Psyllid ID: psy14705

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-------33
MSYGALLTPSRYQSKDRKESDVGDTPHSAKSYSTRCFSYDAGTLRAVSNLIPASPPIAGCFSYDAGTLRAVSNLIPASPPIAVLDNKAGVDWELGDPYSGPYSPNLLDDPELIAGKHRTLLTFTSYMTSVIDYVRPLDLKKELNDKFKEKFPHIKLTLSKLRSLKREMRKIAKVDNSNLELLTVAQAYVYFEKLILLALINKENRKLCAGACLLLSAKLNDVKGDALKTLIEKTENIFRLNRKDLFAAEFAVLVALEFGLHLPTWDILPHFQRLTYEKFLGGRKTENIFRLNRKDLFAAEFAVLVALEFGLHLPTWDILPHFQRLTYES
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEcccEEEEEcccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHcccccccHHHHHcHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHccc
ccccEEEEEccccccccHccccccccccccccccHHEccccEEEEEEEEEEccccccccEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEcccEEEEEEcccHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHcccccEcccccccHHHHHHHHHHHHHHHHHcccccHHHHcHHHHHEEccc
msygalltpsryqskdrkesdvgdtphsaksystrcfsydagtlravsnlipasppiagcfsydagtlravsnlipasppiavldnkagvdwelgdpysgpyspnllddpeliagkhRTLLTFTSYMTSVIDYVRPLDLKKELNDKFKEKFPHIKLTLSKLRSLKREMRKIAKVDNSNLELLTVAQAYVYFEKLILLALINKENRKLCAGACLLLSAKLNDVKGDALKTLIEKTENIFRLNRKDLFAAEFAVLVALEFglhlptwdilphfqrltyekflggrkteNIFRLNRKDLFAAEFAVLVALEFglhlptwdilphfqrltyes
msygalltpsryqskdrkesdvgdtphsaksystRCFSYDAGTLRAVSNLIPASPPIAGCFSYDAGTLRAVSNLIPASPPIAVLDNKAGVDWELGDPYSGPYSPNLLDDPELIAGKHRTLLTFTSYMTSVIDYVRPLDLKKELNdkfkekfphikltlsklrsLKREMRKiakvdnsnlelLTVAQAYVYFEKLILLALINKENRKLCAGACLLLSAKLNDVKGDALKTLIEKTENIFRLNRKDLFAAEFAVLVALEFGLHLPTWDILPHFQRLTYEKFLGGRKTENIFRLNRKDLFAAEFAVLVALEFGLHLPTWDILPHFQRLTYES
MSYGALLTPSRYQSKDRKESDVGDTPHSAKSYSTRCFSYDAGTLRAVSNLIPASPPIAGCFSYDAGTLRAVSNLIPASPPIAVLDNKAGVDWELGDPYSGPYSPNLLDDPELIAGKHRTLLTFTSYMTSVIDYVRPLDLKKELNDKFKEKFPHIkltlsklrslkrEMRKIAKVDNSNLELLTVAQAYVYFEKLILLALINKENRKLCAGACLLLSAKLNDVKGDALKTLIEKTENIFRLNRKDlfaaefavlvalefGLHLPTWDILPHFQRLTYEKFLGGRKTENIFRLNRKDlfaaefavlvalefGLHLPTWDILPHFQRLTYES
*********************************TRCFSYDAGTLRAVSNLIPASPPIAGCFSYDAGTLRAVSNLIPASPPIAVLDNKAGVDWELGDPYSGPYSPNLLDDPELIAGKHRTLLTFTSYMTSVIDYVRPLDLKKELNDKFKEKFPHIKLTLSKLRSLKREMRKIAKVDNSNLELLTVAQAYVYFEKLILLALINKENRKLCAGACLLLSAKLNDVKGDALKTLIEKTENIFRLNRKDLFAAEFAVLVALEFGLHLPTWDILPHFQRLTYEKFLGGRKTENIFRLNRKDLFAAEFAVLVALEFGLHLPTWDILPHFQRLT***
MSYGALLTPS*******************************GTLRAVSN************************************************YSGPYSPNLLDDPELIAGKHRTLLTFTSYMTSVIDYVRPLDLKKELNDKFKEKFPHIKLTLSKLRSLKREMRKIAKVDNSNLELLTVAQAYVYFEKLILLALINKENRKLCAGACLLLSAKLNDVKGDALKTLIEKTENIFRLNRKDLFAAEFAVLVALEFGLHLPTWDILPHFQRLTYEK************LNRKDLFAAEFAVLVALEFGLHLPTWDILPHFQRLTY**
******************************SYSTRCFSYDAGTLRAVSNLIPASPPIAGCFSYDAGTLRAVSNLIPASPPIAVLDNKAGVDWELGDPYSGPYSPNLLDDPELIAGKHRTLLTFTSYMTSVIDYVRPLDLKKELNDKFKEKFPHIKLTLSKLRSLKREMRKIAKVDNSNLELLTVAQAYVYFEKLILLALINKENRKLCAGACLLLSAKLNDVKGDALKTLIEKTENIFRLNRKDLFAAEFAVLVALEFGLHLPTWDILPHFQRLTYEKFLGGRKTENIFRLNRKDLFAAEFAVLVALEFGLHLPTWDILPHFQRLTYES
MSYGALLTPSRYQS****************SYSTRCFSYDAGTLRAVSNLIPASPPIAGCFSYD*********************************YSGPYSPNLLDDPELIAGKHRTLLTFTSYMTSVIDYVRPLDLKKELNDKFKEKFPHIKLTLSKLRSLKREMRKIAKVDNSNLELLTVAQAYVYFEKLILLALINKENRKLCAGACLLLSAKLNDVKGDALKTLIEKTENIFRLNRKDLFAAEFAVLVALEFGLHLPTWDILPHFQRLTYEKFLGGRKTENIFRLNRKDLFAAEFAVLVALEFGLHLPTWDILPHFQRLTYES
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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MSYGALLTPSRYQSKDRKESDVGDTPHSAKSYSTRCFSYDAGTLRAVSNLIPASPPIAGCFSYDAGTLRAVSNLIPASPPIAVLDNKAGVDWELGDPYSGPYSPNLLDDPELIAGKHRTLLTFTSYMTSVIDYVRPLDLKKELNDKFKEKFPHIKLTLSKLRSLKREMRKIAKVDNSNLELLTVAQAYVYFEKLILLALINKENRKLCAGACLLLSAKLNDVKGDALKTLIEKTENIFRLNRKDLFAAEFAVLVALEFGLHLPTWDILPHFQRLTYEKFLGGRKTENIFRLNRKDLFAAEFAVLVALEFGLHLPTWDILPHFQRLTYES
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 ?
Query329 2.2.26 [Sep-21-2011]
Q9ESJ1568 CDK5 and ABL1 enzyme subs yes N/A 0.522 0.302 0.637 6e-59
Q8TDN4633 CDK5 and ABL1 enzyme subs yes N/A 0.522 0.271 0.643 6e-59
Q8K3M5481 CDK5 and ABL1 enzyme subs no N/A 0.610 0.417 0.533 3e-57
Q9BTV7478 CDK5 and ABL1 enzyme subs no N/A 0.528 0.364 0.581 1e-55
>sp|Q9ESJ1|CABL1_MOUSE CDK5 and ABL1 enzyme substrate 1 OS=Mus musculus GN=Cables1 PE=1 SV=2 Back     alignment and function desciption
 Score =  228 bits (580), Expect = 6e-59,   Method: Compositional matrix adjust.
 Identities = 111/174 (63%), Positives = 140/174 (80%), Gaps = 2/174 (1%)

Query: 102 YSPNLLDDPELIAGKHRTLLTFTSYMTSVIDYVRPLDLKKELNDKFKEKFPHIKLTLSKL 161
           Y PNLLDDP+   GKH+ +LTF SYMT+VIDYV+P DLKK++N+ FKEKFPHIKLTLSK+
Sbjct: 392 YDPNLLDDPQWPCGKHKRVLTFPSYMTTVIDYVKPSDLKKDMNETFKEKFPHIKLTLSKI 451

Query: 162 RSLKREMRKIAKVDNSNLELLTVAQAYVYFEKLILLALINKENRKLCAGACLLLSAKL-N 220
           RSLKREMRK+A+ D    E  TVA A+VYFEKL L   +NK+NRKLCAGAC+LL+AK+ +
Sbjct: 452 RSLKREMRKLAQED-CGFEEPTVAMAFVYFEKLALRGKLNKQNRKLCAGACVLLAAKVGS 510

Query: 221 DVKGDALKTLIEKTENIFRLNRKDLFAAEFAVLVALEFGLHLPTWDILPHFQRL 274
           D++   +K LI+K E  FRLNR++L A EF VLVALEF LHLP  +++PH++RL
Sbjct: 511 DLRKHEVKHLIDKLEEKFRLNRRELIAFEFPVLVALEFALHLPEHEVMPHYRRL 564
Cyclin-dependent kinase binding protein. Enhances cyclin-dependent kinase tyrosine phosphorylation by nonreceptor tyrosine kinases, such as that of CDK5 by activated ABL1, which leads to increased CDK5 activity and is critical for neuronal development, and that of CDK2 by WEE1, which leads to decreased CDK2 activity and growth inhibition. Positively affects neuronal outgrowth. Plays a role as a regulator for p53/p73-induced cell death.
Mus musculus (taxid: 10090)
>sp|Q8TDN4|CABL1_HUMAN CDK5 and ABL1 enzyme substrate 1 OS=Homo sapiens GN=CABLES1 PE=1 SV=2 Back     alignment and function description
>sp|Q8K3M5|CABL2_MOUSE CDK5 and ABL1 enzyme substrate 2 OS=Mus musculus GN=Cables2 PE=1 SV=1 Back     alignment and function description
>sp|Q9BTV7|CABL2_HUMAN CDK5 and ABL1 enzyme substrate 2 OS=Homo sapiens GN=CABLES2 PE=1 SV=3 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 ?
Query329
66504945 562 PREDICTED: CDK5 and ABL1 enzyme substrat 0.765 0.448 0.635 1e-88
383865587 561 PREDICTED: CDK5 and ABL1 enzyme substrat 0.765 0.449 0.635 2e-88
383865585 574 PREDICTED: CDK5 and ABL1 enzyme substrat 0.805 0.461 0.620 3e-87
340710328 575 PREDICTED: CDK5 and ABL1 enzyme substrat 0.762 0.436 0.601 7e-87
242024106 535 conserved hypothetical protein [Pediculu 0.762 0.469 0.613 8e-87
350415862 575 PREDICTED: CDK5 and ABL1 enzyme substrat 0.762 0.436 0.601 1e-86
328780513 575 PREDICTED: CDK5 and ABL1 enzyme substrat 0.805 0.460 0.617 1e-86
380014701 575 PREDICTED: CDK5 and ABL1 enzyme substrat 0.762 0.436 0.611 4e-86
307175680 671 CDK5 and ABL1 enzyme substrate 1 [Campon 0.775 0.380 0.597 1e-85
270006935 519 hypothetical protein TcasGA2_TC013369 [T 0.641 0.406 0.731 3e-85
>gi|66504945|ref|XP_623648.1| PREDICTED: CDK5 and ABL1 enzyme substrate 1-like isoform 2 [Apis mellifera] Back     alignment and taxonomy information
 Score =  332 bits (852), Expect = 1e-88,   Method: Compositional matrix adjust.
 Identities = 176/277 (63%), Positives = 203/277 (73%), Gaps = 25/277 (9%)

Query: 1   MSYGALLTPSRYQSKDRKESDVGDTPHSAKSYSTRCFSYDAGTLRAVSNLIPASPPIAGC 60
           +SYG LL PSR   KD+K                  FS D  T+  +SN     P ++ C
Sbjct: 310 ISYGQLLVPSRQFQKDKKLH----------------FS-DNETIELISN---KHPIVSRC 349

Query: 61  FSYDAGTLRAVSNLIPASPPIAVLDNKAGVDWELGDPYSGPYSPNLLDDPELIAGKHRTL 120
            SYD  T R   +L P SPP++   +    DW   D  S  Y+PNLLDDPELIAGKHRTL
Sbjct: 350 LSYDTATHR-TQHLTPESPPLSFNTDSKVYDW---DEQSLQYNPNLLDDPELIAGKHRTL 405

Query: 121 LTFTSYMTSVIDYVRPLDLKKELNDKFKEKFPHIKLTLSKLRSLKREMRKIAKVDNSNLE 180
           LTFTSYM SVIDYVRP DLKKELNDKFKEKFPHI+LTLSKLRSLKREMRKIAK++   ++
Sbjct: 406 LTFTSYMASVIDYVRPSDLKKELNDKFKEKFPHIQLTLSKLRSLKREMRKIAKME-YGID 464

Query: 181 LLTVAQAYVYFEKLILLALINKENRKLCAGACLLLSAKLNDVKGDALKTLIEKTENIFRL 240
           LLTVA AYVYFEKLIL  ++ K+ RKLCAGACLLL+AKLNDVKGD LK+LIE+ E++FRL
Sbjct: 465 LLTVAMAYVYFEKLILRNVVTKQTRKLCAGACLLLAAKLNDVKGDVLKSLIERIESVFRL 524

Query: 241 NRKDLFAAEFAVLVALEFGLHLPTWDILPHFQRLTYE 277
           NRKDL  +EFAVLVALEFGLHLPTW+I PH+QRL YE
Sbjct: 525 NRKDLITSEFAVLVALEFGLHLPTWEIFPHYQRLIYE 561

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota
>gi|383865587|ref|XP_003708254.1| PREDICTED: CDK5 and ABL1 enzyme substrate 1-like isoform 2 [Megachile rotundata] Back     alignment and taxonomy information
>gi|383865585|ref|XP_003708253.1| PREDICTED: CDK5 and ABL1 enzyme substrate 1-like isoform 1 [Megachile rotundata] Back     alignment and taxonomy information
>gi|340710328|ref|XP_003393744.1| PREDICTED: CDK5 and ABL1 enzyme substrate 1-like [Bombus terrestris] Back     alignment and taxonomy information
>gi|242024106|ref|XP_002432471.1| conserved hypothetical protein [Pediculus humanus corporis] gi|212517904|gb|EEB19733.1| conserved hypothetical protein [Pediculus humanus corporis] Back     alignment and taxonomy information
>gi|350415862|ref|XP_003490771.1| PREDICTED: CDK5 and ABL1 enzyme substrate 1-like [Bombus impatiens] Back     alignment and taxonomy information
>gi|328780513|ref|XP_003249813.1| PREDICTED: CDK5 and ABL1 enzyme substrate 1-like isoform 1 [Apis mellifera] Back     alignment and taxonomy information
>gi|380014701|ref|XP_003691359.1| PREDICTED: CDK5 and ABL1 enzyme substrate 1-like [Apis florea] Back     alignment and taxonomy information
>gi|307175680|gb|EFN65568.1| CDK5 and ABL1 enzyme substrate 1 [Camponotus floridanus] Back     alignment and taxonomy information
>gi|270006935|gb|EFA03383.1| hypothetical protein TcasGA2_TC013369 [Tribolium castaneum] 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 ?
Query329
FB|FBgn0027581717 CG6191 [Drosophila melanogaste 0.784 0.359 0.514 7.9e-62
UNIPROTKB|F1RIZ1489 CABLES2 "Uncharacterized prote 0.620 0.417 0.457 1.3e-43
RGD|1305516551 Cables1 "Cdk5 and Abl enzyme s 0.544 0.324 0.508 9.3e-43
UNIPROTKB|F1MZY0418 F1MZY0 "Uncharacterized protei 0.544 0.428 0.508 1.2e-42
UNIPROTKB|Q8TDN4633 CABLES1 "CDK5 and ABL1 enzyme 0.544 0.282 0.508 1.2e-42
MGI|MGI:1927065568 Cables1 "CDK5 and Abl enzyme s 0.553 0.320 0.505 1.5e-42
UNIPROTKB|F1PP60529 CABLES2 "Uncharacterized prote 0.626 0.389 0.445 2.5e-42
UNIPROTKB|F1PVG8488 CABLES2 "Uncharacterized prote 0.626 0.422 0.445 2.5e-42
UNIPROTKB|F1P9I2631 CABLES1 "Uncharacterized prote 0.544 0.283 0.502 3.2e-42
UNIPROTKB|F1SBB7588 CABLES1 "Uncharacterized prote 0.544 0.304 0.502 3.2e-42
FB|FBgn0027581 CG6191 [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
 Score = 632 (227.5 bits), Expect = 7.9e-62, P = 7.9e-62
 Identities = 145/282 (51%), Positives = 176/282 (62%)

Query:     1 MSYGALLTPSRYQSKDRKESDVGDTPHSAKSYSTRCFSYDAGTLRAVSNLIPASPPIAGC 60
             +SYG LL PSR   K+RK+       H   S +   F      +   S     +  IA C
Sbjct:   454 ISYGHLLIPSRQYEKERKK-------HGNASANPSIFE---NQMEITSTAALKNHGIARC 503

Query:    61 FSYDAGTLRAVSNLIPASPPIAVLDNKAGVDWEL----GDPYSGP-YSPNLLDDPELIAG 115
             F+Y+     + ++  P        D K  +D E     GD   G  YS ++LDDPELIAG
Sbjct:   504 FTYENNNRNSATSPTP--------DMKLDMDIESVILGGDSSRGQVYSASILDDPELIAG 555

Query:   116 KHRTLLTFTSYMTSVIDYVRPLDLKKELNDKFKEKFPHIXXXXXXXXXXXXEMRKIAKVD 175
             KHRTLLTFTSYMTSVIDYVRP DLKKELNDKF+EKFP I            EMR+I K+D
Sbjct:   556 KHRTLLTFTSYMTSVIDYVRPSDLKKELNDKFREKFPTIQLTLSKLRSIKREMRRINKLD 615

Query:   176 NSNLELLTVAQAYVYFEKLILLALINKENRKLCAGACLLLSAKLNDVKGDALKTLIEKTE 235
              S ++L+T++QAYVYFEKLIL  LINK NRKLCAGACLLLSAK+NDVKGDALK+LIEKTE
Sbjct:   616 -SRIDLVTISQAYVYFEKLILANLINKSNRKLCAGACLLLSAKMNDVKGDALKSLIEKTE 674

Query:   236 NIFRLNRKDXXXXXXXXXXXXXXGLHLPTWDILPHFQRLTYE 277
             ++FRLNRK+               LH+   ++LPH+QRL YE
Sbjct:   675 SVFRLNRKELISSEFAVLVALEFSLHVNRHEVLPHYQRLLYE 716
GO:0016538 "cyclin-dependent protein serine/threonine kinase regulator activity" evidence=IEA
GO:0051726 "regulation of cell cycle" evidence=IEA
GO:0051302 "regulation of cell division" evidence=IEA
GO:0006911 "phagocytosis, engulfment" evidence=IMP
UNIPROTKB|F1RIZ1 CABLES2 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
RGD|1305516 Cables1 "Cdk5 and Abl enzyme substrate 1" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|F1MZY0 F1MZY0 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|Q8TDN4 CABLES1 "CDK5 and ABL1 enzyme substrate 1" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
MGI|MGI:1927065 Cables1 "CDK5 and Abl enzyme substrate 1" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|F1PP60 CABLES2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|F1PVG8 CABLES2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|F1P9I2 CABLES1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|F1SBB7 CABLES1 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

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

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q9ESJ1CABL1_MOUSENo assigned EC number0.63790.52270.3028yesN/A
Q8TDN4CABL1_HUMANNo assigned EC number0.64360.52270.2717yesN/A

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query329
pfam00134127 pfam00134, Cyclin_N, Cyclin, N-terminal domain 2e-04
>gnl|CDD|215740 pfam00134, Cyclin_N, Cyclin, N-terminal domain Back     alignment and domain information 
 Score = 40.2 bits (95), Expect = 2e-04
 Identities = 21/127 (16%), Positives = 52/127 (40%), Gaps = 16/127 (12%)

Query: 139 LKKELNDKFKEKFPHIKLTLSKLRSLKREMRKIAKVD-------NSNLELLTVAQAYVYF 191
            + E  D+    +   +  ++       +MR I  +D          L   T+  A  Y 
Sbjct: 7   RELEEEDRPPPDYLDQQPDINP------KMRAIL-IDWLVEVHEEFKLLPETLYLAVNYL 59

Query: 192 EKLILLALINKENRKLCAGACLLLSAKLNDVKGDALKTLIEKTENIFRLNRKDLFAAEFA 251
           ++ +    + +   +L    CLL++AK  ++   +++  +  T+N +   ++++   E  
Sbjct: 60  DRFLSKQPVPRTKLQLVGVTCLLIAAKYEEIYPPSVEDFVYITDNAY--TKEEILRMELL 117

Query: 252 VLVALEF 258
           +L  L +
Sbjct: 118 ILSTLNW 124

Cyclins regulate cyclin dependent kinases (CDKs). Human cyclin-O is a Uracil-DNA glycosylase that is related to other cyclins. Cyclins contain two domains of similar all-alpha fold, of which this family corresponds with the N-terminal domain. Length = 127

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 329
KOG4164|consensus497 100.0
KOG4164|consensus497 99.85
KOG0794|consensus264 99.7
TIGR00569305 ccl1 cyclin ccl1. University). 99.69
PF00134127 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR 99.49
KOG0834|consensus 323 99.38
COG5333297 CCL1 Cdk activating kinase (CAK)/RNA polymerase II 99.37
KOG0835|consensus 367 99.15
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 98.81
KOG2496|consensus325 98.71
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 98.46
KOG0656|consensus335 98.46
PRK00423310 tfb transcription initiation factor IIB; Reviewed 97.8
KOG0653|consensus391 97.5
PF08613149 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eu 97.34
COG5024440 Cyclin [Cell division and chromosome partitioning] 97.28
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 96.51
KOG0655|consensus408 96.15
KOG1674|consensus218 88.16
PRK00423310 tfb transcription initiation factor IIB; Reviewed 88.08
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 82.5
KOG1597|consensus308 82.22
>KOG4164|consensus Back     alignment and domain information 
Probab=100.00  E-value=2.7e-75  Score=569.03  Aligned_cols=242  Identities=52%  Similarity=0.792  Sum_probs=213.0

Q ss_pred             CCccccccccccccccccccCCCCCCcccccccccccccCccchhhhcCCCCCCCcceeeeeccCcccccccccCCCCCC
Q psy14705          1 MSYGALLTPSRYQSKDRKESDVGDTPHSAKSYSTRCFSYDAGTLRAVSNLIPASPPIAGCFSYDAGTLRAVSNLIPASPP   80 (329)
Q Consensus         1 ~sy~~~l~p~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~p~   80 (329)
                      |||+++|+|+++++.+++.-  +     .+   .+....-       .++-++++.++||+.|.+.++.+.+     +|-
T Consensus       256 isy~~~l~Pt~al~~~r~~i--~-----~~---s~~~s~r-------n~~~~r~l~~~r~~~~~a~nr~ss~-----e~l  313 (497)
T KOG4164|consen  256 ISYKRFLSPTNALFDKRPAI--D-----SK---SRRPSFR-------NGETSRELFIERIEVPQAVNRDSST-----ERL  313 (497)
T ss_pred             eeeccccCchhhhhhccccc--c-----cc---ccccccc-------CCcchhhccceeeccccccCCCccc-----ccc
Confidence            79999999999999887651  1     11   1111111       1134468999999999988875532     222


Q ss_pred             ccccCCccccccCCCCCCCCCCCCCCCCCcccccCcceeEEEeCCeeEEeeccCCchhhHHHHhHHHHHhCCCcccchHh
Q psy14705         81 IAVLDNKAGVDWELGDPYSGPYSPNLLDDPELIAGKHRTLLTFTSYMTSVIDYVRPLDLKKELNDKFKEKFPHIKLTLSK  160 (329)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~YdP~~LDdPel~~GkhRtvl~l~sy~~Svi~yvkp~~LKkeLN~~FrekfP~I~LTLSK  160 (329)
                      -++++            .+..|||++||||+|.+|||++|+.|+|||++||+||+|++|||||||.||||||+|+|||||
T Consensus       314 Gsd~~------------d~~dydasllDdPq~~~gkhk~~l~F~symttvidyVrpsdlKkdmNe~FreKfP~IkLTLSK  381 (497)
T KOG4164|consen  314 GSDIG------------DKCDYDASLLDDPQWPCGKHKRVLIFSSYMTTVIDYVRPSDLKKDMNETFREKFPHIKLTLSK  381 (497)
T ss_pred             cCccc------------cccccCcccccCcccccccccceeEeccccceeEEEechHHHHHHHhHHHHHhCCeeEEeHHH
Confidence            12222            235899999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhcCCcchHHHHHHHHHHHHHHHHhhhcccccchhHHHHHHHHhhhcCcchhhHHHHHHHHHHHHhh
Q psy14705        161 LRSLKREMRKIAKVDNSNLELLTVAQAYVYFEKLILLALINKENRKLCAGACLLLSAKLNDVKGDALKTLIEKTENIFRL  240 (329)
Q Consensus       161 lRsLKrem~~Ia~~~~~~ld~~TVA~A~VYFERLvLkg~V~K~NRKLvAaACLLLAaK~ne~k~~~Lk~lie~ie~~fri  240 (329)
                      ||||||||++|+ +.| +||++|||+||||||||||+|+++|+|||||||||||||+||||.++..+|.+|+++|++||+
T Consensus       382 irSlKREMr~l~-~d~-~id~~TVa~AyVYFEKliLkglisK~NRKlcAGAclLlaaKmnD~Kks~vKslIek~Ee~fR~  459 (497)
T KOG4164|consen  382 IRSLKREMRELG-EDC-GIDVVTVAMAYVYFEKLILKGLISKQNRKLCAGACLLLAAKMNDLKKSTVKSLIEKLEEQFRL  459 (497)
T ss_pred             HHHHHHHHHHhh-hcc-CccceeehhHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhcc
Confidence            999999999999 566 999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chhHHHHhHHHHHHHhhccccCCccchhHHHHHHHHhh
Q psy14705        241 NRKDLFAAEFAVLVALEFGLHLPTWDILPHFQRLTYEK  278 (329)
Q Consensus       241 ~rKdLL~~Ef~VL~aLeFsL~vP~~eV~pH~~RLl~e~  278 (329)
                      ||+||+++||+||++|||.|++|.++|+|||+||++|+
T Consensus       460 nrrdLia~Ef~VlvaLefaL~~~~~eVlPHy~RL~~e~  497 (497)
T KOG4164|consen  460 NRRDLIAFEFPVLVALEFALHLPEHEVLPHYRRLQQES  497 (497)
T ss_pred             cHHhhhhhhhhHHHhhhhhccCChhhcchHHHHHhhcC
Confidence            99999999999999999999999999999999999864

>KOG4164|consensus Back     alignment and domain information
>KOG0794|consensus Back     alignment and domain information
>TIGR00569 ccl1 cyclin ccl1 Back     alignment and domain information
>PF00134 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR006671 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) Back     alignment and domain information
>KOG0834|consensus Back     alignment and domain information
>COG5333 CCL1 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair] Back     alignment and domain information
>KOG0835|consensus Back     alignment and domain information
>cd00043 CYCLIN Cyclin box fold Back     alignment and domain information
>KOG2496|consensus Back     alignment and domain information
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>KOG0656|consensus Back     alignment and domain information
>PRK00423 tfb transcription initiation factor IIB; Reviewed Back     alignment and domain information
>KOG0653|consensus Back     alignment and domain information
>PF08613 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) Back     alignment and domain information
>COG5024 Cyclin [Cell division and chromosome partitioning] Back     alignment and domain information
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) Back     alignment and domain information
>KOG0655|consensus Back     alignment and domain information
>KOG1674|consensus Back     alignment and domain information
>PRK00423 tfb transcription initiation factor IIB; Reviewed Back     alignment and domain information
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription] Back     alignment and domain information
>KOG1597|consensus Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query329
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-05
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
 Score = 46.0 bits (108), Expect = 1e-05
 Identities = 59/377 (15%), Positives = 106/377 (28%), Gaps = 109/377 (28%)

Query: 3   YGALLTPSRYQSKDR----------KESDVGDTPHSAKSYSTRCFSYDAGTLR-AVSNLI 51
           Y  L++P + + +            ++    D    AK   +R   Y    LR A+  L 
Sbjct: 91  YKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLK--LRQALLELR 148

Query: 52  PASPPI----AGCFSYDAG--TLRAVSNLIPASPPIAVLDNKAGVDW-ELGDPYSGPYSP 104
           PA   +     G      G   +    ++  +      +D    + W  L          
Sbjct: 149 PAKNVLIDGVLGS-----GKTWV--ALDVCLSYKVQCKMDF--KIFWLNLK--------- 190

Query: 105 NLLDDPELIAGKHRTLLTFTSYMTSVIDYVRPL-----DLKKELNDKFKEK-FPHIKLTL 158
           N      ++    + L       TS  D+   +      ++ EL    K K + +  L L
Sbjct: 191 NCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVL 250

Query: 159 SKLRSLKREMRKIAKV------------DNSNLELLTVAQAYVYFEKLILLALINKENRK 206
             +++      K                     + L+ A           + L   E + 
Sbjct: 251 LNVQN-----AKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKS 305

Query: 207 LCAGACLLLSAKLNDVKGDALKTLIEKTENIFRLNRKDLFAAEFAVLVALEFGLHLPTWD 266
           L       L  +  D+  + L T      N  RL+   + A              L TWD
Sbjct: 306 LLL---KYLDCRPQDLPREVLTT------NPRRLS---IIAESIRD--------GLATWD 345

Query: 267 ILPHFQRLTYEKFLGGRKTENIFRLNRKDLFAAE----FAVLVALEFGLHLPT------W 316
              +++ +  +K         I   +   L  AE    F  L       H+PT      W
Sbjct: 346 ---NWKHVNCDKL------TTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIW 396

Query: 317 ---------DILPHFQR 324
                     ++    +
Sbjct: 397 FDVIKSDVMVVVNKLHK 413

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query329
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 99.59
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 99.51
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 99.5
2ivx_A257 Cyclin-T2; transcription regulation, cell division 99.45
2pk2_A 358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 99.39
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 99.34
1c9b_A207 General transcription factor IIB; protein-DNA comp 99.3
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 99.16
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 99.1
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 99.09
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 99.08
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 99.07
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 99.02
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 99.02
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 98.97
1ais_B200 TFB TFIIB, protein (transcription initiation facto 98.92
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 98.58
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 97.77
2pmi_B293 PHO85 cyclin PHO80, aminoglycoside anti; cyclin-de 96.9
1ais_B200 TFB TFIIB, protein (transcription initiation facto 94.58
1c9b_A207 General transcription factor IIB; protein-DNA comp 91.85
>1jkw_A Cyclin H; cell cycle, cell division, nuclear protein; 2.60A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1kxu_A Back     alignment and structure
Probab=99.59  E-value=2e-15  Score=142.41  Aligned_cols=174  Identities=16%  Similarity=0.180  Sum_probs=124.1

Q ss_pred             hHHHHhHHHHHhCC--------Cc-ccchHhHHHHHHHHHH----HHhhhcCC--cchHHHHHHHHHHHHHHHHhhhccc
Q psy14705        139 LKKELNDKFKEKFP--------HI-KLTLSKLRSLKREMRK----IAKVDNSN--LELLTVAQAYVYFEKLILLALINKE  203 (329)
Q Consensus       139 LKkeLN~~FrekfP--------~I-~LTLSKlRsLKrem~~----Ia~~~~~~--ld~~TVA~A~VYFERLvLkg~V~K~  203 (329)
                      ++.+.|+.|+++++        .+ -||..+-+.+++....    ++...  +  +-+.|+++|.+||.|++.++++.+.
T Consensus        22 ~r~~~n~~~~~~~~~~~~~~~~~~~~lt~eeE~~lr~~~~~~I~ev~~~l--~~~Lp~~t~~tA~~~~~RF~~~~s~~~~   99 (323)
T 1jkw_A           22 LRADANRKFRCKAVANGKVLPNDPVFLEPHEEMTLCKYYEKRLLEFCSVF--KPAMPRSVVGTACMYFKRFYLNNSVMEY   99 (323)
T ss_dssp             HHHHHHHHHHHHHHHTSSSCTTCTTSCCHHHHHHHHHHHHHHHHHHHHHC--TTTCCHHHHHHHHHHHHHHGGGSCTTTS
T ss_pred             HHHHHHHHHHHHHhhccCCCccccCCCCHHHHHHHHHHHHHHHHHHHHHH--cCCCCHHHHHHHHHHHHHHhhhCChhhc
Confidence            46889999999983        12 2899999999987654    44433  5  8899999999999999999999999


Q ss_pred             ccchhHHHHHHHHhhhcCcchhhHHHHHHHHH---HHHhhchhHHHHhHHHHHHHhhccccC--CccchhHHHHHHHHhh
Q psy14705        204 NRKLCAGACLLLSAKLNDVKGDALKTLIEKTE---NIFRLNRKDLFAAEFAVLVALEFGLHL--PTWDILPHFQRLTYEK  278 (329)
Q Consensus       204 NRKLvAaACLLLAaK~ne~k~~~Lk~lie~ie---~~fri~rKdLL~~Ef~VL~aLeFsL~v--P~~eV~pH~~RLl~e~  278 (329)
                      +..++|+|||+||+|++|.+. .++.++..+.   .....++++|+.+|+.||.+|+|+|.+  |+..+...++.+... 
T Consensus       100 ~~~lva~acLfLA~K~EE~~~-~l~d~v~~~~~~p~~~~~~~~~Il~~E~~iL~~L~f~l~v~~P~~~L~~~l~~l~~~-  177 (323)
T 1jkw_A          100 HPRIIMLTCAFLACKVDEFNV-SSPQFVGNLRESPLGQEKALEQILEYELLLIQQLNFHLIVHNPYRPFEGFLIDLKTR-  177 (323)
T ss_dssp             CHHHHHHHHHHHHHHHTTCCC-CHHHHGGGSSSCHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSHHHHHHHHHHHHHH-
T ss_pred             CHHHHHHHHHHHHHhhhcCCC-CHHHHHHHhccChhhhHHHHHHHHHHHHHHHHHCCCcEEcCChHHHHHHHHHHHHHH-
Confidence            999999999999999999864 2344332221   012346899999999999999999997  666654444433211 


Q ss_pred             hcCC---ccc-hhccccc----cchhhhhhhHHHHHHH--------hcccCCcc
Q psy14705        279 FLGG---RKT-ENIFRLN----RKDLFAAEFAVLVALE--------FGLHLPTW  316 (329)
Q Consensus       279 ~~g~---~k~-e~~~r~~----r~dl~~~e~~~lvaL~--------~~l~~p~~  316 (329)
                      ..|.   +.+ .-.|.+.    +.+++..+.|-.||+-        .|..+|.|
T Consensus       178 ~~~~~~~~~l~~~A~~~l~~sl~t~~~l~~~Ps~IAaAai~lA~~~~~~~~~~w  231 (323)
T 1jkw_A          178 YPILENPEILRKTADDFLNRIALTDAYLLYTPSQIALTAILSSASRAGITMESY  231 (323)
T ss_dssp             CTTCCCHHHHHHHHHHHHHHHTTSTHHHHSCHHHHHHHHHHHHHHHHSCCCTTH
T ss_pred             hccCCCHHHHHHHHHHHHHHHHhccHHHcCCHHHHHHHHHHHHHHHcCCChHHH
Confidence            0111   111 2233333    7888888888777754        44556765
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} Back     alignment and structure
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe} Back     alignment and structure
>2ivx_A Cyclin-T2; transcription regulation, cell division, phosphorylation, NU protein, cell cycle, transcription; 1.8A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_A 3mi9_B* 3mia_B* 3tnh_B* 3tni_B* 3blh_B* 3blq_B* 3blr_B* 3lq5_B* 3my1_B* 3tn8_B* Back     alignment and structure
>2pk2_A Cyclin-T1, protein TAT; TAR, twinning, transcription regulation P- TEFB, cell cycle; 2.67A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_C Back     alignment and structure
>2i53_A Cyclin K; cell cycle, transcription, cyclin BOX, CDK9, positive transcription elongation factor, P-TEFB; 1.50A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>1c9b_A General transcription factor IIB; protein-DNA complex, cyclin-like fold, helix-turn-helix, transcription/DNA complex; 2.65A {Homo sapiens} SCOP: a.74.1.2 a.74.1.2 PDB: 1tfb_A 2phg_A 1vol_A* Back     alignment and structure
>3g33_B CCND3 protein; Ser/Thr protein kinase, cell cycle, phosphorylation, ATP-BIN cell division, disease mutation, kinase; 3.00A {Homo sapiens} Back     alignment and structure
>1g3n_C V-cyclin; cyclin-dependent kinase, INK4 inhibitor, viral cyclin, cell cycle, signaling protein; 2.90A {Human herpesvirus 8} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>2cch_B Cyclin A2, cyclin-A; complex(transferase/cell division), ATP-binding, CDK2, cell cycle, cyclin, mitosis, nuclear protein; HET: TPO ATP; 1.7A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1fvv_B* 1jsu_B* 1okv_B 1okw_B* 1ol1_B* 1ol2_B* 1urc_B 1fin_B* 2c5p_B* 2c5o_B* 2i40_B* 2wev_B* 2wfy_B 2whb_B* 3eid_B* 3ej1_B* 3eoc_B* 2wha_B* 2x1n_B* 1vyw_B* ... Back     alignment and structure
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B* Back     alignment and structure
>2w96_A G1/S-specific cyclin-D1; serine/threonine-protein kinase, chromosomal rearrangement, ATP-binding, transferase, polymorphism, cell division; 2.30A {Homo sapiens} PDB: 2w99_A 2w9f_A 2w9z_A Back     alignment and structure
>1w98_B Cyclin E, G1/S-specific cyclin E1; cell cycle, transferase; HET: TPO; 2.15A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>2f2c_A Cyclin homolog, V-cyclin; small molecule inhibitor bound between N-terminal and C-TERM domain of kinase, cell cycle-transferase complex; HET: AP9; 2.80A {Herpesvirus saimiri} SCOP: a.74.1.1 a.74.1.1 PDB: 1jow_A* 2euf_A* 1xo2_A* 1bu2_A Back     alignment and structure
>1f5q_B Gamma herpesvirus cyclin; herpesviral cyclin, cyclin dependent kinase. protein/protein complex, transferase; 2.50A {Murid herpesvirus 4} SCOP: a.74.1.1 a.74.1.1 Back     alignment and structure
>1ais_B TFB TFIIB, protein (transcription initiation factor IIB); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: a.74.1.2 a.74.1.2 PDB: 1d3u_B* Back     alignment and structure
>3k7a_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, DNA-binding, DNA- directed RNA polymerase, isopeptide bond, magnesium; 3.80A {Saccharomyces cerevisiae} Back     alignment and structure
>4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M Back     alignment and structure
>2pmi_B PHO85 cyclin PHO80, aminoglycoside anti; cyclin-dependent kinase, signaling protein,transfera cycle complex; HET: MES AGS; 2.90A {Saccharomyces cerevisiae} PDB: 2pk9_B* Back     alignment and structure
>1ais_B TFB TFIIB, protein (transcription initiation factor IIB); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: a.74.1.2 a.74.1.2 PDB: 1d3u_B* Back     alignment and structure
>1c9b_A General transcription factor IIB; protein-DNA complex, cyclin-like fold, helix-turn-helix, transcription/DNA complex; 2.65A {Homo sapiens} SCOP: a.74.1.2 a.74.1.2 PDB: 1tfb_A 2phg_A 1vol_A* Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 329
d1jkwa1151 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo s 4e-14
d2ivxa1143 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) 5e-05
d1w98b2140 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human 5e-05
d2i53a1144 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) 6e-04
>d1jkwa1 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Length = 151 Back     information, alignment and structure

class: All alpha proteins
fold: Cyclin-like
superfamily: Cyclin-like
family: Cyclin
domain: Cyclin H (mcs2)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 66.6 bits (162), Expect = 4e-14
 Identities = 20/139 (14%), Positives = 50/139 (35%), Gaps = 15/139 (10%)

Query: 138 DLKKELNDKFKEK-------------FPHIKLTLSKLRSLKREMRKIAKVDNSNLELLTV 184
            L+ + N KF+ K             F      ++  +  ++ + +   V    +    V
Sbjct: 11  RLRADANRKFRCKAVANGKVLPNDPVFLEPHEEMTLCKYYEKRLLEFCSVFKPAMPRSVV 70

Query: 185 AQAYVYFEKLILLALINKENRKLCAGACLLLSAKLND--VKGDALKTLIEKTENIFRLNR 242
             A +YF++  L   + + + ++    C  L+ K+++  V        + ++        
Sbjct: 71  GTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLRESPLGQEKAL 130

Query: 243 KDLFAAEFAVLVALEFGLH 261
           + +   E  ++  L F L 
Sbjct: 131 EQILEYELLLIQQLNFHLI 149
>d2ivxa1 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Length = 143 Back     information, alignment and structure
>d1w98b2 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human (Homo sapiens) [TaxId: 9606]} Length = 140 Back     information, alignment and structure
>d2i53a1 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Length = 144 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 ?
Query329
d1jkwa1151 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 99.78
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 99.52
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 99.44
d1w98b2140 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 99.03
d2cchb1128 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 98.99
d1f5qb1141 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 98.85
d1bu2a1127 Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 98.84
d1g3nc1132 Viral cyclin {Kaposi's sarcoma-associated herpesvi 98.79
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 97.76
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 97.31
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 96.13
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 95.66
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 82.63
>d1jkwa1 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: All alpha proteins
fold: Cyclin-like
superfamily: Cyclin-like
family: Cyclin
domain: Cyclin H (mcs2)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=1.8e-19  Score=150.51  Aligned_cols=125  Identities=16%  Similarity=0.260  Sum_probs=95.7

Q ss_pred             hhhHHHHhHHHHHhC-------CC-c-ccchHhHHH----HHHHHHHHHhhhcCCcchHHHHHHHHHHHHHHHHhhhccc
Q psy14705        137 LDLKKELNDKFKEKF-------PH-I-KLTLSKLRS----LKREMRKIAKVDNSNLELLTVAQAYVYFEKLILLALINKE  203 (329)
Q Consensus       137 ~~LKkeLN~~Frekf-------P~-I-~LTLSKlRs----LKrem~~Ia~~~~~~ld~~TVA~A~VYFERLvLkg~V~K~  203 (329)
                      .++|++.|++|+++.       |. . -+|.++-+.    ....|.+++.....++.+.|+|+|.+||+|+++++++.+.
T Consensus        10 ~~lr~~~n~~~~~~~~~~~~~~~~~~~~l~~~ee~~l~~~~~~~l~~~~~~~k~~l~~~~~~tA~~~~~RF~~~~s~~~~   89 (151)
T d1jkwa1          10 ARLRADANRKFRCKAVANGKVLPNDPVFLEPHEEMTLCKYYEKRLLEFCSVFKPAMPRSVVGTACMYFKRFYLNNSVMEY   89 (151)
T ss_dssp             HHHHHHHHHHHHHHHHHTSSSCTTCTTSCCHHHHHHHHHHHHHHHHHHHHHCTTTCCHHHHHHHHHHHHHHGGGSCTTTS
T ss_pred             HHHHHHHHHHHHHHHHhhcccCcccccCCCHHHHHHHHHHHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHhhcCccccc
Confidence            368899999999994       11 1 155554444    4455666766432258899999999999999999999999


Q ss_pred             ccchhHHHHHHHHhhhcCcchhhHHHHH---HHHHHHHhhchhHHHHhHHHHHHHhhccccC
Q psy14705        204 NRKLCAGACLLLSAKLNDVKGDALKTLI---EKTENIFRLNRKDLFAAEFAVLVALEFGLHL  262 (329)
Q Consensus       204 NRKLvAaACLLLAaK~ne~k~~~Lk~li---e~ie~~fri~rKdLL~~Ef~VL~aLeFsL~v  262 (329)
                      |++++|+|||+||+|++|.... +..++   ......+..++++|+.+|+.||.+|+|+|.|
T Consensus        90 ~~~li~~acl~LA~K~ee~~~~-~~~~~~~~~~~~~~~~~~~~~i~~~E~~iL~~L~f~L~V  150 (151)
T d1jkwa1          90 HPRIIMLTCAFLACKVDEFNVS-SPQFVGNLRESPLGQEKALEQILEYELLLIQQLNFHLIV  150 (151)
T ss_dssp             CHHHHHHHHHHHHHHHTTCCCC-HHHHGGGSSSCHHHHHHHHHHHHHHHHHHHHHTTTCCCC
T ss_pred             cHHHHHHHHHHHHHHHcccCCC-HHHHHHHHHhhcccccccHHHHHHHHHHHHHHcCCeeee
Confidence            9999999999999999997542 22222   1223456778999999999999999999975
>d2ivxa1 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2i53a1 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1w98b2 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cchb1 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} Back     information, alignment and structure
>d1f5qb1 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesvirus 68 [TaxId: 33708]} Back     information, alignment and structure
>d1bu2a1 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} Back     information, alignment and structure
>d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]} Back     information, alignment and structure
>d1vola1 a.74.1.2 (A:113-207) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1aisb1 a.74.1.2 (B:1108-1205) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Back     information, alignment and structure
>d1vola2 a.74.1.2 (A:208-316) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2i53a2 a.74.1.1 (A:158-267) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure