Citrus Sinensis ID: 026649

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-----
MLKNVLSFMSQGNLCNNCKRPGHFARECPNVAVCNNCGLPGHIASECTTQARCWNCREPGHMASNCHNEGICHSCGKTGHRARDCSTHVQSGGDLRLCNNCYKPGHIAADCTNDKACKNCRKTGHIARDCQNEPVCNLCNIAGHVARQCPKGDSLGERGGGGGGERGGGGGGDGGGGGGRYVGYHDVICRSCNQMGHMSRDCVGPLIICRNCGGRGHMAYECPSGRIADRGYRRY
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
cccccccccccccEEcccccccccccccccccHccccccccccccccccccHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEcccccccccccccccccEccccccccccccccccccccccccccc
MLKNVLSFMsqgnlcnnckrpghfarecpnvavcnncglpghiasecttqarcwncrepghmasnchnegichscgktghrardcsthvqsggdlrlcnncykpghiaadctndkackncrktghiardcqnepvcnlcniaghvarqcpkgdslgerggggggerggggggdggggggryvGYHDVICRscnqmghmsrdcvgpliicrncggrghmayecpsgriadrgyrry
MLKNVLSFMSQGNLCNNCKRPGHFARECPNVAVCNNCGLPGHIASECTTQARCWNCREPGHMASNCHNEGICHSCGKTGHRARDCSTHVQSGGDLRLCNNCYKPGHIAADCTNDKACKNCRKTGhiardcqnepVCNLCNIAGHVARQCPKGDSLGERGGGGGGERGGGGGGDGGGGGGRYVGYHDVICRSCNQMGHMSRDCVGPLIICRNCGGRghmayecpsgriadrgyrry
MLKNVLSFMSQGNLCNNCKRPGHFARECPNVAVCNNCGLPGHIASECTTQARCWNCREPGHMASNCHNEGICHSCGKTGHRARDCSTHVQSGGDLRLCNNCYKPGHIAADCTNDKACKNCRKTGHIARDCQNEPVCNLCNIAGHVARQCPKGDSLgerggggggerggggggdggggggrYVGYHDVICRSCNQMGHMSRDCVGPLIICRNCGGRGHMAYECPSGRIADRGYRRY
******SFMSQGNLCNNCKRPGHFARECPNVAVCNNCGLPGHIASECTTQARCWNC**************ICHSCGKTGHRARDCSTHVQSGGDLRLCNNCYKPGHIAADCTNDKACKNCRKTGHIARDCQNEPVCNLCNIAGHVAR*********************************YVGYHDVICRSCNQMGHMSRDCVGPLIICRNC***********************
**************CNNCKRPGHFARECPNV*********************************************************************************NDKACKNCRKTGHIARDCQNEPVCNLCNIAGHVARQCPKGDS******************************HDVICRSCNQMGHMSRDCVGPLIICRNCGGRGHMAYECPS******GYRR*
MLKNVLSFMSQGNLCNNCKRPGHFARECPNVAVCNNCGLPGHIASECTTQARCWNCREPGHMASNCHNEGICHSC*************VQSGGDLRLCNNCYKPGHIAADCTNDKACKNCRKTGHIARDCQNEPVCNLCNIAGHVARQCPKGDSLGERGGGGGGERGGGGGGDGGGGGGRYVGYHDVICRSCNQMGHMSRDCVGPLIICRNCGGRGHMAYECPSGRIADRGYRRY
***********GNLCNNCKRPGHFARECPNVAVCNNCGLPGHIASECTTQARCWNCREPGHMASNCHNEGICHSCGKTGHRARDCSTH******LRLCN*C**PGHIAADCTNDKACKNCRKTGHIARDCQNEPVCNLCNIAGHVARQCP*********************************YHDVICRSCNQMGHMSRDCVGPLIICRNCGGRGHMAYECPS***********
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MLKNVLSFMSQGNLCNNCKRPGHFARECPNVAVCNNCGLPGHIASECTTQARCWNCREPGHMASNCHNEGICHSCGKTGHRARDCSTHVQSGGDLRLCNNCYKPGHIAADCTNDKACKNCRKTGHIARDCQNEPVCNLCNIAGHVARQCPKGDSLGERGGGGGGERGGGGGGDGGGGGGRYVGYHDVICRSCNQMGHMSRDCVGPLIICRNCGGRGHMAYECPSGRIADRGYRRY
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 ?
Query235 2.2.26 [Sep-21-2011]
Q04832271 DNA-binding protein HEXBP yes no 0.774 0.671 0.295 9e-19
P53849153 Zinc finger protein GIS2 yes no 0.595 0.915 0.363 2e-18
P36627179 Cellular nucleic acid-bin yes no 0.629 0.826 0.383 1e-15
Q3T0Q6170 Cellular nucleic acid-bin yes no 0.561 0.776 0.369 3e-15
O42395172 Cellular nucleic acid-bin yes no 0.561 0.767 0.364 5e-15
P62634177 Cellular nucleic acid-bin yes no 0.561 0.745 0.354 2e-14
Q5R5R5177 Cellular nucleic acid-bin yes no 0.561 0.745 0.354 2e-14
P62633177 Cellular nucleic acid-bin yes no 0.561 0.745 0.354 2e-14
P53996178 Cellular nucleic acid-bin yes no 0.561 0.741 0.352 2e-14
O76743 1156 ATP-dependent RNA helicas yes no 0.417 0.084 0.362 2e-12
>sp|Q04832|HEXP_LEIMA DNA-binding protein HEXBP OS=Leishmania major GN=HEXBP PE=4 SV=1 Back     alignment and function desciption
 Score = 93.6 bits (231), Expect = 9e-19,   Method: Compositional matrix adjust.
 Identities = 83/281 (29%), Positives = 109/281 (38%), Gaps = 99/281 (35%)

Query: 15  CNNCKRPGHFARECPNV--------AVCNNCGLPGHIASECTTQAR--------CWNCRE 58
           C NC + GH+ARECP            C  CG  GH++ EC  +AR        C+ C E
Sbjct: 18  CRNCGKEGHYARECPEADSKGDERSTTCFRCGEEGHMSRECPNEARSGAAGAMTCFRCGE 77

Query: 59  PGHMASNCHNEGI--------CHSCGKTGHRARDCSTH----------------VQSG-- 92
            GHM+ +C N           C+ CG+ GH +RDC +                  Q G  
Sbjct: 78  AGHMSRDCPNSAKPGAAKGFECYKCGQEGHLSRDCPSSQGGSRGGYGQKRGRSGAQGGYS 137

Query: 93  GDLRLCNNCYKPGHIAADCTN---------DKACKNCRKTGHIARDCQN---------EP 134
           GD R C  C   GHI+ DC N         D+ C  C   GHI+RDC N         + 
Sbjct: 138 GD-RTCYKCGDAGHISRDCPNGQGGYSGAGDRTCYKCGDAGHISRDCPNGQGGYSGAGDR 196

Query: 135 VCNLCNIAGHVARQCPKGDSLGERGGGGGGERGGGGGGDGGGGGGRYVGYHDVICRSCNQ 194
            C  C  +GH++R+CP   S G                             D  C  C +
Sbjct: 197 KCYKCGESGHMSRECPSAGSTGS---------------------------GDRACYKCGK 229

Query: 195 MGHMSRDCVGPLI-----------ICRNCGGRGHMAYECPS 224
            GH+SR+C                 C  CG  GH++ +CPS
Sbjct: 230 PGHISRECPEAGGSYGGSRGGGDRTCYKCGEAGHISRDCPS 270
Binds to single-stranded DNA located in the 5' hexanucleotide repeat region of the L.major leishmanolysin (GP63) gene.
Leishmania major (taxid: 5664)
>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
>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|Q3T0Q6|CNBP_BOVIN Cellular nucleic acid-binding protein OS=Bos taurus GN=CNBP 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|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|O76743|GLH4_CAEEL ATP-dependent RNA helicase glh-4 OS=Caenorhabditis elegans GN=glh-4 PE=2 SV=2 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 ?
Query235
255538826256 cellular nucleic acid binding protein, p 0.893 0.820 0.770 1e-94
225458095254 PREDICTED: zinc finger protein GIS2-like 0.893 0.826 0.779 5e-94
302142593272 unnamed protein product [Vitis vinifera] 0.868 0.75 0.782 2e-92
225427758258 PREDICTED: zinc finger protein GIS2-like 0.893 0.813 0.713 1e-88
359475089246 PREDICTED: zinc finger protein GIS2-like 0.893 0.853 0.713 4e-88
297744732259 unnamed protein product [Vitis vinifera] 0.893 0.810 0.709 1e-87
224085782239 predicted protein [Populus trichocarpa] 0.880 0.866 0.727 3e-87
449461615260 PREDICTED: DNA-binding protein HEXBP-lik 0.936 0.846 0.722 3e-85
224080454242 predicted protein [Populus trichocarpa] 0.880 0.855 0.688 1e-84
356516892259 PREDICTED: zinc finger protein GIS2-like 0.931 0.845 0.722 6e-84
>gi|255538826|ref|XP_002510478.1| cellular nucleic acid binding protein, putative [Ricinus communis] gi|223551179|gb|EEF52665.1| cellular nucleic acid binding protein, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  352 bits (902), Expect = 1e-94,   Method: Compositional matrix adjust.
 Identities = 175/227 (77%), Positives = 190/227 (83%), Gaps = 17/227 (7%)

Query: 9   MSQGNLCNNCKRPGHFARECPNVAVCNNCGLPGHIASECTTQARCWNCREPGHMASNCHN 68
            SQ +LCNNCKRPGHFARECPNVAVCNNCGLPGHIA+ECTTQ+RCWNCREPGH+ASNC N
Sbjct: 47  FSQSSLCNNCKRPGHFARECPNVAVCNNCGLPGHIAAECTTQSRCWNCREPGHVASNCPN 106

Query: 69  EGICHSCGKTGHRARDCSTHVQSGGDLRLCNNCYKPGHIAADCTNDKACKNCRKTGHIAR 128
           EGICHSCGK+GHRARDCST     GDLRLCNNCYKPGHIAA CTNDKACKNCRKTGH+AR
Sbjct: 107 EGICHSCGKSGHRARDCSTPDMPPGDLRLCNNCYKPGHIAAQCTNDKACKNCRKTGHVAR 166

Query: 129 DCQNEPVCNLCNIAGHVARQCPKGDSLGERGGGGGGERGGGGGGDGGGGGGRYVGYHDVI 188
           DCQNEPVCN CNIAGHVARQCPK D   ER                 GG GR+ GY D+I
Sbjct: 167 DCQNEPVCNFCNIAGHVARQCPKVDIHAER-----------------GGWGRHNGYRDLI 209

Query: 189 CRSCNQMGHMSRDCVGPLIICRNCGGRGHMAYECPSGRIADRGYRRY 235
           CR+CNQ+GHMSRDC+GP+IIC NCGGRGH A+ECPSGR +DRG+RRY
Sbjct: 210 CRTCNQVGHMSRDCIGPMIICHNCGGRGHRAFECPSGRFSDRGFRRY 256

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|225458095|ref|XP_002279453.1| PREDICTED: zinc finger protein GIS2-like isoform 1 [Vitis vinifera] Back     alignment and taxonomy information
>gi|302142593|emb|CBI19796.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|225427758|ref|XP_002267480.1| PREDICTED: zinc finger protein GIS2-like isoform 1 [Vitis vinifera] Back     alignment and taxonomy information
>gi|359475089|ref|XP_003631583.1| PREDICTED: zinc finger protein GIS2-like isoform 2 [Vitis vinifera] Back     alignment and taxonomy information
>gi|297744732|emb|CBI37994.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|224085782|ref|XP_002307695.1| predicted protein [Populus trichocarpa] gi|222857144|gb|EEE94691.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|449461615|ref|XP_004148537.1| PREDICTED: DNA-binding protein HEXBP-like [Cucumis sativus] gi|449519884|ref|XP_004166964.1| PREDICTED: DNA-binding protein HEXBP-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|224080454|ref|XP_002306137.1| predicted protein [Populus trichocarpa] gi|222849101|gb|EEE86648.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356516892|ref|XP_003527126.1| PREDICTED: zinc finger protein GIS2-like [Glycine max] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query235
TAIR|locus:2005719257 AT1G75560 [Arabidopsis thalian 0.617 0.564 0.813 9.1e-88
POMBASE|SPAC13D6.02c179 byr3 "zinc finger protein Byr3 0.544 0.715 0.409 2.2e-27
SGD|S000005199153 GIS2 "Translational activator 0.6 0.921 0.363 2.8e-27
UNIPROTKB|F1N8C2171 CNBP "Cellular nucleic acid-bi 0.574 0.789 0.367 4e-26
ASPGD|ASPL0000028407171 AN5111 [Emericella nidulans (t 0.536 0.736 0.370 8e-21
UNIPROTKB|O42395172 CNBP "Cellular nucleic acid-bi 0.472 0.645 0.412 5.5e-22
UNIPROTKB|Q3T0Q6170 CNBP "Cellular nucleic acid-bi 0.472 0.652 0.416 3.4e-22
UNIPROTKB|B4DP17160 CNBP "cDNA FLJ61146, highly si 0.472 0.693 0.416 3.4e-22
UNIPROTKB|G3MZ41175 ZCCHC13 "Uncharacterized prote 0.519 0.697 0.385 3.9e-21
UNIPROTKB|P62633177 CNBP "Cellular nucleic acid-bi 0.472 0.627 0.416 3.4e-22
TAIR|locus:2005719 AT1G75560 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 736 (264.1 bits), Expect = 9.1e-88, Sum P(2) = 9.1e-88
 Identities = 118/145 (81%), Positives = 133/145 (91%)

Query:    10 SQGNLCNNCKRPGHFARECPNVAVCNNCGLPGHIASECTTQARCWNCREPGHMASNCHNE 69
             SQGNLCNNCKRPGHFAR+C NV+VCNNCGLPGHIA+ECT ++RCWNCREPGH+ASNC NE
Sbjct:    52 SQGNLCNNCKRPGHFARDCSNVSVCNNCGLPGHIAAECTAESRCWNCREPGHVASNCSNE 111

Query:    70 GICHSCGKTGHRARDCSTHVQSGGDLRLCNNCYKPGHIAADCTNDKACKNCRKTGHIARD 129
             GICHSCGK+GHRARDCS      GDLRLCNNC+K GH+AADCTNDKACKNCR +GHIARD
Sbjct:   112 GICHSCGKSGHRARDCSNSDSRAGDLRLCNNCFKQGHLAADCTNDKACKNCRTSGHIARD 171

Query:   130 CQNEPVCNLCNIAGHVARQCPKGDS 154
             C+N+PVCN+C+I+GHVAR CPKGDS
Sbjct:   172 CRNDPVCNICSISGHVARHCPKGDS 196
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:0006457 "protein folding" evidence=RCA
GO:0009408 "response to heat" evidence=RCA
GO:0009644 "response to high light intensity" evidence=RCA
GO:0034976 "response to endoplasmic reticulum stress" evidence=RCA
GO:0042542 "response to hydrogen peroxide" evidence=RCA
POMBASE|SPAC13D6.02c byr3 "zinc finger protein Byr3" [Schizosaccharomyces pombe (taxid:4896)] Back     alignment and assigned GO terms
SGD|S000005199 GIS2 "Translational activator for mRNAs with internal ribosome entry sites" [Saccharomyces cerevisiae (taxid:4932)] Back     alignment and assigned GO terms
UNIPROTKB|F1N8C2 CNBP "Cellular nucleic acid-binding protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
ASPGD|ASPL0000028407 AN5111 [Emericella nidulans (taxid:162425)] Back     alignment and assigned GO terms
UNIPROTKB|O42395 CNBP "Cellular nucleic acid-binding protein" [Gallus gallus (taxid:9031)] 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|B4DP17 CNBP "cDNA FLJ61146, highly similar to Cellular nucleic acid-binding protein" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|G3MZ41 ZCCHC13 "Uncharacterized 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

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query235
PTZ00368148 PTZ00368, PTZ00368, universal minicircle sequence 1e-19
PTZ00368148 PTZ00368, PTZ00368, universal minicircle sequence 1e-16
PTZ00368148 PTZ00368, PTZ00368, universal minicircle sequence 3e-15
COG5082190 COG5082, AIR1, Arginine methyltransferase-interact 1e-14
COG5082190 COG5082, AIR1, Arginine methyltransferase-interact 4e-14
COG5082190 COG5082, AIR1, Arginine methyltransferase-interact 2e-07
COG4907595 COG4907, COG4907, Predicted membrane protein [Func 2e-04
PTZ00146 293 PTZ00146, PTZ00146, fibrillarin; Provisional 4e-04
PTZ00146 293 PTZ00146, PTZ00146, fibrillarin; Provisional 5e-04
PLN03138 796 PLN03138, PLN03138, Protein TOC75; Provisional 6e-04
PLN03138 796 PLN03138, PLN03138, Protein TOC75; Provisional 7e-04
PLN03138 796 PLN03138, PLN03138, Protein TOC75; Provisional 0.001
PTZ00146 293 PTZ00146, PTZ00146, fibrillarin; Provisional 0.002
PTZ00146 293 PTZ00146, PTZ00146, fibrillarin; Provisional 0.002
PTZ00368148 PTZ00368, PTZ00368, universal minicircle sequence 0.003
PTZ00146 293 PTZ00146, PTZ00146, fibrillarin; Provisional 0.003
PRK06958182 PRK06958, PRK06958, single-stranded DNA-binding pr 0.003
pfam05918543 pfam05918, API5, Apoptosis inhibitory protein 5 (A 0.003
>gnl|CDD|173561 PTZ00368, PTZ00368, universal minicircle sequence binding protein (UMSBP); Provisional Back     alignment and domain information 
 Score = 81.8 bits (202), Expect = 1e-19
 Identities = 54/145 (37%), Positives = 74/145 (51%), Gaps = 27/145 (18%)

Query: 13  NLCNNCKRPGHFARECPNVAV--------CNNCGLPGHIASECTT------QARCWNCRE 58
            +C  C   GH +RECPN A         C  CG PGH++ EC +      +  C+NC +
Sbjct: 1   MVCYRCGGVGHQSRECPNSAPAGAAKARPCYKCGEPGHLSRECPSAPGGRGERSCYNCGK 60

Query: 59  PGHMASNCHNEG------ICHSCGKTGHRARDCSTHVQSGGDLRLCNNCYKPGHIAADCT 112
            GH++  C           C++CG+TGH +R+C    + G   R C NC   GHI+ DC 
Sbjct: 61  TGHLSRECPEAPPGSGPRSCYNCGQTGHISRECPNRAKGGAARRACYNCGGEGHISRDCP 120

Query: 113 N-------DKACKNCRKTGHIARDC 130
           N       DK C NC +TGH++RDC
Sbjct: 121 NAGKRPGGDKTCYNCGQTGHLSRDC 145

Length = 148
>gnl|CDD|173561 PTZ00368, PTZ00368, universal minicircle sequence binding protein (UMSBP); Provisional Back     alignment and domain information
>gnl|CDD|173561 PTZ00368, PTZ00368, universal minicircle sequence binding protein (UMSBP); Provisional 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|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|227244 COG4907, COG4907, Predicted membrane protein [Function unknown] Back     alignment and domain information
>gnl|CDD|240291 PTZ00146, PTZ00146, fibrillarin; Provisional Back     alignment and domain information
>gnl|CDD|240291 PTZ00146, PTZ00146, fibrillarin; Provisional Back     alignment and domain information
>gnl|CDD|215598 PLN03138, PLN03138, Protein TOC75; Provisional Back     alignment and domain information
>gnl|CDD|215598 PLN03138, PLN03138, Protein TOC75; Provisional Back     alignment and domain information
>gnl|CDD|215598 PLN03138, PLN03138, Protein TOC75; Provisional Back     alignment and domain information
>gnl|CDD|240291 PTZ00146, PTZ00146, fibrillarin; Provisional Back     alignment and domain information
>gnl|CDD|240291 PTZ00146, PTZ00146, fibrillarin; Provisional Back     alignment and domain information
>gnl|CDD|173561 PTZ00368, PTZ00368, universal minicircle sequence binding protein (UMSBP); Provisional Back     alignment and domain information
>gnl|CDD|240291 PTZ00146, PTZ00146, fibrillarin; Provisional Back     alignment and domain information
>gnl|CDD|180777 PRK06958, PRK06958, single-stranded DNA-binding protein; Provisional Back     alignment and domain information
>gnl|CDD|218811 pfam05918, API5, Apoptosis inhibitory protein 5 (API5) Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 235
PTZ00368148 universal minicircle sequence binding protein (UMS 99.95
PTZ00368148 universal minicircle sequence binding protein (UMS 99.94
COG5082190 AIR1 Arginine methyltransferase-interacting protei 99.83
COG5082190 AIR1 Arginine methyltransferase-interacting protei 99.8
KOG4400261 consensus E3 ubiquitin ligase interacting with arg 99.76
KOG4400261 consensus E3 ubiquitin ligase interacting with arg 99.62
PF0009818 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc fi 98.23
PF0009818 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc fi 98.07
PF1369632 zf-CCHC_2: Zinc knuckle 96.79
PF1369632 zf-CCHC_2: Zinc knuckle 96.36
PF1391742 zf-CCHC_3: Zinc knuckle 96.35
smart0034326 ZnF_C2HC zinc finger. 94.22
PF1439249 zf-CCHC_4: Zinc knuckle 94.15
PF1391742 zf-CCHC_3: Zinc knuckle 93.4
KOG0109 346 consensus RNA-binding protein LARK, contains RRM a 93.28
smart0034326 ZnF_C2HC zinc finger. 92.82
KOG0119 554 consensus Splicing factor 1/branch point binding p 91.84
KOG0119 554 consensus Splicing factor 1/branch point binding p 90.62
KOG0109 346 consensus RNA-binding protein LARK, contains RRM a 88.04
PF1478736 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 86.64
PF1528840 zf-CCHC_6: Zinc knuckle 86.52
COG5222 427 Uncharacterized conserved protein, contains RING Z 86.17
PF1528840 zf-CCHC_6: Zinc knuckle 83.6
KOG0314 448 consensus Predicted E3 ubiquitin ligase [Posttrans 83.25
PF1439249 zf-CCHC_4: Zinc knuckle 81.63
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional Back     alignment and domain information 
Probab=99.95  E-value=1.9e-28  Score=198.63  Aligned_cols=133  Identities=34%  Similarity=0.819  Sum_probs=89.1

Q ss_pred             cCCCCCCCCCCCCCCCC--------ccccccCCCCCcCCccCCCCcccCCCCcccccCCCCCCCCCCCCCcccccccccC
Q 026649           52 RCWNCREPGHMASNCHN--------EGICHSCGKTGHRARDCSTHVQSGGDLRLCNNCYKPGHIAADCTNDKACKNCRKT  123 (235)
Q Consensus        52 ~C~~Cg~~GH~~~~Cp~--------~~~C~~Cg~~GH~~~~Cp~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~~C~~Cg~~  123 (235)
                      +||+|++.||++++||+        ...||+|++.||++++||..... .....|++|++.||++++||+...      .
T Consensus         2 ~C~~C~~~GH~~~~c~~~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~~~-~~~~~C~~Cg~~GH~~~~Cp~~~~------~   74 (148)
T PTZ00368          2 VCYRCGGVGHQSRECPNSAPAGAAKARPCYKCGEPGHLSRECPSAPGG-RGERSCYNCGKTGHLSRECPEAPP------G   74 (148)
T ss_pred             cCCCCCCCCcCcccCcCCCCCCCCCCccCccCCCCCcCcccCcCCCCC-CCCcccCCCCCcCcCcccCCCccc------C
Confidence            45555555555555554        23577777777777777654321 123445555555555555554210      0


Q ss_pred             ccccCCCCCCCCCCccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccCccccccCCCCccCCCCC
Q 026649          124 GHIARDCQNEPVCNLCNIAGHVARQCPKGDSLGERGGGGGGERGGGGGGDGGGGGGRYVGYHDVICRSCNQMGHMSRDCV  203 (235)
Q Consensus       124 GH~~~~Cp~~~~C~~C~~~GH~~~~Cp~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~C~~C~~~gH~~rdC~  203 (235)
                             .....|++|++.||++++||+....     .                      ....+||+|++.||+++|||
T Consensus        75 -------~~~~~C~~Cg~~GH~~~~C~~~~~~-----~----------------------~~~~~C~~Cg~~gH~~~~C~  120 (148)
T PTZ00368         75 -------SGPRSCYNCGQTGHISRECPNRAKG-----G----------------------AARRACYNCGGEGHISRDCP  120 (148)
T ss_pred             -------CCCcccCcCCCCCcccccCCCcccc-----c----------------------ccchhhcccCcCCcchhcCC
Confidence                   0234799999999999999985421     0                      12368999999999999999


Q ss_pred             CC------CcceecCCCCCcCCCCCCCC
Q 026649          204 GP------LIICRNCGGRGHMAYECPSG  225 (235)
Q Consensus       204 ~~------~~~C~~Cg~~GH~~~~Cp~~  225 (235)
                      ..      .+.||+|++.|||++|||+.
T Consensus       121 ~~~~~~~~~~~C~~Cg~~gH~~~dCp~~  148 (148)
T PTZ00368        121 NAGKRPGGDKTCYNCGQTGHLSRDCPDK  148 (148)
T ss_pred             CccccCCCCCccccCCCcCcccccCCCC
Confidence            84      58999999999999999973

>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
>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
>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
>smart00343 ZnF_C2HC zinc finger Back     alignment and domain information
>PF14392 zf-CCHC_4: Zinc knuckle Back     alignment and domain information
>PF13917 zf-CCHC_3: 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
>smart00343 ZnF_C2HC zinc finger 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
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification] 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
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A Back     alignment and domain information
>PF15288 zf-CCHC_6: Zinc knuckle Back     alignment and domain information
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only] Back     alignment and domain information
>PF15288 zf-CCHC_6: Zinc knuckle Back     alignment and domain information
>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones] 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 ?
Query235
2bl6_A37 Solution Structure Of The Zn Complex Of Eiav Ncp11( 3e-04
>pdb|2BL6|A Chain A, Solution Structure Of The Zn Complex Of Eiav Ncp11(22-58) Peptide, Including Two Cchc Zn-Binding Motifs Length = 37 Back     alignment and structure 
Iteration: 1

 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 15/36 (41%), Positives = 23/36 (63%)
Query: 33 VCNNCGLPGHIASECTTQARCWNCREPGHMASNCHN 68
           C NCG PGH++S+C     C+ C++PGH +  C +
Sbjct: 2  TCYNCGKPGHLSSQCRAPKVCFKCKQPGHFSKQCRS 37

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query235
2lli_A124 Protein AIR2; RNA surveillance, RNA degradation, R 99.95
2lli_A124 Protein AIR2; RNA surveillance, RNA degradation, R 99.93
3nyb_B83 Protein AIR2; polya RNA polymerase, zinc knuckle p 99.67
2li8_A74 Protein LIN-28 homolog A; zinc finger, micro RNA, 99.55
3nyb_B83 Protein AIR2; polya RNA polymerase, zinc knuckle p 99.55
2a51_A39 Nucleocapsid protein; sivlhoest, structure, NCP8, 99.38
2li8_A74 Protein LIN-28 homolog A; zinc finger, micro RNA, 99.34
2bl6_A37 Nucleocapsid protein P11; lentivirus, polyprotein, 99.33
2ec7_A49 GAG polyprotein (PR55GAG); nucleocapsid protein, H 99.31
2ihx_A61 Nucleocapsid (NC) protein; protein-RNA complex, vi 99.29
1a1t_A55 Nucleocapsid protein; stem-loop RNA, viral protein 99.28
2cqf_A63 RNA-binding protein LIN-28; CCHC zinc-finger, stru 99.26
1cl4_A60 Protein (GAG polyprotein); nucleocapsid protein, R 99.25
1a1t_A55 Nucleocapsid protein; stem-loop RNA, viral protein 99.21
2bl6_A37 Nucleocapsid protein P11; lentivirus, polyprotein, 99.18
2a51_A39 Nucleocapsid protein; sivlhoest, structure, NCP8, 99.15
2ec7_A49 GAG polyprotein (PR55GAG); nucleocapsid protein, H 99.05
2ihx_A61 Nucleocapsid (NC) protein; protein-RNA complex, vi 99.04
2cqf_A63 RNA-binding protein LIN-28; CCHC zinc-finger, stru 98.97
1cl4_A60 Protein (GAG polyprotein); nucleocapsid protein, R 98.96
3ts2_A148 Protein LIN-28 homolog A; microrna biogenesis, pro 98.88
3ts2_A148 Protein LIN-28 homolog A; microrna biogenesis, pro 98.68
1dsq_A26 Nucleic acid binding protein P14; CCHC type zinc f 98.18
1a6b_B40 Momulv, zinc finger protein NCP10; nucleocapsid pr 98.15
1nc8_A29 Nucleocapsid protein; HIV-2, RNA recognition, zinc 97.95
1dsq_A26 Nucleic acid binding protein P14; CCHC type zinc f 97.88
1u6p_A56 GAG polyprotein; MLV, A-minor K-turn, stem loop, b 97.77
1a6b_B40 Momulv, zinc finger protein NCP10; nucleocapsid pr 97.73
1nc8_A29 Nucleocapsid protein; HIV-2, RNA recognition, zinc 97.72
1u6p_A56 GAG polyprotein; MLV, A-minor K-turn, stem loop, b 97.28
2ysa_A55 Retinoblastoma-binding protein 6; zinc finger, CCH 97.11
2ysa_A55 Retinoblastoma-binding protein 6; zinc finger, CCH 96.81
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae} Back     alignment and structure
Probab=99.95  E-value=4.2e-28  Score=190.02  Aligned_cols=77  Identities=27%  Similarity=0.758  Sum_probs=66.7

Q ss_pred             cccccCCCCCcCCccCCCCcccCCCCcccccCCCC-CCCCCCCCCcccccccccCccccCCCCCC---CCCCccccCCCC
Q 026649           70 GICHSCGKTGHRARDCSTHVQSGGDLRLCNNCYKP-GHIAADCTNDKACKNCRKTGHIARDCQNE---PVCNLCNIAGHV  145 (235)
Q Consensus        70 ~~C~~Cg~~GH~~~~Cp~~~~~~~~~~~C~~Cg~~-GH~~~~Cp~~~~C~~Cg~~GH~~~~Cp~~---~~C~~C~~~GH~  145 (235)
                      ..||+|++.||++++||+.        .||+|++. ||++++||+.+.||+|+++||++++||+.   +.||+|+++||+
T Consensus         5 ~~C~~C~~~GH~~~~Cp~~--------~C~~Cg~~~gH~~~~C~~~~~C~~Cg~~GH~~~~C~~~~~~~~C~~Cg~~GH~   76 (124)
T 2lli_A            5 PKCNNCSQRGHLKKDCPHI--------ICSYCGATDDHYSRHCPKAIQCSKCDEVGHYRSQCPHKWKKVQCTLCKSKKHS   76 (124)
T ss_dssp             SCCSSCSSSSCCTTTTTSC--------CCTTTCCTTTCCTTTGGGSSCSSSSSCSSSSTTTSCCCCCCCSSSSSCSSCCC
T ss_pred             CcccCCCCCCcCcccCcCC--------cCcCCCCcCCccCcccCCcccccccCCCCCccccCcCcccCccCCCCCcCCcc
Confidence            5699999999999999863        69999998 99999999878899999999999999874   689999999999


Q ss_pred             CCCCCCCCC
Q 026649          146 ARQCPKGDS  154 (235)
Q Consensus       146 ~~~Cp~~~~  154 (235)
                      +++||+.+.
T Consensus        77 ~~~Cp~~~~   85 (124)
T 2lli_A           77 KERCPSIWR   85 (124)
T ss_dssp             TTTCCCSTT
T ss_pred             hhhCCCccc
Confidence            999998653
>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
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens} 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
>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
>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
>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
>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
>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
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic} 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
>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
>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
>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
>1dsq_A Nucleic acid binding protein P14; CCHC type zinc finger, virus/viral protein; NMR {Mouse mammary tumor virus} SCOP: g.40.1.1 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
>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
>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
>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 235
d2exfa142 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunod 2e-04
d2exfa142 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunod 3e-04
d2exfa142 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunod 8e-04
d2exfa142 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunod 0.001
d2exfa142 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunod 0.001
d2exfa142 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunod 0.003
>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 = 35.6 bits (82), Expect = 2e-04
 Identities = 16/36 (44%), Positives = 22/36 (61%), Gaps = 2/36 (5%)

Query: 52 RCWNCREPGHMASNCHN--EGICHSCGKTGHRARDC 85
          +C+NC + GH A NC    +  C  CGK GH+ +DC
Sbjct: 3  KCFNCGKEGHTARNCRAPRKKGCWKCGKEGHQMKDC 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
>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
>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
>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
>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 ?
Query235
d2exfa142 HIV nucleocapsid {Human immunodeficiency virus typ 99.39
d2exfa142 HIV nucleocapsid {Human immunodeficiency virus typ 99.23
d1nc8a_29 HIV nucleocapsid {Human immunodeficiency virus typ 97.96
d1nc8a_29 HIV nucleocapsid {Human immunodeficiency virus typ 97.79
d1dsqa_26 Nucleic acid binding protein p14 {Mouse mammary tu 95.91
d1dsqa_26 Nucleic acid binding protein p14 {Mouse mammary tu 95.69
d1a6bb_40 Zinc finger protein ncp10 {Moloney murine leukemia 94.84
d1a6bb_40 Zinc finger protein ncp10 {Moloney murine leukemia 92.96
>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=99.39  E-value=1e-13  Score=86.66  Aligned_cols=39  Identities=36%  Similarity=0.865  Sum_probs=36.2

Q ss_pred             ccccccCCCCccCCCCCCC-CcceecCCCCCcCCCCCCCC
Q 026649          187 VICRSCNQMGHMSRDCVGP-LIICRNCGGRGHMAYECPSG  225 (235)
Q Consensus       187 ~~C~~C~~~gH~~rdC~~~-~~~C~~Cg~~GH~~~~Cp~~  225 (235)
                      ++||+|++.||+++|||++ ...||+|++.||++++||+.
T Consensus         2 i~C~~Cg~~GH~~~~Cp~~~~~~C~~Cg~~GH~~~~Cp~r   41 (42)
T d2exfa1           2 VKCFNCGKEGHTARNCRAPRKKGCWKCGKEGHQMKDCTER   41 (42)
T ss_dssp             CCCTTTCCSSSCTTTCSSCCCSSCSSSCCSSSCTTTCCSS
T ss_pred             CccccCCCcCcCcccCcCCCcCccccCCCCCeecccCCCC
Confidence            7899999999999999986 46899999999999999973
>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
>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