Query 028611
Match_columns 206
No_of_seqs 140 out of 891
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 14:12:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028611.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028611hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF08613 Cyclin: Cyclin; Inte 100.0 3.1E-34 6.8E-39 230.1 12.5 135 11-145 1-149 (149)
2 KOG1674 Cyclin [General functi 99.9 1.1E-26 2.3E-31 197.5 15.0 162 6-167 28-200 (218)
3 KOG1675 Predicted cyclin [Gene 99.6 1.3E-16 2.9E-21 139.9 5.6 119 48-167 189-308 (343)
4 PF00134 Cyclin_N: Cyclin, N-t 99.4 1.5E-12 3.2E-17 99.6 9.5 93 51-146 33-127 (127)
5 cd00043 CYCLIN Cyclin box fold 98.9 1.5E-08 3.3E-13 70.9 9.5 84 51-138 4-88 (88)
6 smart00385 CYCLIN domain prese 98.7 1.8E-07 4E-12 64.8 8.6 82 54-139 1-83 (83)
7 KOG0656 G1/S-specific cyclin D 98.3 4.9E-06 1.1E-10 75.0 10.2 106 51-156 80-189 (335)
8 KOG0653 Cyclin B and related k 98.0 4.1E-05 8.8E-10 70.5 10.2 93 52-148 161-257 (391)
9 TIGR00569 ccl1 cyclin ccl1. Un 97.8 0.00023 4.9E-09 63.7 11.7 92 52-147 59-156 (305)
10 KOG0655 G1/S-specific cyclin E 97.4 0.00083 1.8E-08 60.6 8.9 96 52-149 148-246 (408)
11 COG5333 CCL1 Cdk activating ki 97.3 0.00076 1.6E-08 60.0 6.6 91 54-147 50-147 (297)
12 COG5024 Cyclin [Cell division 97.2 0.0014 3E-08 61.3 7.7 95 52-149 216-312 (440)
13 KOG4164 Cyclin ik3-1/CABLES [C 96.8 0.0022 4.8E-08 59.0 5.7 108 51-161 384-495 (497)
14 KOG0794 CDK8 kinase-activating 95.2 0.034 7.5E-07 48.1 5.1 97 49-148 41-151 (264)
15 KOG0834 CDK9 kinase-activating 95.1 0.1 2.2E-06 47.2 8.0 110 52-164 42-167 (323)
16 PRK00423 tfb transcription ini 95.1 0.36 7.8E-06 43.1 11.5 96 54-153 127-223 (310)
17 KOG1674 Cyclin [General functi 94.8 0.016 3.4E-07 49.6 1.9 99 69-167 3-111 (218)
18 KOG0835 Cyclin L [General func 93.8 0.83 1.8E-05 41.5 10.5 100 55-158 29-151 (367)
19 KOG2496 Cdk activating kinase 93.7 0.44 9.5E-06 42.8 8.5 95 64-162 73-173 (325)
20 PRK00423 tfb transcription ini 91.8 2.1 4.6E-05 38.2 10.5 94 47-144 214-307 (310)
21 PF00382 TFIIB: Transcription 91.6 2.1 4.6E-05 29.5 8.3 71 56-130 1-71 (71)
22 PF02984 Cyclin_C: Cyclin, C-t 87.7 0.34 7.3E-06 35.7 1.7 88 51-141 2-89 (118)
23 COG1405 SUA7 Transcription ini 78.2 18 0.00039 32.2 9.0 90 47-140 189-278 (285)
24 COG1405 SUA7 Transcription ini 77.0 41 0.00089 30.0 10.9 100 50-153 98-198 (285)
25 KOG0654 G2/Mitotic-specific cy 70.0 8 0.00017 35.6 4.8 97 51-150 139-237 (359)
26 PHA02054 hypothetical protein 61.5 52 0.0011 24.1 6.7 76 10-85 1-85 (94)
27 PF11357 Spy1: Cell cycle regu 53.1 90 0.0019 24.8 7.3 76 72-153 35-115 (131)
28 PF03914 CBF: CBF/Mak21 family 53.1 28 0.00061 27.8 4.7 43 43-85 55-98 (164)
29 PF12921 ATP13: Mitochondrial 39.3 63 0.0014 25.0 4.5 56 52-109 51-106 (126)
30 cd00454 Trunc_globin Truncated 26.2 78 0.0017 23.2 3.0 27 144-170 70-96 (116)
31 COG5189 SFP1 Putative transcri 23.4 1.3E+02 0.0027 27.8 4.2 33 127-161 69-102 (423)
32 KOG2941 Beta-1,4-mannosyltrans 20.0 1.7E+02 0.0037 27.5 4.4 66 127-192 156-227 (444)
No 1
>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). 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.
Probab=100.00 E-value=3.1e-34 Score=230.12 Aligned_cols=135 Identities=48% Similarity=0.822 Sum_probs=101.5
Q ss_pred hHHHHHHHHHHHHHHHhcccCCcC------------CCCCcccccCCCCCChhHHHHHHHHHHHcCCChHHHHHHHHHHH
Q 028611 11 TKLITFLSSFLQRVSESNDINCRF------------QPQKISVFHGLTRPSISIQSYLERIFKYANCSPSCFIVAYVYLD 78 (206)
Q Consensus 11 ~~~~~~ia~~L~~~~~~nd~~~~~------------~~~~~~~F~~~~~P~isi~~fl~rI~~~~~ls~~~~i~ALiYld 78 (206)
+.++..|+.++++++..|+..... .....+.|++..+|.+++.+|+.||+++++|+++|+++|++||+
T Consensus 1 ~~~~~~i~~~l~~~~~~n~~~~~~s~~~~~~~~~~~~~~~~~~F~~~~~p~i~i~~fl~ri~~~~~~s~~~~i~aliYl~ 80 (149)
T PF08613_consen 1 DKLVQSIARQLDRLINNNESTAQSSSSSSSPSSPFQQSPKISQFHSQSVPSISIRDFLSRILKYTQCSPECLILALIYLD 80 (149)
T ss_dssp -HHHHHHHHHHHHHHHHHH--------------T---------T--SS--SS-HHHHHHHHHHHTT--HHHHHHHHHHHH
T ss_pred ChHHHHHHHHHHHHhccCchhhhhcccccccccccccccccccccCCCCCCCcHHHHHHHHHHHcCCChHHHHHHHHHHH
Confidence 368999999999999998886532 12456789999999999999999999999999999999999999
Q ss_pred HHhh--hCCCCCCCcccHHHHHHHHHHHHhhhcCCCccccchhhhccCCCHHHHHHHHHHHHHhCCCce
Q 028611 79 RFVQ--RQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKVGGISTIEMNFLELDFLFGLSFHL 145 (206)
Q Consensus 79 Rl~~--~~~~~~l~~~n~~RL~ltalilAsK~~dD~~~sN~~wa~v~gvs~~eLN~LE~~fL~lLdy~L 145 (206)
|+.. ..+++.+++.|+||++++|+|||+||+||.+|+|++|++++|++++|||.||++||.+|||+|
T Consensus 81 Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v~gis~~eln~lE~~fL~~l~~~L 149 (149)
T PF08613_consen 81 RLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDNTYSNKSWAKVGGISLKELNELEREFLKLLDYNL 149 (149)
T ss_dssp HHHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS---HHHHHHHHTS-HHHHHHHHHHHHHHTTT--
T ss_pred HHHHhhcccccccccchhHHHHHHHHHHHHhhcccccccHHHHHhhcCCCHHHHHHHHHHHHHHCCCcC
Confidence 9999 567888999999999999999999999999999999999999999999999999999999997
No 2
>KOG1674 consensus Cyclin [General function prediction only]
Probab=99.95 E-value=1.1e-26 Score=197.50 Aligned_cols=162 Identities=52% Similarity=0.863 Sum_probs=148.8
Q ss_pred CCcchhHHHHHHHHHHHHHHHhcccCCc----CCCCCcccccCCCCCChhHHHHHHHHHHHcCCChHHHHHHHHHHHHHh
Q 028611 6 NPNVMTKLITFLSSFLQRVSESNDINCR----FQPQKISVFHGLTRPSISIQSYLERIFKYANCSPSCFIVAYVYLDRFV 81 (206)
Q Consensus 6 ~~~~~~~~~~~ia~~L~~~~~~nd~~~~----~~~~~~~~F~~~~~P~isi~~fl~rI~~~~~ls~~~~i~ALiYldRl~ 81 (206)
+.-.+|.++..++..+.++.+.|+.... .....++.|++...|++++.+|+.||.++++|+++|+++|++|+||+.
T Consensus 28 ~ss~~p~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~p~isi~~yleri~k~~~~s~~~lv~al~Yldr~~ 107 (218)
T KOG1674|consen 28 NSSITPIFLTCLSSLLKRLNDSNENLSRENNKSWASPTTGFDGVSTPNISIRQYLERIFKYSKCSPECLVLALVYLDRFV 107 (218)
T ss_pred cccccchHHHHHHHHHHHHHhcChhhhcccccccccccccccCCCCCCcchHHHHHHHHHHhcCCchhhhhhhhhhhhhh
Confidence 3456799999999999999999995432 134668999999999999999999999999999999999999999999
Q ss_pred hh------CCCCCCCccc-HHHHHHHHHHHHhhhcCCCccccchhhhccCCCHHHHHHHHHHHHHhCCCceeeCHHHHHH
Q 028611 82 QR------QPSLPINSFN-VHRLLITSVMVAAKFLDDMYYNNAYYAKVGGISTIEMNFLELDFLFGLSFHLNVTPNAFHT 154 (206)
Q Consensus 82 ~~------~~~~~l~~~n-~~RL~ltalilAsK~~dD~~~sN~~wa~v~gvs~~eLN~LE~~fL~lLdy~L~Vs~~~y~~ 154 (206)
+. .+...+++.| +||++++++++|+||.+|.+|+|.+|+++||++.+|||.||.+||..+||++.|+.++|..
T Consensus 108 ~~~~~~~~~~~~~i~s~n~vhR~lit~v~vs~kf~~d~~y~n~~~a~vggl~~~eln~lE~~~l~~~~~~l~i~~~~~~~ 187 (218)
T KOG1674|consen 108 KQPQARSVKPQSLINSLNKVHRLLITTVTVSTKFLDDVYYSNAYYAKVGGLTTDELNKLELDLLFLLDFRLIISRSEFNL 187 (218)
T ss_pred hhhcccccCcccccccchhHHHHHHHHHHHHHhhccchhhhHHHHHHhCCCChHhhhhhhHHHHhhCCeEEEechhHHHH
Confidence 96 6777888999 9999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhcC
Q 028611 155 YCTYLQREMLLLQ 167 (206)
Q Consensus 155 y~~~L~~~~~~~~ 167 (206)
|+..+++.+...+
T Consensus 188 ~~~~~~~~~~~~~ 200 (218)
T KOG1674|consen 188 YEDLLEREENLNK 200 (218)
T ss_pred HHHHHHHHHhccc
Confidence 9999999886554
No 3
>KOG1675 consensus Predicted cyclin [General function prediction only]
Probab=99.65 E-value=1.3e-16 Score=139.95 Aligned_cols=119 Identities=24% Similarity=0.332 Sum_probs=109.3
Q ss_pred CChhHHHHHHHHHHHcCCChHHHHHHHHHHHHHhhhCCCCCCCcccHHHHHHHHHHHHhhhcCCCccccchhhhcc-CCC
Q 028611 48 PSISIQSYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKVG-GIS 126 (206)
Q Consensus 48 P~isi~~fl~rI~~~~~ls~~~~i~ALiYldRl~~~~~~~~l~~~n~~RL~ltalilAsK~~dD~~~sN~~wa~v~-gvs 126 (206)
|..-+..|+..++.+.+++.+|.++.|+|++|+.... +..+++.+|+|..+.++++|+|.|+|..++|-+|+.|. .++
T Consensus 189 ~~~ri~k~v~~l~~~~qlta~~aiitL~~~erl~~~~-e~~~~p~~w~r~~~g~il~sskv~~dqs~wnvdycqIlKd~t 267 (343)
T KOG1675|consen 189 GLVRIKKFVRILFSWAQLTAECDIITLVYAERLLWLA-ERDPCPRNWSRAVLGEILLSSKVYDDQSVWNVDYCEILKDQS 267 (343)
T ss_pred chhheehhhhhHhhhhhhhhccchHHHHhhHhhhhHh-hcCCCcchhhhhhhhhheehhhhhhhhhcccHHHHHHHhhcc
Confidence 4445788999999999999999999999999999853 55678999999999999999999999999999999996 599
Q ss_pred HHHHHHHHHHHHHhCCCceeeCHHHHHHHHHHHHHHHhhcC
Q 028611 127 TIEMNFLELDFLFGLSFHLNVTPNAFHTYCTYLQREMLLLQ 167 (206)
Q Consensus 127 ~~eLN~LE~~fL~lLdy~L~Vs~~~y~~y~~~L~~~~~~~~ 167 (206)
++++|.|||+||.+|+||+.|...+|.+||..|+..+.+..
T Consensus 268 veDmNe~ERqfLelLqfNinvp~svYAKyYfdlr~Lae~n~ 308 (343)
T KOG1675|consen 268 VDDMNALERQFLELLQFNINVPSSEYAKYYFDLRCLAEANP 308 (343)
T ss_pred HhhHHHHHHHHHHHHhhccCccHHHHHHHHHHHhhhccccc
Confidence 99999999999999999999999999999999999876543
No 4
>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). 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 []. Cyclins contain two domains of similar all-alpha fold, of which this entry is associated with the N-terminal domain.; PDB: 2W2H_B 3RGF_B 1KXU_A 1JKW_A 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D ....
Probab=99.41 E-value=1.5e-12 Score=99.61 Aligned_cols=93 Identities=19% Similarity=0.359 Sum_probs=80.2
Q ss_pred hHHHHHHHHHHHcCCChHHHHHHHHHHHHHhhhCCCCCCCcccHHHHHHHHHHHHhhhcCCCccccchhhhccC--CCHH
Q 028611 51 SIQSYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKVGG--ISTI 128 (206)
Q Consensus 51 si~~fl~rI~~~~~ls~~~~i~ALiYldRl~~~~~~~~l~~~n~~RL~ltalilAsK~~dD~~~sN~~wa~v~g--vs~~ 128 (206)
.+.+|+..+....++++.++..|+.|+||+..+.+ +...+++.+.++|+++|+|+.++...+...|..+++ ++.+
T Consensus 33 ~~~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~---~~~~~~~li~~~cl~lA~K~~e~~~~~~~~~~~~~~~~~~~~ 109 (127)
T PF00134_consen 33 IIIDWIIELCQRLKLSPETLHLAIYLFDRFLSKRP---VNRSKLQLIALACLFLASKMEEDNPPSISDLIRISDNTFTKK 109 (127)
T ss_dssp HHHHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS----TTCCGHHHHHHHHHHHHHHHHTSS--HHHHHHHHTTTSSHHH
T ss_pred HHHHHHHHHHHhcccchhHHHHHHHHHHHHHhhcc---cccchhhhhhhhHHHHhhhhhccccchHHHHHHHHcCCCCHH
Confidence 47889999999999999999999999999999764 678899999999999999999998888899888764 7999
Q ss_pred HHHHHHHHHHHhCCCcee
Q 028611 129 EMNFLELDFLFGLSFHLN 146 (206)
Q Consensus 129 eLN~LE~~fL~lLdy~L~ 146 (206)
++..||+.+|..|+|+|+
T Consensus 110 ~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 110 DILEMEREILSALNFDLN 127 (127)
T ss_dssp HHHHHHHHHHHHTTT---
T ss_pred HHHHHHHHHHHHCCCCcC
Confidence 999999999999999985
No 5
>cd00043 CYCLIN Cyclin box fold. Protein binding domain functioning in cell-cycle and transcription control. Present in cyclins, TFIIB and Retinoblastoma (RB).The cyclins consist of 8 classes of cell cycle regulators that regulate cyclin dependent kinases (CDKs). TFIIB is a transcription factor that binds the TATA box. Cyclins, TFIIB and RB contain 2 copies of the domain.
Probab=98.90 E-value=1.5e-08 Score=70.94 Aligned_cols=84 Identities=21% Similarity=0.173 Sum_probs=77.1
Q ss_pred hHHHHHHHHHHHcCCChHHHHHHHHHHHHHhhhCCCCCCCcccHHHHHHHHHHHHhhhcCCCccccchhhhccCC-CHHH
Q 028611 51 SIQSYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKVGGI-STIE 129 (206)
Q Consensus 51 si~~fl~rI~~~~~ls~~~~i~ALiYldRl~~~~~~~~l~~~n~~RL~ltalilAsK~~dD~~~sN~~wa~v~gv-s~~e 129 (206)
...+|+.++.+..++++.+...|..|++|+...++ +...+.+.+..+|+.+|+|+.++ ..+++.+..++|. +.++
T Consensus 4 ~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~~~~ia~a~l~lA~k~~~~-~~~~~~~~~~~~~~~~~~ 79 (88)
T cd00043 4 TPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYS---VLGRSPSLVAAAALYLAAKVEEI-PPWLKDLVHVTGYATEEE 79 (88)
T ss_pred hHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcc---cccCChHHHHHHHHHHHHHHcCC-CCCHHHHhHHhCCCCHHH
Confidence 47899999999999999999999999999998653 35789999999999999999998 8899999999999 9999
Q ss_pred HHHHHHHHH
Q 028611 130 MNFLELDFL 138 (206)
Q Consensus 130 LN~LE~~fL 138 (206)
+..+|.++|
T Consensus 80 i~~~e~~il 88 (88)
T cd00043 80 ILRMEKLLL 88 (88)
T ss_pred HHHHHHHhC
Confidence 999999874
No 6
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma. A helical domain present in cyclins and TFIIB (twice) and Retinoblastoma (once). A protein recognition domain functioning in cell-cycle and transcription control.
Probab=98.67 E-value=1.8e-07 Score=64.83 Aligned_cols=82 Identities=21% Similarity=0.198 Sum_probs=72.6
Q ss_pred HHHHHHHHHcCCChHHHHHHHHHHHHHhhhCCCCCCCcccHHHHHHHHHHHHhhhcCCCccccchhhhccCC-CHHHHHH
Q 028611 54 SYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKVGGI-STIEMNF 132 (206)
Q Consensus 54 ~fl~rI~~~~~ls~~~~i~ALiYldRl~~~~~~~~l~~~n~~RL~ltalilAsK~~dD~~~sN~~wa~v~gv-s~~eLN~ 132 (206)
+|+.++.+..++++.+...|..|++|...... +...+.+.+..+|+.+|.|+.+.. .+++.+..+.|+ +.+++..
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~---~~~~~~~~ia~a~l~lA~k~~~~~-~~~~~~~~~~~~~~~~~i~~ 76 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYK---FLKYSPSLIAAAALYLAAKTEEIP-PWTKELVHYTGYFTEEEILR 76 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhh---cccCCHHHHHHHHHHHHHHHhcCC-CCchhHhHhhCCCCHHHHHH
Confidence 48999999999999999999999999988532 234899999999999999999876 688889999888 9999999
Q ss_pred HHHHHHH
Q 028611 133 LELDFLF 139 (206)
Q Consensus 133 LE~~fL~ 139 (206)
+|+.+|.
T Consensus 77 ~~~~il~ 83 (83)
T smart00385 77 MEKLLLE 83 (83)
T ss_pred HHHHHhC
Confidence 9999873
No 7
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=98.30 E-value=4.9e-06 Score=75.05 Aligned_cols=106 Identities=22% Similarity=0.238 Sum_probs=84.3
Q ss_pred hHHHHHHHHHHHcCCChHHHHHHHHHHHHHhhhCCCCCCCcccHHHHHHHHHHHHhhhcCCCccccchhhhcc---CCCH
Q 028611 51 SIQSYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKVG---GIST 127 (206)
Q Consensus 51 si~~fl~rI~~~~~ls~~~~i~ALiYldRl~~~~~~~~l~~~n~~RL~ltalilAsK~~dD~~~sN~~wa~v~---gvs~ 127 (206)
--.++|.++.++-+|++.|+.+|.=|+||+....+--.-.+....-|-++||-||+|+-+=....-.++--.+ -+..
T Consensus 80 ~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~~fea 159 (335)
T KOG0656|consen 80 QALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVACLSLASKMEETDVPLLADLQVEYTDNVFEA 159 (335)
T ss_pred HHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCCchHHHHHHHHHHHHHHHhhcCcCCchhhhhhhccccccccH
Confidence 4678999999999999999999999999999965321223344788889999999999876544333443222 2689
Q ss_pred HHHHHHHHHHHHhCCCcee-eCHHHHHHHH
Q 028611 128 IEMNFLELDFLFGLSFHLN-VTPNAFHTYC 156 (206)
Q Consensus 128 ~eLN~LE~~fL~lLdy~L~-Vs~~~y~~y~ 156 (206)
++|-+||+-.|..|+|++. ||+-.|-+|.
T Consensus 160 ktI~rmELLVLstL~Wrl~aVTP~sF~~~f 189 (335)
T KOG0656|consen 160 KTIQRMELLVLSTLKWRLRAVTPFSFIDHF 189 (335)
T ss_pred HHHHHHHHHHHhhccccccCCCchHHHHHH
Confidence 9999999999999999999 7998887765
No 8
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.01 E-value=4.1e-05 Score=70.47 Aligned_cols=93 Identities=19% Similarity=0.319 Sum_probs=77.6
Q ss_pred HHHHHHHHHHHcCCChHHHHHHHHHHHHHhhhCCCCCCCcccHHHHHHHHHH-HHhhhcCCC-ccccchhhhc--cCCCH
Q 028611 52 IQSYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVM-VAAKFLDDM-YYNNAYYAKV--GGIST 127 (206)
Q Consensus 52 i~~fl~rI~~~~~ls~~~~i~ALiYldRl~~~~~~~~l~~~n~~RL~ltali-lAsK~~dD~-~~sN~~wa~v--~gvs~ 127 (206)
+-+|+..+..+++++++++-+|.-++||+....+ +...-..-+=++||. ||+|| +|. ...-.++..+ +.++.
T Consensus 161 Lvdwlvevh~~F~L~~ETL~LaVnliDRfL~~~~---v~~~~lqLvgvsalf~IA~K~-EE~~~P~v~dlv~isd~~~s~ 236 (391)
T KOG0653|consen 161 LVDWLVEVHEKFGLSPETLYLAVNLIDRFLSKVK---VPLKKLQLVGVSALLSIACKY-EEISLPSVEDLVLITDGAYSR 236 (391)
T ss_pred HHHHHHHhhhhcCcCHHHHHHHHHHHHHHHHHhc---ccHHHhhHHhHHHHHHHHHhh-hhccCCccceeEeeeCCccch
Confidence 7889999999999999999999999999999753 445566667778867 99999 554 3345566666 45899
Q ss_pred HHHHHHHHHHHHhCCCceeeC
Q 028611 128 IEMNFLELDFLFGLSFHLNVT 148 (206)
Q Consensus 128 ~eLN~LE~~fL~lLdy~L~Vs 148 (206)
+++-.||+.+|..|+|++.+.
T Consensus 237 ~~il~mE~~il~~L~f~l~~p 257 (391)
T KOG0653|consen 237 EEILRMEKYILNVLEFDLSVP 257 (391)
T ss_pred HHHHHHHHHHHhccCeeecCC
Confidence 999999999999999999985
No 9
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=97.85 E-value=0.00023 Score=63.71 Aligned_cols=92 Identities=18% Similarity=0.189 Sum_probs=73.8
Q ss_pred HHHHHHHHHHHcC--CChHHHHHHHHHHHHHhhhCCCCCCCcccHHHHHHHHHHHHhhhcCCCccccchhhhccC-C---
Q 028611 52 IQSYLERIFKYAN--CSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKVGG-I--- 125 (206)
Q Consensus 52 i~~fl~rI~~~~~--ls~~~~i~ALiYldRl~~~~~~~~l~~~n~~RL~ltalilAsK~~dD~~~sN~~wa~v~g-v--- 125 (206)
...+|.++..+.+ ++..+...|.+|++|+..++. +.....+.+.+||+.+|+|+=+- +.+-..+....+ -
T Consensus 59 y~~~i~~~~~~lkp~Lpq~viaTAivyf~RFy~~~S---v~~~~p~~Ia~tclfLA~KvEE~-~~si~~fv~~~~~~~~~ 134 (305)
T TIGR00569 59 YEKRLLDFCSAFKPTMPTSVVGTAIMYFKRFYLNNS---VMEYHPKIIMLTCVFLACKVEEF-NVSIDQFVGNLKETPLK 134 (305)
T ss_pred HHHHHHHHHHHhcCCCCchHHHHHHHHHhHHhccCc---hhhcCHHHHHHHHHHHHHhcccc-CcCHHHHHhhccCCchh
Confidence 3456777788889 999999999999999998653 45678899999999999997544 445555554332 2
Q ss_pred CHHHHHHHHHHHHHhCCCceee
Q 028611 126 STIEMNFLELDFLFGLSFHLNV 147 (206)
Q Consensus 126 s~~eLN~LE~~fL~lLdy~L~V 147 (206)
..++|-.+|..+|..|+|+|.|
T Consensus 135 ~~~~Il~~E~~lL~~L~F~L~V 156 (305)
T TIGR00569 135 ALEQVLEYELLLIQQLNFHLIV 156 (305)
T ss_pred hHHHHHHHHHHHHHHCCCcEEe
Confidence 3589999999999999999998
No 10
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=97.42 E-value=0.00083 Score=60.60 Aligned_cols=96 Identities=25% Similarity=0.336 Sum_probs=81.4
Q ss_pred HHHHHHHHHHHcCCChHHHHHHHHHHHHHhhhCCCCCCCcccHHHHHHHHHHHHhhhcCCCccccchhhhc--cCCCHHH
Q 028611 52 IQSYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKV--GGISTIE 129 (206)
Q Consensus 52 i~~fl~rI~~~~~ls~~~~i~ALiYldRl~~~~~~~~l~~~n~~RL~ltalilAsK~~dD~~~sN~~wa~v--~gvs~~e 129 (206)
+.+++-.+..-.++..++|-+|.=|+||+.... ..+...+..-+=++||.||+|+=+=....-..||.+ |..|-.+
T Consensus 148 LlDWlmEVCEvykLHRETFyLAvDy~DRyl~t~--~~v~kt~lQLIGitsLFIAAK~EEIYpPKl~eFAyvTDgAcs~dd 225 (408)
T KOG0655|consen 148 LLDWLMEVCEVYKLHRETFYLAVDYFDRYLETQ--VEVSKTNLQLIGITSLFIAAKLEEIYPPKLIEFAYVTDGACSEDD 225 (408)
T ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH--HHhhhhhHHHhhHHHHHHHHHHhhccCccccceeeeccCccchHH
Confidence 778999999999999999999999999999864 334556777778999999999866556677789988 4489999
Q ss_pred HHHHHHHHHHhCCCcee-eCH
Q 028611 130 MNFLELDFLFGLSFHLN-VTP 149 (206)
Q Consensus 130 LN~LE~~fL~lLdy~L~-Vs~ 149 (206)
|..||.-+|++|+|+|. |+-
T Consensus 226 IltmE~iilkal~W~l~PiTi 246 (408)
T KOG0655|consen 226 ILTMELIILKALKWELSPITI 246 (408)
T ss_pred HHHHHHHHHHHhcccccceeh
Confidence 99999999999999998 443
No 11
>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]
Probab=97.26 E-value=0.00076 Score=59.99 Aligned_cols=91 Identities=19% Similarity=0.327 Sum_probs=78.5
Q ss_pred HHHHHHHHHcCCChHHHHHHHHHHHHHhhhCCCCCCCcccHHHHHHHHHHHHhhhcC---CC----ccccchhhhccCCC
Q 028611 54 SYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLD---DM----YYNNAYYAKVGGIS 126 (206)
Q Consensus 54 ~fl~rI~~~~~ls~~~~i~ALiYldRl~~~~~~~~l~~~n~~RL~ltalilAsK~~d---D~----~~sN~~wa~v~gvs 126 (206)
.++.++..+.+++..++-.|.+|.+|+.-+++ +.....+-+..||+.+|.|+=| |. +-.+.-|+..---+
T Consensus 50 k~i~~l~~~L~lp~~~laTAi~~f~Rf~Lk~s---v~e~~~~~vv~tcv~LA~K~ed~~~~I~i~~~~~~~~~se~~~~s 126 (297)
T COG5333 50 KLIMDLCTRLNLPQTVLATAILFFSRFYLKNS---VEEISLYSVVTTCVYLACKVEDTPRDISIESFEARDLWSEEPKSS 126 (297)
T ss_pred HHHHHHHHhcCCCcchHHHHHHHHHHHHhhcc---cccccHHHHHHhheeeeeecccccchhhHHHHHhhcccccccccc
Confidence 67889999999999999999999999988654 6788899999999999999877 22 22344577777789
Q ss_pred HHHHHHHHHHHHHhCCCceee
Q 028611 127 TIEMNFLELDFLFGLSFHLNV 147 (206)
Q Consensus 127 ~~eLN~LE~~fL~lLdy~L~V 147 (206)
.+.+-.+|.+.|+.|+|++.|
T Consensus 127 r~~Il~~E~~lLEaL~fd~~V 147 (297)
T COG5333 127 RERILEYEFELLEALDFDLHV 147 (297)
T ss_pred HHHHHHHHHHHHHHcccceEe
Confidence 999999999999999999998
No 12
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=97.16 E-value=0.0014 Score=61.35 Aligned_cols=95 Identities=15% Similarity=0.182 Sum_probs=78.4
Q ss_pred HHHHHHHHHHHcCCChHHHHHHHHHHHHHhhhCCCCCCCcccHHHHHHHHHHHHhhhcCCCccccchhhhc--cCCCHHH
Q 028611 52 IQSYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKV--GGISTIE 129 (206)
Q Consensus 52 i~~fl~rI~~~~~ls~~~~i~ALiYldRl~~~~~~~~l~~~n~~RL~ltalilAsK~~dD~~~sN~~wa~v--~gvs~~e 129 (206)
|-+|+..+....++.|+++.+|.-.+||+..+. ++. -.-..-+-++|+.||+||=+=.+-.-+.++-+ |.++.++
T Consensus 216 Lv~wlvevH~~F~llpeTL~lainiiDrfLs~~-~v~--l~k~QLvg~s~LfIa~K~EE~~~p~i~~l~~~t~g~~t~~~ 292 (440)
T COG5024 216 LVDWLVEVHGKFGLLPETLFLAINIIDRFLSSR-VVS--LEKYQLVGISALFIASKYEEVNCPSIKDLVYATDGAFTRDD 292 (440)
T ss_pred HHHHHHHhcccccccchHHHHHHHHHHHHhccC-ccc--HHHHHHHHHHHHHHHHhHhHhcCHHHHHHHHHHcccccHHH
Confidence 778999999999999999999999999999964 322 22334455788999999977666667777765 6689999
Q ss_pred HHHHHHHHHHhCCCceeeCH
Q 028611 130 MNFLELDFLFGLSFHLNVTP 149 (206)
Q Consensus 130 LN~LE~~fL~lLdy~L~Vs~ 149 (206)
+-.+|+.+|..++|++....
T Consensus 293 i~~aE~~ml~~l~f~is~P~ 312 (440)
T COG5024 293 IIRAERYMLEVLDFNISWPS 312 (440)
T ss_pred HHHHHHHHhhhcccccCCCC
Confidence 99999999999999999743
No 13
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=96.83 E-value=0.0022 Score=59.04 Aligned_cols=108 Identities=17% Similarity=0.184 Sum_probs=86.4
Q ss_pred hHHHHHHHHHHHcCCChHHHHHHHHHHHHHhhhCCCCCCCcccHHHHHHHHHHHHhhhcCCCccccchhh----hccCCC
Q 028611 51 SIQSYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYA----KVGGIS 126 (206)
Q Consensus 51 si~~fl~rI~~~~~ls~~~~i~ALiYldRl~~~~~~~~l~~~n~~RL~ltalilAsK~~dD~~~sN~~wa----~v~gvs 126 (206)
+|..-+.+|-.-|++...+.-+|.+|+++|.-++ .++..|-+-.--+|+++|.|+.|=.--.-+.+- ..+.++
T Consensus 384 SlKREMr~l~~d~~id~~TVa~AyVYFEKliLkg---lisK~NRKlcAGAclLlaaKmnD~Kks~vKslIek~Ee~fR~n 460 (497)
T KOG4164|consen 384 SLKREMRELGEDCGIDVVTVAMAYVYFEKLILKG---LISKQNRKLCAGACLLLAAKMNDLKKSTVKSLIEKLEEQFRLN 460 (497)
T ss_pred HHHHHHHHhhhccCccceeehhHHHHHHHHHHhh---hhhhhhhhHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhccc
Confidence 4677788888889999999999999999999864 256667777788899999999843344444443 357889
Q ss_pred HHHHHHHHHHHHHhCCCceeeCHHHHHHHHHHHHH
Q 028611 127 TIEMNFLELDFLFGLSFHLNVTPNAFHTYCTYLQR 161 (206)
Q Consensus 127 ~~eLN~LE~~fL~lLdy~L~Vs~~~y~~y~~~L~~ 161 (206)
.+||-..|.-.|.+|+|.|+++..+..--+..|+.
T Consensus 461 rrdLia~Ef~VlvaLefaL~~~~~eVlPHy~RL~~ 495 (497)
T KOG4164|consen 461 RRDLIAFEFPVLVALEFALHLPEHEVLPHYRRLQQ 495 (497)
T ss_pred HHhhhhhhhhHHHhhhhhccCChhhcchHHHHHhh
Confidence 99999999999999999999999887655555543
No 14
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=95.24 E-value=0.034 Score=48.10 Aligned_cols=97 Identities=18% Similarity=0.195 Sum_probs=78.3
Q ss_pred ChhHHHHHHHHHHHcCCChHHHHHHHHHHHHHhhhCCCCCCCcccHHHHHHHHHHHHhhhcCCC-cc-------ccc---
Q 028611 49 SISIQSYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDM-YY-------NNA--- 117 (206)
Q Consensus 49 ~isi~~fl~rI~~~~~ls~~~~i~ALiYldRl~~~~~~~~l~~~n~~RL~ltalilAsK~~dD~-~~-------sN~--- 117 (206)
+|-..++|..+-.+.++--.++..|.+|+.|+..+.. +...+..-+..||+-+|+|+=+-- .+ .+.
T Consensus 41 ~i~~~n~I~~lg~~lklRQ~ViATAivY~rRfy~r~S---~k~~~p~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L~~ 117 (264)
T KOG0794|consen 41 KIFMANVIQKLGQHLKLRQRVIATAIVYFRRFYLRKS---LKEIEPRLLAPTCLYLACKVEECPIVHIRLLVNEAKVLKT 117 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh---hhccCHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHhh
Confidence 3456678889999999999999999999999998753 567788899999999999986542 10 111
Q ss_pred ---hhhhccCCCHHHHHHHHHHHHHhCCCceeeC
Q 028611 118 ---YYAKVGGISTIEMNFLELDFLFGLSFHLNVT 148 (206)
Q Consensus 118 ---~wa~v~gvs~~eLN~LE~~fL~lLdy~L~Vs 148 (206)
+|..-.....+.+-.+|...|+.||+-|-|-
T Consensus 118 ~f~~~~e~~~~~~~~I~e~Ef~llE~Ld~~LIVh 151 (264)
T KOG0794|consen 118 RFSYWPEKFPYERKDILEMEFYLLEALDCYLIVH 151 (264)
T ss_pred hcccchhhcCCCcCcchhhhhhHHhhhceeEEEe
Confidence 3556667788999999999999999999883
No 15
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=95.12 E-value=0.1 Score=47.21 Aligned_cols=110 Identities=17% Similarity=0.153 Sum_probs=79.0
Q ss_pred HHHHHHHHHHHcCCChHHHHHHHHHHHHHhhhCCCCCCCcccHHHHHHHHHHHHhhhcCCC-------ccccchhhhc--
Q 028611 52 IQSYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDM-------YYNNAYYAKV-- 122 (206)
Q Consensus 52 i~~fl~rI~~~~~ls~~~~i~ALiYldRl~~~~~~~~l~~~n~~RL~ltalilAsK~~dD~-------~~sN~~wa~v-- 122 (206)
-..||..+-.+.+++.-++..|.+|.+|+.-.+. +.....+-+-.+|+.+|.|.=|-. ..++++....
T Consensus 42 ~~~fI~elg~~L~~~~~ti~tA~~~~hRFy~~~s---~~~~~~~~vA~sclfLAgKvEetp~kl~dIi~~s~~~~~~~~~ 118 (323)
T KOG0834|consen 42 GAKFIQELGVRLKMPQKTIATAIVIFHRFYMFHS---FKKFDPYTVAASCLFLAGKVEETPRKLEDIIKVSYRYLNPKDL 118 (323)
T ss_pred HHHHHHHHHHHcCCCccchhhhhhhhhhhhhhcc---cccCcHHHHHHHHHHHHhhcccCcccHHHHHHHHHHHcCcccc
Confidence 5679999999999999999999999999988652 344555667888889999974432 1222222221
Q ss_pred -----cCCCHHHHHHHHHHHHHhCCCceeeCH--HHHHHHHHHHHHHHh
Q 028611 123 -----GGISTIEMNFLELDFLFGLSFHLNVTP--NAFHTYCTYLQREML 164 (206)
Q Consensus 123 -----~gvs~~eLN~LE~~fL~lLdy~L~Vs~--~~y~~y~~~L~~~~~ 164 (206)
.-=..+++-.+|+.+|..|+|++.|.. .-..+|...+.....
T Consensus 119 ~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~l~~~~~ 167 (323)
T KOG0834|consen 119 ELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKKLKADEN 167 (323)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHHhhhhhh
Confidence 011368899999999999999999943 334467776665543
No 16
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=95.11 E-value=0.36 Score=43.13 Aligned_cols=96 Identities=19% Similarity=0.112 Sum_probs=79.1
Q ss_pred HHHHHHHHHcCCChHHHHHHHHHHHHHhhhCCCCCCCcccHHHHHHHHHHHHhhhcCCCccccchhhhccCCCHHHHHHH
Q 028611 54 SYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKVGGISTIEMNFL 133 (206)
Q Consensus 54 ~fl~rI~~~~~ls~~~~i~ALiYldRl~~~~~~~~l~~~n~~RL~ltalilAsK~~dD~~~sN~~wa~v~gvs~~eLN~L 133 (206)
..|.++....+++..+.=.|..+..++.... . +...+..-++.+|+-+|.|. ++.+.+-+..+.+.+++.+++.+.
T Consensus 127 ~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~-~--~rgrs~~~i~AAclYiACR~-~~~prtl~eI~~~~~v~~k~i~~~ 202 (310)
T PRK00423 127 SELDRIASQLGLPRSVREEAAVIYRKAVEKG-L--IRGRSIEGVVAAALYAACRR-CKVPRTLDEIAEVSRVSRKEIGRC 202 (310)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-c--ccCCCHHHHHHHHHHHHHHH-cCCCcCHHHHHHHhCCCHHHHHHH
Confidence 4577888888999999999999988888742 2 35567788889999999997 667788899999999999999999
Q ss_pred HHHHHHhCCCceee-CHHHHH
Q 028611 134 ELDFLFGLSFHLNV-TPNAFH 153 (206)
Q Consensus 134 E~~fL~lLdy~L~V-s~~~y~ 153 (206)
++.++..|+.++.+ ++++|.
T Consensus 203 ~~~l~k~L~~~~~~~~p~~~i 223 (310)
T PRK00423 203 YRFLLRELNLKLPPTDPIDYV 223 (310)
T ss_pred HHHHHHHhCCCCCCCCHHHHH
Confidence 99999999988764 455553
No 17
>KOG1674 consensus Cyclin [General function prediction only]
Probab=94.82 E-value=0.016 Score=49.57 Aligned_cols=99 Identities=18% Similarity=0.203 Sum_probs=79.2
Q ss_pred HHHHHHHHHH--HHhhhCCCC-CCCcccHHHHHHHHHHHHhhhcCCCcc-----ccchhhh-ccCC-CHHHHHHHHHHHH
Q 028611 69 CFIVAYVYLD--RFVQRQPSL-PINSFNVHRLLITSVMVAAKFLDDMYY-----NNAYYAK-VGGI-STIEMNFLELDFL 138 (206)
Q Consensus 69 ~~i~ALiYld--Rl~~~~~~~-~l~~~n~~RL~ltalilAsK~~dD~~~-----sN~~wa~-v~gv-s~~eLN~LE~~fL 138 (206)
+++++..|++ |+....+.. .....+.++.++++++.+.|...|..- +++.|+. +.|+ .....|.+|+++|
T Consensus 3 ~~~~~s~~~~~~~~~~~~~~~~~~~~ss~~p~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~p~isi~~yl 82 (218)
T KOG1674|consen 3 TLMTMSVYINPDKLRLNLPDNPTGRNSSITPIFLTCLSSLLKRLNDSNENLSRENNKSWASPTTGFDGVSTPNISIRQYL 82 (218)
T ss_pred hhhHhHhhcCccchhhccCcccccccccccchHHHHHHHHHHHHHhcChhhhcccccccccccccccCCCCCCcchHHHH
Confidence 6677888888 887765432 234567899999999999999888866 6888884 4454 6899999999999
Q ss_pred HhCCCceeeCHHHHHHHHHHHHHHHhhcC
Q 028611 139 FGLSFHLNVTPNAFHTYCTYLQREMLLLQ 167 (206)
Q Consensus 139 ~lLdy~L~Vs~~~y~~y~~~L~~~~~~~~ 167 (206)
..+.|...+++++|..=+-.+.+.....+
T Consensus 83 eri~k~~~~s~~~lv~al~Yldr~~~~~~ 111 (218)
T KOG1674|consen 83 ERIFKYSKCSPECLVLALVYLDRFVKQPQ 111 (218)
T ss_pred HHHHHHhcCCchhhhhhhhhhhhhhhhhc
Confidence 99999999999999987777877765433
No 18
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=93.77 E-value=0.83 Score=41.52 Aligned_cols=100 Identities=14% Similarity=0.170 Sum_probs=66.8
Q ss_pred HHHHHHHHcCCChHHHHHHHHHHHHHhhhCCCCCCCcccHHHHHHHHHHHHhhhcCCCccccch-----------hh-hc
Q 028611 55 YLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAY-----------YA-KV 122 (206)
Q Consensus 55 fl~rI~~~~~ls~~~~i~ALiYldRl~~~~~~~~l~~~n~~RL~ltalilAsK~~dD~~~sN~~-----------wa-~v 122 (206)
||+.---..+++-.|...++|+++|++...+ +-.....-+..+|+.||+|.=+.-. +-+. +. .-
T Consensus 29 ~Iqea~ILL~L~q~a~atgqVLFqRf~~~ks---~v~~~~e~vv~ACv~LASKiEE~Pr-r~rdVinVFh~L~~r~~~~~ 104 (367)
T KOG0835|consen 29 LIQEAGILLNLPQVAMATGQVLFQRFCYSKS---FVRHDFEIVVMACVLLASKIEEEPR-RIRDVINVFHYLEQRRESEA 104 (367)
T ss_pred HHHhhhHhhcCcHHHHHHHHHHHHHHHhccc---cccccHHHHHHHHHHHHhhhccccc-cHhHHHHHHHHHHHHHhccC
Confidence 4444445566889999999999999998653 3445677799999999999865431 1000 00 00
Q ss_pred cC--------C-CHHHHHHHHHHHHHhCCCceee--CHHHHHHHHHH
Q 028611 123 GG--------I-STIEMNFLELDFLFGLSFHLNV--TPNAFHTYCTY 158 (206)
Q Consensus 123 ~g--------v-s~~eLN~LE~~fL~lLdy~L~V--s~~~y~~y~~~ 158 (206)
.+ + -...+...|++.|..|+|.++| .-..+..|...
T Consensus 105 ~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqt 151 (367)
T KOG0835|consen 105 AEHLILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQT 151 (367)
T ss_pred cchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHH
Confidence 11 1 1356678899999999999998 33444455443
No 19
>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]
Probab=93.67 E-value=0.44 Score=42.81 Aligned_cols=95 Identities=17% Similarity=0.260 Sum_probs=74.4
Q ss_pred CCChHHHHHHHHHHHHHhhhCCCCCCCcccHHHHHHHHHHHHhhhcCCCccccchhhhccC----CCHHHHHHHHHHHHH
Q 028611 64 NCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKVGG----ISTIEMNFLELDFLF 139 (206)
Q Consensus 64 ~ls~~~~i~ALiYldRl~~~~~~~~l~~~n~~RL~ltalilAsK~~dD~~~sN~~wa~v~g----vs~~eLN~LE~~fL~ 139 (206)
.+++++.-.|+.|..|+.-.+. +....++-+..||+-+|.|. ++.+.+-..|++-.. =+.+.+-..|...|.
T Consensus 73 ~lp~~Vv~TA~~fFkRffL~ns---vme~~pk~I~~tc~flA~Ki-eef~ISieqFvkn~~~~~~k~~e~vLk~E~~llq 148 (325)
T KOG2496|consen 73 NLPTSVVSTAIEFFKRFFLENS---VMEYSPKIIMATCFFLACKI-EEFYISIEQFVKNMNGRKWKTHEIVLKYEFLLLQ 148 (325)
T ss_pred CCchHHHHHHHHHHHHHHHhcc---hhhcChHHHHHHHHHHHhhh-HhheecHHHHHhhccCcccccHHHHHhchHHHHH
Confidence 4789999999999999987543 35566778899999999996 466677777776443 468999999999999
Q ss_pred hCCCceee--CHHHHHHHHHHHHHH
Q 028611 140 GLSFHLNV--TPNAFHTYCTYLQRE 162 (206)
Q Consensus 140 lLdy~L~V--s~~~y~~y~~~L~~~ 162 (206)
.|+|+|.| +..-+.-|...++..
T Consensus 149 sL~f~L~vh~PyRPleGFl~D~kt~ 173 (325)
T KOG2496|consen 149 SLKFSLTVHNPYRPLEGFLLDMKTR 173 (325)
T ss_pred hhhhhheecCCCCchHHHHHHHHHH
Confidence 99999998 445566666666555
No 20
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=91.85 E-value=2.1 Score=38.19 Aligned_cols=94 Identities=15% Similarity=0.131 Sum_probs=76.2
Q ss_pred CCChhHHHHHHHHHHHcCCChHHHHHHHHHHHHHhhhCCCCCCCcccHHHHHHHHHHHHhhhcCCCccccchhhhccCCC
Q 028611 47 RPSISIQSYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKVGGIS 126 (206)
Q Consensus 47 ~P~isi~~fl~rI~~~~~ls~~~~i~ALiYldRl~~~~~~~~l~~~n~~RL~ltalilAsK~~dD~~~sN~~wa~v~gvs 126 (206)
.|.+.-.+|+.|+....+++..+.-.|..++.+.... ++ ....++.-+..+|+-+|++... ..-+.+..+.++|++
T Consensus 214 ~~~~~p~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~--~l-~~Gr~P~sIAAAaIYlA~~~~g-~~~t~keIa~v~~Vs 289 (310)
T PRK00423 214 LPPTDPIDYVPRFASELGLSGEVQKKAIEILQKAKEK--GL-TSGKGPTGLAAAAIYIASLLLG-ERRTQREVAEVAGVT 289 (310)
T ss_pred CCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc--Cc-ccCCCHHHHHHHHHHHHHHHhC-CCCCHHHHHHHcCCC
Confidence 4666789999999999999999998888888777663 32 4678899999999999999764 446788889999999
Q ss_pred HHHHHHHHHHHHHhCCCc
Q 028611 127 TIEMNFLELDFLFGLSFH 144 (206)
Q Consensus 127 ~~eLN~LE~~fL~lLdy~ 144 (206)
..++..-=++++..++..
T Consensus 290 ~~tI~~~ykel~~~l~~~ 307 (310)
T PRK00423 290 EVTVRNRYKELAEKLDIK 307 (310)
T ss_pred HHHHHHHHHHHHHHhCcc
Confidence 999887777777766543
No 21
>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). 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 []. In eukaryotes, transcription initiation of all protein encoding genes involves the polymerase II system. This sytem is modulated by both general and specific transcription factors. The general factors (which include TFIIA, TFIIB, TFIID, TFIIE, TFIIF, TFIIG and TFIIH) operate through common promoter elements, such as the TATA box. Transcription factor IIB (TFIIB) is of central importance in transcription of class II genes. It associates with TFIID-TFIIA bound to DNA (the DA complex) to form a ternary TFIID-IIA-IBB (DAB) complex, which is recognised by RNA polymerase II [, ]. TFIIB comprises ~315-340 residues and contains an imperfect C-terminal repeat of a 75-residue domain that may contribute to the symmetry of the folded protein. The basal archaeal transcription machinery resembles that of the eukaryotic polymerase II system and includes a homologue of TFIIB []. This entry represents a cyclin-like domain which is found repeated in the C-terminal region of a variety of eukaryotic TFIIB's and their archaeal counterparts. These domains individually form the typical cyclin fold, and in the transcription complex they straddle the C-terminal region of the TATA-binding protein - an interaction essential for the formation of the transcription initiation complex [, ].; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2PHG_A 1C9B_Q 1TFB_A 1VOL_A 3K7A_M 1AIS_B 1D3U_B.
Probab=91.63 E-value=2.1 Score=29.47 Aligned_cols=71 Identities=13% Similarity=0.108 Sum_probs=55.9
Q ss_pred HHHHHHHcCCChHHHHHHHHHHHHHhhhCCCCCCCcccHHHHHHHHHHHHhhhcCCCccccchhhhccCCCHHHH
Q 028611 56 LERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKVGGISTIEM 130 (206)
Q Consensus 56 l~rI~~~~~ls~~~~i~ALiYldRl~~~~~~~~l~~~n~~RL~ltalilAsK~~dD~~~sN~~wa~v~gvs~~eL 130 (206)
|.++....+++..+.=.|..+..+..... + ....+..-+..+|+-+|.+.. +...+.+..+.+.|++..++
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~--~-~~Gr~~~~iaAA~iY~acr~~-~~~~t~~eIa~~~~Vs~~tI 71 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERG--L-LKGRSPESIAAACIYLACRLN-GVPRTLKEIAEAAGVSEKTI 71 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTT--T-STTS-HHHHHHHHHHHHHHHT-TSSSSHHHHHHHCTSSHHHH
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcC--C-cccCCHHHHHHHHHHHHHHHc-CCCcCHHHHHHHhCCCCCcC
Confidence 56888999999999999999998887753 2 356778889999999999876 56668889999999998775
No 22
>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). 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 is the C-terminal domain of cyclins.; GO: 0005634 nucleus; PDB: 3QHR_D 3QHW_B 1W98_B 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D 2IW9_D ....
Probab=87.71 E-value=0.34 Score=35.66 Aligned_cols=88 Identities=14% Similarity=0.066 Sum_probs=58.4
Q ss_pred hHHHHHHHHHHHcCCChHHHHHHHHHHHHHhhhCCCCCCCcccHHHHHHHHHHHHhhhcCCCccccchhhhccCCCHHHH
Q 028611 51 SIQSYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKVGGISTIEM 130 (206)
Q Consensus 51 si~~fl~rI~~~~~ls~~~~i~ALiYldRl~~~~~~~~l~~~n~~RL~ltalilAsK~~dD~~~sN~~wa~v~gvs~~eL 130 (206)
+-.+|+.++.+..+.+..+.-+|.++++--..... .-....-.+-.+|+.+|.+.++....++..+....|++.+++
T Consensus 2 Tp~~Fl~~~~~~~~~~~~~~~~a~~l~el~l~~~~---fl~~~PS~iAaAai~lA~~~~~~~~~~~~~l~~~t~~~~~~l 78 (118)
T PF02984_consen 2 TPYDFLRRFLKISNADQEVRNLARYLLELSLLDYE---FLQYPPSVIAAAAILLARKILGKEPPWPESLEKLTGYDKEDL 78 (118)
T ss_dssp -HHHHHHHHHTSSSHHHHHHHHHHHHHHHHHHSHH---HTTS-HHHHHHHHHHHHHHHHHSSTCSHHHHHHHHTS-HHHH
T ss_pred cHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhcc---ccCCCHHHHHHHHHHHHHHHhCccccCCccchhhcCCCHHHH
Confidence 35789999877777777788888888885443221 233445578888999999998754555666666788877776
Q ss_pred HHHHHHHHHhC
Q 028611 131 NFLELDFLFGL 141 (206)
Q Consensus 131 N~LE~~fL~lL 141 (206)
...=..+...+
T Consensus 79 ~~c~~~i~~~~ 89 (118)
T PF02984_consen 79 KECIELIQELL 89 (118)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 66555555444
No 23
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=78.15 E-value=18 Score=32.21 Aligned_cols=90 Identities=14% Similarity=0.121 Sum_probs=70.3
Q ss_pred CCChhHHHHHHHHHHHcCCChHHHHHHHHHHHHHhhhCCCCCCCcccHHHHHHHHHHHHhhhcCCCccccchhhhccCCC
Q 028611 47 RPSISIQSYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKVGGIS 126 (206)
Q Consensus 47 ~P~isi~~fl~rI~~~~~ls~~~~i~ALiYldRl~~~~~~~~l~~~n~~RL~ltalilAsK~~dD~~~sN~~wa~v~gvs 126 (206)
.|.+...+|+.|+.+..+++.++--.|.-.+++....+ .. ....+--+-.+|+.+|++..+ ..-+.+.-+++.|++
T Consensus 189 ~~~~~p~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g--~~-~Gk~P~glAaaaiy~as~l~~-~~~tq~eva~v~~vt 264 (285)
T COG1405 189 IPPVDPSDYIPRFASKLGLSDEVRRKAIEIVKKAKRAG--LT-AGKSPAGLAAAAIYLASLLLG-ERRTQKEVAKVAGVT 264 (285)
T ss_pred CCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhC--cc-cCCCchhHHHHHHHHHHHHhC-CchHHHHHHHHhCCe
Confidence 35478999999999999999999999999999988864 22 355666789999999999887 556788889999998
Q ss_pred HHHHHHHHHHHHHh
Q 028611 127 TIEMNFLELDFLFG 140 (206)
Q Consensus 127 ~~eLN~LE~~fL~l 140 (206)
...|..-=.++...
T Consensus 265 evTIrnrykel~~~ 278 (285)
T COG1405 265 EVTIRNRYKELADA 278 (285)
T ss_pred eeHHHHHHHHHHHh
Confidence 76665433444333
No 24
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=76.95 E-value=41 Score=29.97 Aligned_cols=100 Identities=18% Similarity=0.170 Sum_probs=73.9
Q ss_pred hhHHHHHHHHHHHcCCChHHHHHHHHHHHHHhhhCCCCCCCcccHHHHHHHHHHHHhhhcCCCccccchhhhccCCCHHH
Q 028611 50 ISIQSYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKVGGISTIE 129 (206)
Q Consensus 50 isi~~fl~rI~~~~~ls~~~~i~ALiYldRl~~~~~~~~l~~~n~~RL~ltalilAsK~~dD~~~sN~~wa~v~gvs~~e 129 (206)
+....++.++....+++..+--.|..+..+..... + +....+.-++.+|+-+|.+ ..+.+.+-...+++.+++.++
T Consensus 98 ~~a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~--l-~rGRsie~v~AA~iY~acR-~~~~prtl~eIa~a~~V~~ke 173 (285)
T COG1405 98 ITALEELERIASALGLPESVRETAARIYRKAVDKG--L-LRGRSIESVAAACIYAACR-INGVPRTLDEIAKALGVSKKE 173 (285)
T ss_pred HHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcC--C-CcCCcHHHHHHHHHHHHHH-HcCCCccHHHHHHHHCCCHHH
Confidence 35677888999999999998888887777776642 2 2445555555555555555 666788888999999999999
Q ss_pred HHHHHHHHHHhCCCcee-eCHHHHH
Q 028611 130 MNFLELDFLFGLSFHLN-VTPNAFH 153 (206)
Q Consensus 130 LN~LE~~fL~lLdy~L~-Vs~~~y~ 153 (206)
+.+..+.....|.=.+- +++.+|.
T Consensus 174 i~rtyr~~~~~L~l~~~~~~p~~yi 198 (285)
T COG1405 174 IGRTYRLLVRELKLKIPPVDPSDYI 198 (285)
T ss_pred HHHHHHHHHHhcCCCCCCCCHHHHH
Confidence 99999988888865555 5666664
No 25
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=70.03 E-value=8 Score=35.62 Aligned_cols=97 Identities=15% Similarity=0.232 Sum_probs=78.4
Q ss_pred hHHHHHHHHHHHcCCChHHHHHHHHHHHHHhhhCCCCCCCcccHHHHHHHHHHHHhhhcCCCccccchhhhccC--CCHH
Q 028611 51 SIQSYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMYYNNAYYAKVGG--ISTI 128 (206)
Q Consensus 51 si~~fl~rI~~~~~ls~~~~i~ALiYldRl~~~~~~~~l~~~n~~RL~ltalilAsK~~dD~~~sN~~wa~v~g--vs~~ 128 (206)
.+.+++-.+.+-.....+++-++..|++|+.... .+.....+++=.+|+++|+||-.-....-..|..+.. +...
T Consensus 139 ilvdwlvevsee~r~~~e~l~ls~~~~drfl~~~---~~~~~k~ql~g~s~m~I~sk~ee~~~~~~~ef~~itd~ty~~~ 215 (359)
T KOG0654|consen 139 ILVDWLVEVSEEYRLTFETLYLSVNYRDRFLSYK---EVNKQKLQLVGISAMLIASKYEEIKEPRVEEFCYITDNTYTYW 215 (359)
T ss_pred hhhhhhhHHHHHHHhhhhheeecHHHHHHHhccC---ccHHHHHHHhCcccceeeccchhhcchHHHHHHhhhhhhhHHH
Confidence 5788888999889999999999999999998854 2455667778889999999998776654444544443 6789
Q ss_pred HHHHHHHHHHHhCCCceeeCHH
Q 028611 129 EMNFLELDFLFGLSFHLNVTPN 150 (206)
Q Consensus 129 eLN~LE~~fL~lLdy~L~Vs~~ 150 (206)
++-.||.+.|..+.+.+..+..
T Consensus 216 qv~~~~~~il~~l~~~~~~pt~ 237 (359)
T KOG0654|consen 216 QVLRMEIDILNALTFELVRPTS 237 (359)
T ss_pred HHHHHHHHHHHHhHHHHhCchH
Confidence 9999999999999999998543
No 26
>PHA02054 hypothetical protein
Probab=61.50 E-value=52 Score=24.13 Aligned_cols=76 Identities=20% Similarity=0.269 Sum_probs=47.4
Q ss_pred hhHHHHHHHHHHHHHHHhcccCCc-C----CCCCcccccCCCCCCh----hHHHHHHHHHHHcCCChHHHHHHHHHHHHH
Q 028611 10 MTKLITFLSSFLQRVSESNDINCR-F----QPQKISVFHGLTRPSI----SIQSYLERIFKYANCSPSCFIVAYVYLDRF 80 (206)
Q Consensus 10 ~~~~~~~ia~~L~~~~~~nd~~~~-~----~~~~~~~F~~~~~P~i----si~~fl~rI~~~~~ls~~~~i~ALiYldRl 80 (206)
||+++..||-++..+--....... . -.+..-++...-.|++ .+++++..-..+.+|+..|+.+...=-.-+
T Consensus 1 m~k~~~~ial~~a~~h~v~a~pe~Gsydeym~GAmIVY~N~IvpS~dnSv~Flehl~~kw~svkCsd~Cfq~Gy~eAk~F 80 (94)
T PHA02054 1 MPKIIAAVALLVATVHLVSANPEVGSYDEFMQGAMIVYTNDIVHSKDNSVQFLEYLDTKWGSVGCSDTCFQLGYQEAKLF 80 (94)
T ss_pred CchhHHHHHHHHHHhheeecCCCCCCHHHHhCccEEEEecccccccccHHHHHHHHHHHHhhcchhHHHHHHhhHHHHHH
Confidence 567788888777665443222210 0 1133334444445655 367777777889999999999998766666
Q ss_pred hhhCC
Q 028611 81 VQRQP 85 (206)
Q Consensus 81 ~~~~~ 85 (206)
...+.
T Consensus 81 v~~~~ 85 (94)
T PHA02054 81 VAYNT 85 (94)
T ss_pred hhhcc
Confidence 66543
No 27
>PF11357 Spy1: Cell cycle regulatory protein; InterPro: IPR020984 Speedy (Spy1) is a cell cycle regulatory protein which activates CDK2, the major kinase that allows progression through G1/S phase and further replication events. Spy1 expression overcomes a p27-induced cell cycle arrest to allow for DNA synthesis, so cell cycle progression occurs due to an interaction between Spy1 and p27 []. Spy1 is also known as Ringo protein A.
Probab=53.11 E-value=90 Score=24.79 Aligned_cols=76 Identities=11% Similarity=0.083 Sum_probs=51.4
Q ss_pred HHHHHHHHHhhhCCCCCCCcccHHHHHHHHHHHHhhhcCCCc-cccchhhhccCCC----HHHHHHHHHHHHHhCCCcee
Q 028611 72 VAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFLDDMY-YNNAYYAKVGGIS----TIEMNFLELDFLFGLSFHLN 146 (206)
Q Consensus 72 ~ALiYldRl~~~~~~~~l~~~n~~RL~ltalilAsK~~dD~~-~sN~~wa~v~gvs----~~eLN~LE~~fL~lLdy~L~ 146 (206)
+.++|..|.-- .....+.- -|..||=+|+-+=+|.. ....-+.-+.|-. .....++-.+|...++|+..
T Consensus 35 mV~~YF~Ragl-----~~~~Y~ri-~FFlALYLAndmEED~~~~K~~If~f~~G~~w~~~~~~F~klr~~~~~~m~~Ra~ 108 (131)
T PF11357_consen 35 MVIAYFSRAGL-----FSWQYQRI-HFFLALYLANDMEEDDEEPKYEIFPFLYGKNWRSQIPQFHKLRDQFWRRMDWRAW 108 (131)
T ss_pred HHHHHHHhccc-----chhhcchH-HHHHHHHHhhHHHhccchHHHHHHHHHHCcchHHHhHHHHHHHHHHHHHcCCcee
Confidence 44457776632 22222322 36667999999988875 3444444445543 56788899999999999999
Q ss_pred eCHHHHH
Q 028611 147 VTPNAFH 153 (206)
Q Consensus 147 Vs~~~y~ 153 (206)
||.++-+
T Consensus 109 Vsre~cE 115 (131)
T PF11357_consen 109 VSREECE 115 (131)
T ss_pred eCHHHHH
Confidence 9988654
No 28
>PF03914 CBF: CBF/Mak21 family; InterPro: IPR005612 This domain is present in the CAATT-binding protein which is essential for growth and necessary for 60S ribosomal subunit biogenesis. Other proteins containing this domain stimulate transcription from the HSP70 promoter.
Probab=53.10 E-value=28 Score=27.77 Aligned_cols=43 Identities=14% Similarity=0.406 Sum_probs=32.2
Q ss_pred cCCCCCChhHHHHHHHHHHHcC-CChHHHHHHHHHHHHHhhhCC
Q 028611 43 HGLTRPSISIQSYLERIFKYAN-CSPSCFIVAYVYLDRFVQRQP 85 (206)
Q Consensus 43 ~~~~~P~isi~~fl~rI~~~~~-ls~~~~i~ALiYldRl~~~~~ 85 (206)
.....|.--+..|++|++..+- +++...+.++..+.++..++|
T Consensus 55 ~~~~~~~~rvaAFiKRLl~~sl~~~~~~~~~~L~~i~~ll~~~p 98 (164)
T PF03914_consen 55 KSDHLPIQRVAAFIKRLLQLSLHLPPSFALAILALIRKLLKRHP 98 (164)
T ss_pred cccCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCH
Confidence 3444466678999999998776 556677777788888988875
No 29
>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase. The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].
Probab=39.25 E-value=63 Score=25.02 Aligned_cols=56 Identities=21% Similarity=0.169 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHcCCChHHHHHHHHHHHHHhhhCCCCCCCcccHHHHHHHHHHHHhhhc
Q 028611 52 IQSYLERIFKYANCSPSCFIVAYVYLDRFVQRQPSLPINSFNVHRLLITSVMVAAKFL 109 (206)
Q Consensus 52 i~~fl~rI~~~~~ls~~~~i~ALiYldRl~~~~~~~~l~~~n~~RL~ltalilAsK~~ 109 (206)
=.+-|..|+... +...-+..|+-|+|.+..+++ +.+...-|.+||-=|.+++.|=.
T Consensus 51 t~~lL~AIv~sf-~~n~~i~~al~~vd~fs~~Y~-I~i~~~~W~~Ll~W~~v~s~~~~ 106 (126)
T PF12921_consen 51 TSRLLIAIVHSF-GYNGDIFSALKLVDFFSRKYP-IPIPKEFWRRLLEWAYVLSSKRE 106 (126)
T ss_pred CHHHHHHHHHHH-HhcccHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHHhcCCcc
Confidence 345566666666 444678899999999999997 99999999999999999988633
No 30
>cd00454 Trunc_globin Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct from the three-over-three pattern found in other globins. A subset of these have been demonstrated to form homodimers.
Probab=26.16 E-value=78 Score=23.24 Aligned_cols=27 Identities=19% Similarity=0.314 Sum_probs=23.8
Q ss_pred ceeeCHHHHHHHHHHHHHHHhhcCCCC
Q 028611 144 HLNVTPNAFHTYCTYLQREMLLLQPPL 170 (206)
Q Consensus 144 ~L~Vs~~~y~~y~~~L~~~~~~~~~p~ 170 (206)
.+.|++++|+.|...+...+...++|.
T Consensus 70 ~~~I~~~~f~~~l~~l~~al~~~~~~~ 96 (116)
T cd00454 70 PFPITEEEFDAWLELLRDALDELGVPA 96 (116)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHhCCCH
Confidence 568999999999999999998888775
No 31
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=23.41 E-value=1.3e+02 Score=27.78 Aligned_cols=33 Identities=12% Similarity=0.137 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHhCCCcee-eCHHHHHHHHHHHHH
Q 028611 127 TIEMNFLELDFLFGLSFHLN-VTPNAFHTYCTYLQR 161 (206)
Q Consensus 127 ~~eLN~LE~~fL~lLdy~L~-Vs~~~y~~y~~~L~~ 161 (206)
..=|+.||..|++ ||+.+ .+.+.+.+...+-+.
T Consensus 69 tayl~~le~~~ck--d~~ccg~sl~~lh~ll~hyee 102 (423)
T COG5189 69 TAYLPNLEKQYCK--DYSCCGLSLPGLHDLLRHYEE 102 (423)
T ss_pred hhhhhhHHHHhcc--ccccccccchhHHHHHHHHHh
Confidence 3457788888876 56655 455555555555544
No 32
>KOG2941 consensus Beta-1,4-mannosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=20.03 E-value=1.7e+02 Score=27.47 Aligned_cols=66 Identities=20% Similarity=0.111 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHHHhCCCceeeCHHHHHHHHHHHH--HHHhhcCCCCCCcccccc----hhhccccccccCcc
Q 028611 127 TIEMNFLELDFLFGLSFHLNVTPNAFHTYCTYLQ--REMLLLQPPLNVAESSLS----IARSAKLHSCFNED 192 (206)
Q Consensus 127 ~~eLN~LE~~fL~lLdy~L~Vs~~~y~~y~~~L~--~~~~~~~~p~s~~~s~~~----~~~~~~~~~~~~~~ 192 (206)
+.-...+|..|=+.=+|+|+||...=.+-...+- +....+.-|+|.|.---. .-+...+|+-|..-
T Consensus 156 V~l~~~~E~~fgk~a~~nLcVT~AMr~dL~qnWgi~ra~v~YDrPps~~~~l~~~H~lf~~l~~d~~~f~ar 227 (444)
T KOG2941|consen 156 VRLVRWLEKYFGKLADYNLCVTKAMREDLIQNWGINRAKVLYDRPPSKPTPLDEQHELFMKLAGDHSPFRAR 227 (444)
T ss_pred HHHHHHHHHHhhcccccchhhHHHHHHHHHHhcCCceeEEEecCCCCCCCchhHHHHHHhhhccccchhhhc
Confidence 5667788999999999999999764433222221 233345567774433222 33557788877665
Done!