF0009818 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc fi 97.4
KOG0119554 consensus Splicing factor 1/branch point binding p 96.88
PF1369632 zf-CCHC_2: Zinc knuckle 96.2
PF1369632 zf-CCHC_2: Zinc knuckle 94.55
PF1391742 zf-CCHC_3: Zinc knuckle 94.37
KOG0119 554 consensus Splicing factor 1/branch point binding p 93.9
smart0034326 ZnF_C2HC zinc finger. 92.13
PF1391742 zf-CCHC_3: Zinc knuckle 89.28
smart0034326 ZnF_C2HC zinc finger. 88.06
KOG0314 448 consensus Predicted E3 ubiquitin ligase [Posttrans 85.51
KOG0109 346 consensus RNA-binding protein LARK, contains RRM a 84.72
COG5222 427 Uncharacterized conserved protein, contains RING Z 83.56
PF1439249 zf-CCHC_4: Zinc knuckle 83.24
KOG0109346 consensus RNA-binding protein LARK, contains RRM a 82.98
PF1439249 zf-CCHC_4: Zinc knuckle 80.87
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional Back     alignment and domain information 
Probab=99.93  E-value=7.4e-26  Score=211.94  Aligned_cols=137  Identities=30%  Similarity=0.821  Sum_probs=102.8

Q ss_pred             cccccccccCccccccccC-----CCCccccccCCCCCCCcCCCCC------ccCcCcCCCCCCCCCCCCCCCCCCCCCC
Q 006619          423 ETCSNCGKENHTAATCKMQ-----KQNKPCFLCGSFKHRWKNCKQG------QDCFINKGSEHLASDCPGTDQGNNLSSN  491 (638)
Q Consensus       423 ~~CfnCGe~GH~ArdCP~~-----~~~~~C~~CG~~GH~a~dCP~~------~~CfnCge~GH~ArdCPe~~~~~~~~~~  491 (638)
                      +.||+|++.||++++||..     .....|++|+..||.+.+||..      ..|++|++.||++++||.....  ....
T Consensus         1 ~~C~~C~~~GH~~~~c~~~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~~~--~~~~   78 (148)
T PTZ00368          1 MVCYRCGGVGHQSRECPNSAPAGAAKARPCYKCGEPGHLSRECPSAPGGRGERSCYNCGKTGHLSRECPEAPPG--SGPR   78 (148)
T ss_pred             CcCCCCCCCCcCcccCcCCCCCCCCCCccCccCCCCCcCcccCcCCCCCCCCcccCCCCCcCcCcccCCCcccC--CCCc
Confidence            3699999999999999983     2345788888888888888763      2578888888888888775432  1345


Q ss_pred             ccccCCCCCCCcccCCCcCccCcccCcccccCCCCcccccccCccccccccccccCCCCCccCCCCCCccccccCCCCCc
Q 006619          492 FCLRCGDSGHDLSSCEGEYHADDLKKIQCYICKSFGHLCCVNSSIIGLKQVSCYNCGQSGHLGPECANSCEALNGKKSNL  571 (638)
Q Consensus       492 ~C~rCG~~GH~akdCP~~~~~~~~k~~tCy~CGs~GHl~C~~~s~~Cp~~vsCYnCGe~GH~srDCP~~r~~~s~~~s~~  571 (638)
                      .|++|++.||++.+||+.+..                         ......||+|++.||++++||+.+.   .+....
T Consensus        79 ~C~~Cg~~GH~~~~C~~~~~~-------------------------~~~~~~C~~Cg~~gH~~~~C~~~~~---~~~~~~  130 (148)
T PTZ00368         79 SCYNCGQTGHISRECPNRAKG-------------------------GAARRACYNCGGEGHISRDCPNAGK---RPGGDK  130 (148)
T ss_pred             ccCcCCCCCcccccCCCcccc-------------------------cccchhhcccCcCCcchhcCCCccc---cCCCCC
Confidence            677777777777777764321                         1224679999999999999998632   233467


Q ss_pred             cccccCCCCccCCCCCCC
Q 006619          572 ICYKCGKEGHFARRCGSN  589 (638)
Q Consensus       572 ~CynCGe~GHfArDCP~~  589 (638)
                      .||+|++.|||++|||+.
T Consensus       131 ~C~~Cg~~gH~~~dCp~~  148 (148)
T PTZ00368        131 TCYNCGQTGHLSRDCPDK  148 (148)
T ss_pred             ccccCCCcCcccccCCCC
Confidence            999999999999999973

>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion] Back     alignment and domain information
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional Back     alignment and domain information
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion] Back     alignment and domain information
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 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
>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 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
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification] Back     alignment and domain information
>PF13696 zf-CCHC_2: Zinc knuckle Back     alignment and domain information
>PF13696 zf-CCHC_2: Zinc knuckle Back     alignment and domain information
>PF13917 zf-CCHC_3: Zinc knuckle Back     alignment and domain information
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification] Back     alignment and domain information
>smart00343 ZnF_C2HC zinc finger Back     alignment and domain information
>PF13917 zf-CCHC_3: Zinc knuckle Back     alignment and domain information
>smart00343 ZnF_C2HC zinc finger Back     alignment and domain information
>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only] Back     alignment and domain information
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only] Back     alignment and domain information
>PF14392 zf-CCHC_4: Zinc knuckle Back     alignment and domain information
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only] Back     alignment and domain information
>PF14392 zf-CCHC_4: Zinc knuckle 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 ?
Query638
2lli_A124 Low Resolution Structure Of Rna-Binding Subunit Of 3e-04
>pdb|2LLI|A Chain A, Low Resolution Structure Of Rna-Binding Subunit Of The Tramp Complex Length = 124 Back     alignment and structure 
Iteration: 1

 Score = 43.9 bits (102), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 33/128 (25%), Positives = 47/128 (36%), Gaps = 30/128 (23%)
Query: 447 CFLCGSFKHRWKNCKQGQDCFINKGSEHLASDCPGTDQGNNLSSNFCLRCGDSGHDLSSC 506
           C  C    H  K+C      +     +H +  CP   Q        C +C + GH  S C
Sbjct: 7   CNNCSQRGHLKKDCPHIICSYCGATDDHYSRHCPKAIQ--------CSKCDEVGHYRSQC 58
Query: 507 EGEYHADDLKKIQCYICKSFGH---LCC--------------VNSSIIGLKQVSCYNCGQ 549
             ++     KK+QC +CKS  H    C                   ++    + CYNCG 
Sbjct: 59  PHKW-----KKVQCTLCKSKKHSKERCPSIWRAYILVDDNEKAKPKVLPFHTIYCYNCGG 113
Query: 550 SGHLGPEC 557
            GH G +C
Sbjct: 114 KGHFGDDC 121

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query638
2lli_A124 Protein AIR2; RNA surveillance, RNA degradation, R 1e-17
2lli_A124 Protein AIR2; RNA surveillance, RNA degradation, R 9e-17
2lli_A124 Protein AIR2; RNA surveillance, RNA degradation, R 7e-07
2lli_A124 Protein AIR2; RNA surveillance, RNA degradation, R 3e-06
2lli_A124 Protein AIR2; RNA surveillance, RNA degradation, R 1e-04
1cl4_A60 Protein (GAG polyprotein); nucleocapsid protein, R 3e-11
1cl4_A60 Protein (GAG polyprotein); nucleocapsid protein, R 3e-05
2ihx_A61 Nucleocapsid (NC) protein; protein-RNA complex, vi 8e-09
2ihx_A61 Nucleocapsid (NC) protein; protein-RNA complex, vi 2e-04
2ihx_A61 Nucleocapsid (NC) protein; protein-RNA complex, vi 4e-04
2cqf_A63 RNA-binding protein LIN-28; CCHC zinc-finger, stru 8e-08
2cqf_A63 RNA-binding protein LIN-28; CCHC zinc-finger, stru 1e-06
2li8_A74 Protein LIN-28 homolog A; zinc finger, micro RNA, 3e-07
2li8_A74 Protein LIN-28 homolog A; zinc finger, micro RNA, 2e-06
3nyb_B83 Protein AIR2; polya RNA polymerase, zinc knuckle p 1e-05
3nyb_B83 Protein AIR2; polya RNA polymerase, zinc knuckle p 4e-05
2bl6_A37 Nucleocapsid protein P11; lentivirus, polyprotein, 1e-05
2bl6_A37 Nucleocapsid protein P11; lentivirus, polyprotein, 4e-04
3ts2_A148 Protein LIN-28 homolog A; microrna biogenesis, pro 2e-05
2ec7_A49 GAG polyprotein (PR55GAG); nucleocapsid protein, H 4e-04
2a51_A39 Nucleocapsid protein; sivlhoest, structure, NCP8, 4e-04
2a51_A39 Nucleocapsid protein; sivlhoest, structure, NCP8, 6e-04
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae} Length = 124 Back     alignment and structure
 Score = 78.3 bits (192), Expect = 1e-17
 Identities = 30/137 (21%), Positives = 43/137 (31%), Gaps = 20/137 (14%)

Query: 422 SETCSNCGKENHTAATCKMQKQNKPCFLCGSFK-HRWKNCKQGQDCFINKGSEHLASDCP 480
           +  C+NC +  H    C     +  C  CG+   H  ++C +   C       H  S CP
Sbjct: 4   APKCNNCSQRGHLKKDCP----HIICSYCGATDDHYSRHCPKAIQCSKCDEVGHYRSQCP 59

Query: 481 GTDQGNNLSSNFCLRCGDSGHDLSSCEGEYHADDLKKIQCYICKSFGHLCCVNSSIIGLK 540
                +      C  C    H    C   +        + YI                  
Sbjct: 60  -----HKWKKVQCTLCKSKKHSKERCPSIW--------RAYILVDDNEKAKPKVL--PFH 104

Query: 541 QVSCYNCGQSGHLGPEC 557
            + CYNCG  GH G +C
Sbjct: 105 TIYCYNCGGKGHFGDDC 121
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae} Length = 124 Back     alignment and structure
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae} Length = 124 Back     alignment and structure
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae} Length = 124 Back     alignment and structure
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae} Length = 124 Back     alignment and structure
>1cl4_A Protein (GAG polyprotein); nucleocapsid protein, RNA binding protein, retrovirus, viral protein; NMR {Mason-pfizer monkey virus} SCOP: g.40.1.1 PDB: 1dsv_A Length = 60 Back     alignment and structure
>1cl4_A Protein (GAG polyprotein); nucleocapsid protein, RNA binding protein, retrovirus, viral protein; NMR {Mason-pfizer monkey virus} SCOP: g.40.1.1 PDB: 1dsv_A Length = 60 Back     alignment and structure
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus} Length = 61 Back     alignment and structure
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus} Length = 61 Back     alignment and structure
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus} Length = 61 Back     alignment and structure
>2cqf_A RNA-binding protein LIN-28; CCHC zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 63 Back     alignment and structure
>2cqf_A RNA-binding protein LIN-28; CCHC zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 63 Back     alignment and structure
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens} Length = 74 Back     alignment and structure
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens} Length = 74 Back     alignment and structure
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae} Length = 83 Back     alignment and structure
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae} Length = 83 Back     alignment and structure
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus} Length = 37 Back     alignment and structure
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus} Length = 37 Back     alignment and structure
>3ts2_A Protein LIN-28 homolog A; microrna biogenesis, protein-RNA complex, PRE-element, CCHC knuckle; HET: GMP; 2.01A {Mus musculus} PDB: 3trz_A* 3ts0_A* Length = 148 Back     alignment and structure
>2ec7_A GAG polyprotein (PR55GAG); nucleocapsid protein, HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus type 2} SCOP: g.40.1.1 Length = 49 Back     alignment and structure
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic} Length = 39 Back     alignment and structure
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic} Length = 39 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query638
2lli_A124 Protein AIR2; RNA surveillance, RNA degradation, R 99.89
2lli_A124 Protein AIR2; RNA surveillance, RNA degradation, R 99.89
3nyb_B83 Protein AIR2; polya RNA polymerase, zinc knuckle p 99.57
3nyb_B83 Protein AIR2; polya RNA polymerase, zinc knuckle p 99.22
2li8_A74 Protein LIN-28 homolog A; zinc finger, micro RNA, 99.18
2a51_A39 Nucleocapsid protein; sivlhoest, structure, NCP8, 99.12
2li8_A74 Protein LIN-28 homolog A; zinc finger, micro RNA, 99.06
2ec7_A49 GAG polyprotein (PR55GAG); nucleocapsid protein, H 99.04
1a1t_A55 Nucleocapsid protein; stem-loop RNA, viral protein 99.01
2bl6_A37 Nucleocapsid protein P11; lentivirus, polyprotein, 99.01
1cl4_A60 Protein (GAG polyprotein); nucleocapsid protein, R 98.99
2ihx_A61 Nucleocapsid (NC) protein; protein-RNA complex, vi 98.97
2cqf_A63 RNA-binding protein LIN-28; CCHC zinc-finger, stru 98.92
2a51_A39 Nucleocapsid protein; sivlhoest, structure, NCP8, 98.82
2cqf_A63 RNA-binding protein LIN-28; CCHC zinc-finger, stru 98.75
3ts2_A148 Protein LIN-28 homolog A; microrna biogenesis, pro 98.75
2bl6_A37 Nucleocapsid protein P11; lentivirus, polyprotein, 98.72
2ec7_A49 GAG polyprotein (PR55GAG); nucleocapsid protein, H 98.72
2ihx_A61 Nucleocapsid (NC) protein; protein-RNA complex, vi 98.65
1a1t_A55 Nucleocapsid protein; stem-loop RNA, viral protein 98.64
1cl4_A60 Protein (GAG polyprotein); nucleocapsid protein, R 98.63
3ts2_A148 Protein LIN-28 homolog A; microrna biogenesis, pro 98.54
1dsq_A26 Nucleic acid binding protein P14; CCHC type zinc f 97.72
1a6b_B40 Momulv, zinc finger protein NCP10; nucleocapsid pr 97.51
1nc8_A29 Nucleocapsid protein; HIV-2, RNA recognition, zinc 97.41
1u6p_A56 GAG polyprotein; MLV, A-minor K-turn, stem loop, b 97.31
1dsq_A26 Nucleic acid binding protein P14; CCHC type zinc f 97.29
1nc8_A29 Nucleocapsid protein; HIV-2, RNA recognition, zinc 97.1
1a6b_B40 Momulv, zinc finger protein NCP10; nucleocapsid pr 96.76
2ysa_A55 Retinoblastoma-binding protein 6; zinc finger, CCH 96.61
1u6p_A56 GAG polyprotein; MLV, A-minor K-turn, stem loop, b 96.39
2ysa_A55 Retinoblastoma-binding protein 6; zinc finger, CCH 95.33
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae} Back     alignment and structure
Probab=99.89  E-value=1.3e-23  Score=190.45  Aligned_cols=83  Identities=24%  Similarity=0.558  Sum_probs=76.0

Q ss_pred             ccccccccccCccccccccCCCCccccccCCC-CCCCcCCCCCccCcCcCCCCCCCCCCCCCCCCCCCCCCccccCCCCC
Q 006619          422 SETCSNCGKENHTAATCKMQKQNKPCFLCGSF-KHRWKNCKQGQDCFINKGSEHLASDCPGTDQGNNLSSNFCLRCGDSG  500 (638)
Q Consensus       422 ~~~CfnCGe~GH~ArdCP~~~~~~~C~~CG~~-GH~a~dCP~~~~CfnCge~GH~ArdCPe~~~~~~~~~~~C~rCG~~G  500 (638)
                      ...||+|++.||++++||..    .|++||+. ||++++||....|++|++.||++++||....     ...|++|++.|
T Consensus         4 ~~~C~~C~~~GH~~~~Cp~~----~C~~Cg~~~gH~~~~C~~~~~C~~Cg~~GH~~~~C~~~~~-----~~~C~~Cg~~G   74 (124)
T 2lli_A            4 APKCNNCSQRGHLKKDCPHI----ICSYCGATDDHYSRHCPKAIQCSKCDEVGHYRSQCPHKWK-----KVQCTLCKSKK   74 (124)
T ss_dssp             SSCCSSCSSSSCCTTTTTSC----CCTTTCCTTTCCTTTGGGSSCSSSSSCSSSSTTTSCCCCC-----CCSSSSSCSSC
T ss_pred             CCcccCCCCCCcCcccCcCC----cCcCCCCcCCccCcccCCcccccccCCCCCccccCcCccc-----CccCCCCCcCC
Confidence            46799999999999999994    89999999 9999999998899999999999999998743     37899999999


Q ss_pred             CCcccCCCcCccC
Q 006619          501 HDLSSCEGEYHAD  513 (638)
Q Consensus       501 H~akdCP~~~~~~  513 (638)
                      |++++||..|..|
T Consensus        75 H~~~~Cp~~~~~y   87 (124)
T 2lli_A           75 HSKERCPSIWRAY   87 (124)
T ss_dssp             CCTTTCCCSTTSC
T ss_pred             cchhhCCCccccc
Confidence            9999999998754
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae} Back     alignment and structure
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae} Back     alignment and structure
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae} Back     alignment and structure
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens} Back     alignment and structure
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic} Back     alignment and structure
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens} Back     alignment and structure
>2ec7_A GAG polyprotein (PR55GAG); nucleocapsid protein, HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus type 2} SCOP: g.40.1.1 Back     alignment and structure
>1a1t_A Nucleocapsid protein; stem-loop RNA, viral protein/RNA complex; NMR {Human immunodeficiency virus 1} SCOP: g.40.1.1 PDB: 1mfs_A 1f6u_A* 1aaf_A 2l4l_A 2exf_A 2jzw_A* 1bj6_A* 1esk_A 1q3y_A 1q3z_A 2e1x_A 2iwj_A Back     alignment and structure
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus} Back     alignment and structure
>1cl4_A Protein (GAG polyprotein); nucleocapsid protein, RNA binding protein, retrovirus, viral protein; NMR {Mason-pfizer monkey virus} SCOP: g.40.1.1 PDB: 1dsv_A Back     alignment and structure
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus} Back     alignment and structure
>2cqf_A RNA-binding protein LIN-28; CCHC zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic} Back     alignment and structure
>2cqf_A RNA-binding protein LIN-28; CCHC zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>3ts2_A Protein LIN-28 homolog A; microrna biogenesis, protein-RNA complex, PRE-element, CCHC knuckle; HET: GMP; 2.01A {Mus musculus} PDB: 3trz_A* 3ts0_A* Back     alignment and structure
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus} Back     alignment and structure
>2ec7_A GAG polyprotein (PR55GAG); nucleocapsid protein, HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus type 2} SCOP: g.40.1.1 Back     alignment and structure
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus} Back     alignment and structure
>1a1t_A Nucleocapsid protein; stem-loop RNA, viral protein/RNA complex; NMR {Human immunodeficiency virus 1} SCOP: g.40.1.1 PDB: 1mfs_A 1f6u_A* 1aaf_A 2l4l_A 2exf_A 2jzw_A* 1bj6_A* 1esk_A 1q3y_A 1q3z_A 2e1x_A 2iwj_A Back     alignment and structure
>1cl4_A Protein (GAG polyprotein); nucleocapsid protein, RNA binding protein, retrovirus, viral protein; NMR {Mason-pfizer monkey virus} SCOP: g.40.1.1 PDB: 1dsv_A Back     alignment and structure
>3ts2_A Protein LIN-28 homolog A; microrna biogenesis, protein-RNA complex, PRE-element, CCHC knuckle; HET: GMP; 2.01A {Mus musculus} PDB: 3trz_A* 3ts0_A* Back     alignment and structure
>1a6b_B Momulv, zinc finger protein NCP10; nucleocapsid protein, intercalation, nucleic acid, retrovirus, viral protein/DNA complex; HET: DNA; NMR {Synthetic} SCOP: g.40.1.1 Back     alignment and structure
>1nc8_A Nucleocapsid protein; HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus 2} SCOP: g.40.1.1 PDB: 2di2_A Back     alignment and structure
>1u6p_A GAG polyprotein; MLV, A-minor K-turn, stem loop, bulge, G-U mismatch, G-A MIS U mismatch, A-C mismatch, zinc finger, NC, viral protein-RN; HET: AP7; NMR {Moloney murine leukemia virus} SCOP: g.40.1.1 PDB: 1wwd_A 1wwe_A 1wwf_A 1wwg_A Back     alignment and structure
>1nc8_A Nucleocapsid protein; HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus 2} SCOP: g.40.1.1 PDB: 2di2_A Back     alignment and structure
>1a6b_B Momulv, zinc finger protein NCP10; nucleocapsid protein, intercalation, nucleic acid, retrovirus, viral protein/DNA complex; HET: DNA; NMR {Synthetic} SCOP: g.40.1.1 Back     alignment and structure
>2ysa_A Retinoblastoma-binding protein 6; zinc finger, CCHC, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>1u6p_A GAG polyprotein; MLV, A-minor K-turn, stem loop, bulge, G-U mismatch, G-A MIS U mismatch, A-C mismatch, zinc finger, NC, viral protein-RN; HET: AP7; NMR {Moloney murine leukemia virus} SCOP: g.40.1.1 PDB: 1wwd_A 1wwe_A 1wwf_A 1wwg_A Back     alignment and structure
>2ysa_A Retinoblastoma-binding protein 6; zinc finger, CCHC, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {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 638
d2exfa142 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunod 5e-07
d2exfa142 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunod 1e-05
>d2exfa1 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunodeficiency virus type 1, different isolates [TaxId: 11676]} Length = 42 Back     information, alignment and structure

class: Small proteins
fold: Retrovirus zinc finger-like domains
superfamily: Retrovirus zinc finger-like domains
family: Retrovirus zinc finger-like domains
domain: HIV nucleocapsid
species: Human immunodeficiency virus type 1, different isolates [TaxId: 11676]

 Score = 44.5 bits (105), Expect = 5e-07
 Identities = 17/45 (37%), Positives = 21/45 (46%), Gaps = 8/45 (17%)

Query: 542 VSCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGHFARRC 586
           V C+NCG+ GH    C               C+KCGKEGH  + C
Sbjct: 2   VKCFNCGKEGHTARNCR--------APRKKGCWKCGKEGHQMKDC 38
>d2exfa1 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunodeficiency virus type 1, different isolates [TaxId: 11676]} Length = 42 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 ?
Query638
d2exfa142 HIV nucleocapsid {Human immunodeficiency virus typ 99.13
d2exfa142 HIV nucleocapsid {Human immunodeficiency virus typ 98.86
d1nc8a_29 HIV nucleocapsid {Human immunodeficiency virus typ 97.24
d1nc8a_29 HIV nucleocapsid {Human immunodeficiency virus typ 97.21
d1dsqa_26 Nucleic acid binding protein p14 {Mouse mammary tu 94.57
d1dsqa_26 Nucleic acid binding protein p14 {Mouse mammary tu 93.24
d1a6bb_40 Zinc finger protein ncp10 {Moloney murine leukemia 92.99
d1a6bb_40 Zinc finger protein ncp10 {Moloney murine leukemia 91.87
>d2exfa1 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunodeficiency virus type 1, different isolates [TaxId: 11676]} Back     information, alignment and structure
class: Small proteins
fold: Retrovirus zinc finger-like domains
superfamily: Retrovirus zinc finger-like domains
family: Retrovirus zinc finger-like domains
domain: HIV nucleocapsid
species: Human immunodeficiency virus type 1, different isolates [TaxId: 11676]

Probab=99.13  E-value=1.3e-11  Score=91.90  Aligned_cols=40  Identities=43%  Similarity=1.039  Sum_probs=36.2

Q ss_pred             cccccCCCCCccCCCCCCccccccCCCCCccccccCCCCccCCCCCCC
Q 006619          542 VSCYNCGQSGHLGPECANSCEALNGKKSNLICYKCGKEGHFARRCGSN  589 (638)
Q Consensus       542 vsCYnCGe~GH~srDCP~~r~~~s~~~s~~~CynCGe~GHfArDCP~~  589 (638)
                      +.||+|++.||+++|||.++        ...||+||+.||++++||+.
T Consensus         2 i~C~~Cg~~GH~~~~Cp~~~--------~~~C~~Cg~~GH~~~~Cp~r   41 (42)
T d2exfa1           2 VKCFNCGKEGHTARNCRAPR--------KKGCWKCGKEGHQMKDCTER   41 (42)
T ss_dssp             CCCTTTCCSSSCTTTCSSCC--------CSSCSSSCCSSSCTTTCCSS
T ss_pred             CccccCCCcCcCcccCcCCC--------cCccccCCCCCeecccCCCC
Confidence            68999999999999999864        35799999999999999975
>d2exfa1 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunodeficiency virus type 1, different isolates [TaxId: 11676]} Back     information, alignment and structure
>d1nc8a_ g.40.1.1 (A:) HIV nucleocapsid {Human immunodeficiency virus type 2 [TaxId: 11709]} Back     information, alignment and structure
>d1nc8a_ g.40.1.1 (A:) HIV nucleocapsid {Human immunodeficiency virus type 2 [TaxId: 11709]} Back     information, alignment and structure
>d1dsqa_ g.40.1.1 (A:) Nucleic acid binding protein p14 {Mouse mammary tumor virus [TaxId: 11757]} Back     information, alignment and structure
>d1a6bb_ g.40.1.1 (B:) Zinc finger protein ncp10 {Moloney murine leukemia virus, MoMLV [TaxId: 11801]} Back     information, alignment and structure
>d1a6bb_ g.40.1.1 (B:) Zinc finger protein ncp10 {Moloney murine leukemia virus, MoMLV [TaxId: 11801]} Back     information, alignment and structure