Citrus Sinensis ID: 045984

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-------
QYIERIFKYSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIGGISTAEMNKLELNFLFTLEFKLHVTTEVFAKYCSQLDMEGAAAEESWVPDTSKPTGNL
cHHHHHHHHccccHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHcccccccccccccccccHHHHHHHHHHHHHHccccEEEcHHHHHHHHHHHHHHHHHHHHccccccccccccc
cHHHHHHHHccccHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHcHHHccHHHHHEcccccHHHHHHHHHHHHHHccccEEccHHHHHHHHHHHHHHHHHcccccccccccccccc
qyierifkysrcspscsVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAkfvddecynnayyakIGGISTAEMNKLELNFLFTLEFKLHVTTEVFAKYCSQLdmegaaaeeswvpdtskptgnl
qyierifkysrcspscSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIGGISTAEMNKLELNFLFTLEFKLHVTTEVFAKYCSQLDMEGAaaeeswvpdtskptgnl
QYIERIFKYSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIGGISTAEMNKLELNFLFTLEFKLHVTTEVFAKYCSQLDMEGAAAEESWVPDTSKPTGNL
**IERIFKYSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIGGISTAEMNKLELNFLFTLEFKLHVTTEVFAKYCSQLDM********************
QYIERIFKYSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIGGISTAEMNKLELNFLFTLEFKLHVTTEVFAKYCSQLDM********************
QYIERIFKYSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIGGISTAEMNKLELNFLFTLEFKLHVTTEVFAKYCSQLDME*******************
QYIERIFKYSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIGGISTAEMNKLELNFLFTLEFKLHVTTEVFAKYCSQLDMEGAAA***************
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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QYIERIFKYSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIGGISTAEMNKLELNFLFTLEFKLHVTTEVFAKYCSQLDMEGAAAEESWVPDTSKPTGNL
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 ?
Query127 2.2.26 [Sep-21-2011]
Q75HV0236 Cyclin-P3-1 OS=Oryza sati yes no 0.842 0.453 0.616 9e-34
Q7XC35212 Cyclin-P4-1 OS=Oryza sati no no 0.952 0.570 0.565 2e-33
O80513202 Cyclin-U4-1 OS=Arabidopsi yes no 0.842 0.529 0.657 5e-33
Q9LY16216 Cyclin-U4-2 OS=Arabidopsi no no 0.842 0.495 0.611 2e-32
Q8LB60221 Cyclin-U3-1 OS=Arabidopsi no no 0.858 0.493 0.532 2e-31
Q9FKF6219 Cyclin-U4-3 OS=Arabidopsi no no 0.858 0.497 0.581 8e-30
Q9SHD3222 Cyclin-U2-1 OS=Arabidopsi no no 0.842 0.481 0.527 3e-28
Q9M205230 Cyclin-U2-2 OS=Arabidopsi no no 0.842 0.465 0.527 9e-28
Q9LJ45210 Cyclin-U1-1 OS=Arabidopsi no no 0.850 0.514 0.504 2e-24
Q7FAT5217 Cyclin-P2-1 OS=Oryza sati no no 0.834 0.488 0.472 7e-23
>sp|Q75HV0|CCP31_ORYSJ Cyclin-P3-1 OS=Oryza sativa subsp. japonica GN=CYCP3-1 PE=3 SV=1 Back     alignment and function desciption
 Score =  142 bits (357), Expect = 9e-34,   Method: Compositional matrix adjust.
 Identities = 66/107 (61%), Positives = 83/107 (77%)

Query: 2   YIERIFKYSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDECYN 61
           Y ERIFKYS CSPSC V+A IY++R+LQ+    +T L+VHRLLITS +VAAKF DD  +N
Sbjct: 82  YAERIFKYSECSPSCFVLALIYMERYLQQPHVYMTSLSVHRLLITSVVVAAKFTDDAFFN 141

Query: 62  NAYYAKIGGISTAEMNKLELNFLFTLEFKLHVTTEVFAKYCSQLDME 108
           NA+YA++GGIST EMN+LEL+ LF L+F+L V  E F  YC QL+ E
Sbjct: 142 NAFYARVGGISTVEMNRLELDLLFNLDFRLKVDLETFGSYCLQLEKE 188

Oryza sativa subsp. japonica (taxid: 39947)
>sp|Q7XC35|CCP41_ORYSJ Cyclin-P4-1 OS=Oryza sativa subsp. japonica GN=CYCP4-1 PE=2 SV=1 Back     alignment and function description
>sp|O80513|CCU41_ARATH Cyclin-U4-1 OS=Arabidopsis thaliana GN=CYCU4-1 PE=1 SV=1 Back     alignment and function description
>sp|Q9LY16|CCU42_ARATH Cyclin-U4-2 OS=Arabidopsis thaliana GN=CYCU4-2 PE=1 SV=1 Back     alignment and function description
>sp|Q8LB60|CCU31_ARATH Cyclin-U3-1 OS=Arabidopsis thaliana GN=CYCU3-1 PE=1 SV=2 Back     alignment and function description
>sp|Q9FKF6|CCU43_ARATH Cyclin-U4-3 OS=Arabidopsis thaliana GN=CYCU4-3 PE=1 SV=1 Back     alignment and function description
>sp|Q9SHD3|CCU21_ARATH Cyclin-U2-1 OS=Arabidopsis thaliana GN=CYCU2-1 PE=1 SV=1 Back     alignment and function description
>sp|Q9M205|CCU22_ARATH Cyclin-U2-2 OS=Arabidopsis thaliana GN=CYCU2-2 PE=1 SV=1 Back     alignment and function description
>sp|Q9LJ45|CCU11_ARATH Cyclin-U1-1 OS=Arabidopsis thaliana GN=CYCU1-1 PE=1 SV=1 Back     alignment and function description
>sp|Q7FAT5|CCP21_ORYSJ Cyclin-P2-1 OS=Oryza sativa subsp. japonica GN=CYCP2-1 PE=2 SV=1 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query127
225436916226 PREDICTED: cyclin-P3-1-like isoform 1 [V 0.929 0.522 0.661 9e-40
225436914 247 PREDICTED: cyclin-P3-1-like isoform 2 [V 0.881 0.453 0.687 1e-39
255542622221 cyclin-dependent protein kinase, putativ 0.850 0.488 0.666 1e-38
255559444219 cyclin-dependent protein kinase, putativ 0.929 0.538 0.610 1e-37
356572186 246 PREDICTED: cyclin-P3-1-like [Glycine max 0.866 0.447 0.627 6e-36
118481461169 unknown [Populus trichocarpa] 0.921 0.692 0.598 1e-35
356503545 267 PREDICTED: cyclin-P3-1-like [Glycine max 0.866 0.411 0.618 2e-35
255645377 246 unknown [Glycine max] 0.866 0.447 0.627 2e-35
224082636219 predicted protein [Populus trichocarpa] 0.921 0.534 0.589 2e-35
356571121176 PREDICTED: cyclin-P3-1-like [Glycine max 0.826 0.596 0.657 3e-35
>gi|225436916|ref|XP_002274682.1| PREDICTED: cyclin-P3-1-like isoform 1 [Vitis vinifera] Back     alignment and taxonomy information
 Score =  167 bits (424), Expect = 9e-40,   Method: Compositional matrix adjust.
 Identities = 78/118 (66%), Positives = 93/118 (78%)

Query: 1   QYIERIFKYSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDECY 60
           QYI+RIFKYS CSPSC VVA+IY+DRFLQ     LT LNVHRLLITS +VAAKF+DD  +
Sbjct: 86  QYIDRIFKYSGCSPSCFVVAHIYVDRFLQHTDAHLTSLNVHRLLITSVMVAAKFIDDAFF 145

Query: 61  NNAYYAKIGGISTAEMNKLELNFLFTLEFKLHVTTEVFAKYCSQLDMEGAAAEESWVP 118
           NNAYYAK+GG+STAE+N+LE+ FLF+L+F+L VT E F  YCSQLD E A   +   P
Sbjct: 146 NNAYYAKVGGVSTAELNRLEMKFLFSLDFRLQVTVETFRSYCSQLDKEVAGGLQIERP 203

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|225436914|ref|XP_002274732.1| PREDICTED: cyclin-P3-1-like isoform 2 [Vitis vinifera] Back     alignment and taxonomy information
>gi|255542622|ref|XP_002512374.1| cyclin-dependent protein kinase, putative [Ricinus communis] gi|223548335|gb|EEF49826.1| cyclin-dependent protein kinase, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|255559444|ref|XP_002520742.1| cyclin-dependent protein kinase, putative [Ricinus communis] gi|223540127|gb|EEF41704.1| cyclin-dependent protein kinase, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|356572186|ref|XP_003554251.1| PREDICTED: cyclin-P3-1-like [Glycine max] Back     alignment and taxonomy information
>gi|118481461|gb|ABK92673.1| unknown [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356503545|ref|XP_003520568.1| PREDICTED: cyclin-P3-1-like [Glycine max] Back     alignment and taxonomy information
>gi|255645377|gb|ACU23185.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|224082636|ref|XP_002306774.1| predicted protein [Populus trichocarpa] gi|222856223|gb|EEE93770.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356571121|ref|XP_003553729.1| PREDICTED: cyclin-P3-1-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 ?
Query127
TAIR|locus:2042421202 CYCP4;1 "AT2G44740" [Arabidops 0.842 0.529 0.648 2e-31
TAIR|locus:2183394216 CYCP4;3 "cyclin p4;3" [Arabido 0.842 0.495 0.611 5.4e-31
TAIR|locus:1009023243212 AT3G05327 [Arabidopsis thalian 0.850 0.509 0.575 2.3e-30
TAIR|locus:2099192221 CYCP1;1 "cyclin p1;1" [Arabido 0.842 0.484 0.542 6.2e-30
TAIR|locus:2151656219 CYCP4;2 "CYCLIN P4;2" [Arabido 0.858 0.497 0.581 5.6e-29
TAIR|locus:2088743210 CYCP2;1 "cyclin p2;1" [Arabido 0.850 0.514 0.504 3.1e-28
TAIR|locus:2055552222 cycp3;1 "cyclin p3;1" [Arabido 0.842 0.481 0.527 6.4e-28
TAIR|locus:2103391230 CYCP3;2 "cyclin p3;2" [Arabido 0.842 0.465 0.527 2.2e-27
DICTYBASE|DDB_G0286485 398 DDB_G0286485 "PHO85 cyclin-2" 0.787 0.251 0.45 1.1e-21
DICTYBASE|DDB_G0280425333 DDB_G0280425 [Dictyostelium di 0.834 0.318 0.405 2.4e-21
TAIR|locus:2042421 CYCP4;1 "AT2G44740" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 345 (126.5 bits), Expect = 2.0e-31, P = 2.0e-31
 Identities = 70/108 (64%), Positives = 80/108 (74%)

Query:     2 YIERIFKYSRCSPSCSVVAYIYLDRFLQRISGC-LTRLNVHRLLITSFLVAAKFVDDECY 60
             Y+ERIFKY+ CSPSC VVAY+YLDRF  R     +   NVHRLLITS +VAAKF+DD  Y
Sbjct:    57 YLERIFKYANCSPSCFVVAYVYLDRFTHRQPSLPINSFNVHRLLITSVMVAAKFLDDLYY 116

Query:    61 NNAYYAKIGGISTAEMNKLELNFLFTLEFKLHVTTEVFAKYCSQLDME 108
             NNAYYAK+GGIST EMN LEL+FLF L F+L+VT   F  Y S L  E
Sbjct:   117 NNAYYAKVGGISTKEMNFLELDFLFGLGFELNVTPNTFNAYFSYLQKE 164
GO:0004693 "cyclin-dependent protein serine/threonine kinase activity" evidence=ISS
GO:0051726 "regulation of cell cycle" evidence=ISS
GO:0005515 "protein binding" evidence=IPI
GO:0010440 "stomatal lineage progression" evidence=RCA
TAIR|locus:2183394 CYCP4;3 "cyclin p4;3" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:1009023243 AT3G05327 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2099192 CYCP1;1 "cyclin p1;1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2151656 CYCP4;2 "CYCLIN P4;2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2088743 CYCP2;1 "cyclin p2;1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2055552 cycp3;1 "cyclin p3;1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2103391 CYCP3;2 "cyclin p3;2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0286485 DDB_G0286485 "PHO85 cyclin-2" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0280425 DDB_G0280425 [Dictyostelium discoideum (taxid:44689)] 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 ?
Query127
pfam08613140 pfam08613, Cyclin, Cyclin 6e-31
pfam00134127 pfam00134, Cyclin_N, Cyclin, N-terminal domain 2e-14
>gnl|CDD|204002 pfam08613, Cyclin, Cyclin Back     alignment and domain information 
 Score =  107 bits (268), Expect = 6e-31
 Identities = 46/94 (48%), Positives = 63/94 (67%), Gaps = 3/94 (3%)

Query: 1   QYIERIFKYSRCSPSCSVVAYIYLDRFLQRISG---CLTRLNVHRLLITSFLVAAKFVDD 57
           QY+ RI KY   SP   + A IYLDR ++R       +T LNVHRLL+T+  VA KF+ D
Sbjct: 47  QYLSRIQKYCPTSPDVLLSALIYLDRIVKRCDKPTITVTSLNVHRLLLTALTVATKFLSD 106

Query: 58  ECYNNAYYAKIGGISTAEMNKLELNFLFTLEFKL 91
             Y+N+ +AK+GGIS  E+N LE++FLF ++F L
Sbjct: 107 GSYSNSRFAKVGGISLHELNHLEIDFLFLVDFDL 140

This family includes many different cyclin proteins. Members include the G1/S-specific cyclin pas1, and the phosphate system cyclin PHO80/PHO85. Length = 140
>gnl|CDD|215740 pfam00134, Cyclin_N, Cyclin, N-terminal domain Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 127
PF08613149 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eu 99.97
KOG1674218 consensus Cyclin [General function prediction only 99.9
KOG1675343 consensus Predicted cyclin [General function predi 99.83
PF00134127 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR 99.52
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 99.03
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 98.96
KOG0656 335 consensus G1/S-specific cyclin D [Cell cycle contr 98.54
KOG0653 391 consensus Cyclin B and related kinase-activating p 98.46
TIGR00569 305 ccl1 cyclin ccl1. University). 98.1
COG5024440 Cyclin [Cell division and chromosome partitioning] 98.07
KOG0655 408 consensus G1/S-specific cyclin E [Cell cycle contr 98.06
COG5333 297 CCL1 Cdk activating kinase (CAK)/RNA polymerase II 97.6
KOG4164497 consensus Cyclin ik3-1/CABLES [Cell cycle control, 97.33
PRK00423310 tfb transcription initiation factor IIB; Reviewed 96.46
KOG0794264 consensus CDK8 kinase-activating protein cyclin C 96.21
KOG0835 367 consensus Cyclin L [General function prediction on 95.9
KOG0834 323 consensus CDK9 kinase-activating protein cyclin T 95.75
KOG2496 325 consensus Cdk activating kinase (CAK)/RNA polymera 94.39
KOG1674218 consensus Cyclin [General function prediction only 94.27
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 92.75
PRK00423310 tfb transcription initiation factor IIB; Reviewed 91.55
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 89.34
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 86.63
KOG0654359 consensus G2/Mitotic-specific cyclin A [Cell cycle 83.36
>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 
Probab=99.97  E-value=4e-31  Score=187.89  Aligned_cols=91  Identities=46%  Similarity=0.873  Sum_probs=76.6

Q ss_pred             ChHHHHHHHcCCCHHHHHHHHHHHHHHhc---cCCcccccccHHHHHHHHHHHhhhhcCCCcccccchhhccCCCHHHHH
Q 045984            1 QYIERIFKYSRCSPSCSVVAYIYLDRFLQ---RISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIGGISTAEMN   77 (127)
Q Consensus         1 ~fl~~i~~~~~~s~~~~i~aliYi~Rl~~---~~~~~~~~~~~~rl~l~alilA~K~~~D~~~~n~~~a~v~g~s~~eln   77 (127)
                      +|+.||+++++++++|+++|++||+|+..   .+++.+++.|+||++++|+|+|+||++|.+++|++|++++|++++|||
T Consensus        56 ~fl~ri~~~~~~s~~~~i~aliYl~Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v~gis~~eln  135 (149)
T PF08613_consen   56 DFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDNTYSNKSWAKVGGISLKELN  135 (149)
T ss_dssp             HHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS---HHHHHHHHTS-HHHHH
T ss_pred             HHHHHHHHHcCCChHHHHHHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHhhcccccccHHHHHhhcCCCHHHHH
Confidence            59999999999999999999999999999   778889999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCce
Q 045984           78 KLELNFLFTLEFKL   91 (127)
Q Consensus        78 ~lE~~fL~~Ld~~L   91 (127)
                      +||++||.+|||+|
T Consensus       136 ~lE~~fL~~l~~~L  149 (149)
T PF08613_consen  136 ELEREFLKLLDYNL  149 (149)
T ss_dssp             HHHHHHHHHTTT--
T ss_pred             HHHHHHHHHCCCcC
Confidence            99999999999997

Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This entry includes cyclin PHO80 and other cyclins that partner with the cyclin-dependent kinase (CDK) PHO85. The PHO80/PHO85 cyclin-cdk complex is used for a regulatory process other than cell-cycle control []. This entry also includes other PHO80-like cyclins that are involved in the cell-cycle control. They belong to the P/U family and interact preferentially with CDKA1 [].; GO: 0019901 protein kinase binding, 0000079 regulation of cyclin-dependent protein kinase activity; PDB: 2PK9_D 2PMI_D.
>KOG1674 consensus Cyclin [General function prediction only] Back     alignment and domain information
>KOG1675 consensus Predicted cyclin [General function prediction only] 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
>cd00043 CYCLIN Cyclin box fold Back     alignment and domain information
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>TIGR00569 ccl1 cyclin ccl1 Back     alignment and domain information
>COG5024 Cyclin [Cell division and chromosome partitioning] Back     alignment and domain information
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning] 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
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>PRK00423 tfb transcription initiation factor IIB; Reviewed Back     alignment and domain information
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription] Back     alignment and domain information
>KOG0835 consensus Cyclin L [General function prediction only] Back     alignment and domain information
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>KOG2496 consensus Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell cycle control, cell division, chromosome partitioning; Transcription; Replication, recombination and repair] Back     alignment and domain information
>KOG1674 consensus Cyclin [General function prediction only] 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
>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
>PF02984 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR004367 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
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning] 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 ?
Query127
2pk9_B293 Structure Of The Pho85-pho80 Cdk-cyclin Complex Of 7e-07
>pdb|2PK9|B Chain B, Structure Of The Pho85-pho80 Cdk-cyclin Complex Of The Phosphate-responsive Signal Transduction Pathway Length = 293 Back     alignment and structure 
Iteration: 1

 Score = 48.9 bits (115), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 31/93 (33%), Positives = 49/93 (52%), Gaps = 3/93 (3%)
Query: 1   QYIERIFKYSRCSPSCSVVAYIYLDRFLQRI--SGCLTRLNVHRLLITSFLVAAKFVDDE 58
            Y  R+ K+S     C ++  +Y    LQ +     L  L  HR L+T+  VA K + D 
Sbjct: 79  NYFIRLTKFSSLE-HCVLMTSLYYIDLLQTVYPDFTLNSLTAHRFLLTATTVATKGLCDS 137
Query: 59  CYNNAYYAKIGGISTAEMNKLELNFLFTLEFKL 91
              NA+YAK+GG+   E+N LE +FL  + +++
Sbjct: 138 FSTNAHYAKVGGVRCHELNILENDFLKRVNYRI 170

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query127
2pmi_B293 PHO85 cyclin PHO80, aminoglycoside anti; cyclin-de 6e-36
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-04
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 2e-04
3g33_B 306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 2e-04
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 4e-04
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 5e-04
>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* Length = 293 Back     alignment and structure
 Score =  123 bits (309), Expect = 6e-36
 Identities = 29/125 (23%), Positives = 53/125 (42%), Gaps = 1/125 (0%)

Query: 1   QYIERIFKYSRCSPSCSVVAYIYLDRFLQRISG-CLTRLNVHRLLITSFLVAAKFVDDEC 59
            Y  R+ K+S       + +  Y+D          L  L  HR L+T+  VA K + D  
Sbjct: 79  NYFIRLTKFSSLEHCVLMTSLYYIDLLQTVYPDFTLNSLTAHRFLLTATTVATKGLCDSF 138

Query: 60  YNNAYYAKIGGISTAEMNKLELNFLFTLEFKLHVTTEVFAKYCSQLDMEGAAAEESWVPD 119
             NA+YAK+GG+   E+N LE +FL  + +++            +   +    +++ +  
Sbjct: 139 STNAHYAKVGGVRCHELNILENDFLKRVNYRIIPRDHNITLCSIEQKQKKFVIDKNALGS 198

Query: 120 TSKPT 124
               +
Sbjct: 199 LDLDS 203
>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
>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 Length = 254 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} Length = 306 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 Length = 271 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 Length = 257 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query127
2pmi_B293 PHO85 cyclin PHO80, aminoglycoside anti; cyclin-de 100.0
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 99.1
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 99.05
3g33_B 306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 99.05
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 99.04
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 99.0
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 98.99
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 98.98
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 98.98
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 98.73
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 98.72
2ivx_A257 Cyclin-T2; transcription regulation, cell division 98.68
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 98.61
2pk2_A 358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 98.51
1jkw_A 323 Cyclin H; cell cycle, cell division, nuclear prote 98.46
1c9b_A207 General transcription factor IIB; protein-DNA comp 98.33
1ais_B200 TFB TFIIB, protein (transcription initiation facto 98.2
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 97.02
1ais_B200 TFB TFIIB, protein (transcription initiation facto 95.53
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 95.47
1c9b_A207 General transcription factor IIB; protein-DNA comp 94.7
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 92.91
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 90.71
2ivx_A257 Cyclin-T2; transcription regulation, cell division 89.35
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 86.89
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 86.76
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 85.6
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 84.78
>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
Probab=100.00  E-value=1.3e-33  Score=217.52  Aligned_cols=105  Identities=28%  Similarity=0.384  Sum_probs=101.6

Q ss_pred             ChHHHHHHHcCCCHHHHHHHHHHHHHHhc-cCCcccccccHHHHHHHHHHHhhhhcCCCcccccchhhccCCCHHHHHHH
Q 045984            1 QYIERIFKYSRCSPSCSVVAYIYLDRFLQ-RISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIGGISTAEMNKL   79 (127)
Q Consensus         1 ~fl~~i~~~~~~s~~~~i~aliYi~Rl~~-~~~~~~~~~~~~rl~l~alilA~K~~~D~~~~n~~~a~v~g~s~~eln~l   79 (127)
                      +|+.||+++++++++|+++|++||+|+.. .+++.+++.|+||++++|+|+|+||+||.+|+|++||+++|++++|||.|
T Consensus        79 ~Yl~RI~k~t~ls~~~ll~ALvYLdRL~~~~p~~~l~~~nvHRLlLtALmlAsK~ldD~~ysN~~wAkVgGisl~ELN~L  158 (293)
T 2pmi_B           79 NYFIRLTKFSSLEHCVLMTSLYYIDLLQTVYPDFTLNSLTAHRFLLTATTVATKGLCDSFSTNAHYAKVGGVRCHELNIL  158 (293)
T ss_dssp             HHHHHHHHTTTCCHHHHHHHHHHHHHHHHHCTTCCCSTTTHHHHHHHHHHHHHHHHCSSCCCHHHHHHHHTSCHHHHHHH
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHHHhhCCCCccCCchHHHHHHHHHHHHHHhccccccChhHhhhccCcCHHHHHHH
Confidence            59999999999999999999999999999 78899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCceeeCHHHHHHHHHHH
Q 045984           80 ELNFLFTLEFKLHVTTEVFAKYCSQL  105 (127)
Q Consensus        80 E~~fL~~Ld~~L~V~~~~~~~~~~~L  105 (127)
                      |++||.+|||+|+|++++|.+|++.+
T Consensus       159 E~eFL~lLdf~L~V~~ee~~~cy~E~  184 (293)
T 2pmi_B          159 ENDFLKRVNYRIIPRDHNITLCSIEQ  184 (293)
T ss_dssp             HHHHHHTTTTCCSCCTTHHHHHHHHS
T ss_pred             HHHHHHHcCCceeeCHHHHHHHHHHH
Confidence            99999999999999999999988755
>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
>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
>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
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B* 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
>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
>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
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe} 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
>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
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} 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
>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
>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
>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
>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
>4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M 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
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} 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
>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
>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
>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
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe} 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

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 127
d1bu2a1127 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saim 6e-05
d1w98b2140 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human 7e-05
d1g3nc1132 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma 5e-04
d2i53a1144 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) 5e-04
d2cchb1128 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [T 6e-04
d1jkwa1151 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo s 0.003
>d1bu2a1 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} Length = 127 Back     information, alignment and structure

class: All alpha proteins
fold: Cyclin-like
superfamily: Cyclin-like
family: Cyclin
domain: Viral cyclin
species: Herpesvirus saimiri [TaxId: 10381]

 Score = 37.6 bits (87), Expect = 6e-05
 Identities = 13/83 (15%), Positives = 29/83 (34%), Gaps = 4/83 (4%)

Query: 11  RCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKI-- 68
               S   ++   LDR+L +  G    L   ++     L+ +K    +    +    +  
Sbjct: 46  ELDKSVFPLSVSILDRYLCKKQGTKKTL--QKIGAACVLIGSKIRTVKPMTVSKLTYLSC 103

Query: 69  GGISTAEMNKLELNFLFTLEFKL 91
              +  E+   E + L  L++  
Sbjct: 104 DCFTNLELINQEKDILEALKWDT 126
>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
>d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]} Length = 132 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
>d2cchb1 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} Length = 128 Back     information, alignment and structure
>d1jkwa1 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Length = 151 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 ?
Query127
d1w98b2140 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 99.32
d2cchb1128 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 99.28
d1bu2a1127 Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 99.25
d1g3nc1132 Viral cyclin {Kaposi's sarcoma-associated herpesvi 99.22
d1f5qb1141 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 99.17
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 99.01
d1jkwa1151 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 98.9
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 98.81
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 97.15
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 96.87
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 96.66
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 96.54
d2cchb2124 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 83.67
>d1w98b2 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: All alpha proteins
fold: Cyclin-like
superfamily: Cyclin-like
family: Cyclin
domain: G1/S-specific cyclin-E1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.32  E-value=5.3e-12  Score=85.95  Aligned_cols=90  Identities=17%  Similarity=0.235  Sum_probs=79.0

Q ss_pred             ChHHHHHHHcCCCHHHHHHHHHHHHHHhc-cCCcccccccHHHHHHHHHHHhhhhcCCCcccccchhhcc--CCCHHHHH
Q 045984            1 QYIERIFKYSRCSPSCSVVAYIYLDRFLQ-RISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIG--GISTAEMN   77 (127)
Q Consensus         1 ~fl~~i~~~~~~s~~~~i~aliYi~Rl~~-~~~~~~~~~~~~rl~l~alilA~K~~~D~~~~n~~~a~v~--g~s~~eln   77 (127)
                      |++.++....+++++++.+|..|+||+.. .+.+  .....+.+.++|+.||+|+-+......+.+..++  .++.+|+.
T Consensus        48 dW~~~v~~~~~l~~et~~lAv~llDryl~~~~~v--~~~~lqL~a~acL~IAsK~ee~~~~~~~~l~~~~~~~~t~~ei~  125 (140)
T d1w98b2          48 DWLMEVCEVYKLHRETFYLAQDFFDRYMATQENV--VKTLLQLIGISSLFIAAKLEEIYPPKLHQFAYVTDGACSGDEIL  125 (140)
T ss_dssp             HHHHHHHHHTTCBHHHHHHHHHHHHHHHHHCCCC--CGGGHHHHHHHHHHHHHHHHCSSCCCHHHHHHTTTTSSCHHHHH
T ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHHHhccccc--cHHHHhHHHHHHHHHHHHHcccCCCCHHHHHHHHcCCCCHHHHH
Confidence            46788999999999999999999999987 4433  4677899999999999999988888888888764  38999999


Q ss_pred             HHHHHHHHhcCCcee
Q 045984           78 KLELNFLFTLEFKLH   92 (127)
Q Consensus        78 ~lE~~fL~~Ld~~L~   92 (127)
                      +||+.+|+.|+|+|+
T Consensus       126 ~mE~~IL~~L~~~Ln  140 (140)
T d1w98b2         126 TMELMIMKALKWRLS  140 (140)
T ss_dssp             HHHHHHHHHTTTCCC
T ss_pred             HHHHHHHHHCCCcCC
Confidence            999999999999985
>d2cchb1 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 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
>d1f5qb1 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesvirus 68 [TaxId: 33708]} 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
>d1jkwa1 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ivxa1 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 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
>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
>d1vola2 a.74.1.2 (A:208-316) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cchb2 a.74.1.1 (B:309-432) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} Back     information, alignment and structure