Query 041949
Match_columns 225
No_of_seqs 194 out of 897
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 12:22:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041949.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041949hhsearch_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 8.5E-35 1.8E-39 237.7 12.0 140 32-171 2-149 (149)
2 KOG1674 Cyclin [General functi 100.0 1.2E-31 2.6E-36 232.1 14.0 186 5-192 6-199 (218)
3 KOG1675 Predicted cyclin [Gene 99.8 1.3E-19 2.8E-24 162.0 6.1 145 71-216 186-335 (343)
4 PF00134 Cyclin_N: Cyclin, N-t 99.3 3.5E-12 7.7E-17 99.2 8.3 93 77-172 33-127 (127)
5 cd00043 CYCLIN Cyclin box fold 98.9 1.7E-08 3.6E-13 72.0 8.6 84 77-164 4-88 (88)
6 smart00385 CYCLIN domain prese 98.6 1.9E-07 4.2E-12 65.8 8.1 82 80-165 1-83 (83)
7 KOG0656 G1/S-specific cyclin D 98.3 5.1E-06 1.1E-10 76.4 9.6 107 77-183 80-190 (335)
8 KOG0653 Cyclin B and related k 97.9 7.7E-05 1.7E-09 70.0 10.6 94 77-174 160-257 (391)
9 KOG0655 G1/S-specific cyclin E 97.6 0.00017 3.7E-09 66.2 7.6 102 69-172 137-242 (408)
10 TIGR00569 ccl1 cyclin ccl1. Un 97.4 0.00069 1.5E-08 61.8 8.7 91 80-174 61-157 (305)
11 COG5024 Cyclin [Cell division 97.0 0.0023 4.9E-08 61.1 7.3 98 77-178 215-316 (440)
12 COG5333 CCL1 Cdk activating ki 96.9 0.0042 9.1E-08 56.4 8.3 98 80-180 50-155 (297)
13 KOG4164 Cyclin ik3-1/CABLES [C 96.7 0.0029 6.3E-08 59.4 5.4 109 77-188 384-496 (497)
14 KOG0834 CDK9 kinase-activating 94.3 0.17 3.6E-06 46.8 7.4 111 77-190 41-167 (323)
15 PRK00423 tfb transcription ini 93.1 1 2.2E-05 41.0 10.3 102 80-185 127-230 (310)
16 KOG0794 CDK8 kinase-activating 92.8 0.15 3.3E-06 45.1 4.3 96 76-174 42-151 (264)
17 KOG0835 Cyclin L [General func 92.1 1.3 2.8E-05 41.1 9.5 97 87-186 35-153 (367)
18 KOG2496 Cdk activating kinase 90.0 2.7 5.9E-05 38.6 9.4 81 90-174 73-157 (325)
19 KOG1674 Cyclin [General functi 89.8 0.2 4.3E-06 43.7 2.0 94 95-188 3-106 (218)
20 PRK00423 tfb transcription ini 89.7 3 6.5E-05 38.0 9.6 95 72-170 213-307 (310)
21 PF00382 TFIIB: Transcription 82.8 8.9 0.00019 26.8 7.1 71 82-156 1-71 (71)
22 PF02984 Cyclin_C: Cyclin, C-t 78.6 6 0.00013 29.4 5.3 87 77-166 2-88 (118)
23 KOG0654 G2/Mitotic-specific cy 66.8 2.3 4.9E-05 40.0 0.6 97 77-176 139-237 (359)
24 COG1405 SUA7 Transcription ini 65.5 38 0.00082 30.8 8.2 82 72-157 188-269 (285)
25 COG1405 SUA7 Transcription ini 57.5 1.4E+02 0.0031 27.1 10.4 106 76-185 98-205 (285)
26 PF11357 Spy1: Cell cycle regu 41.7 1.9E+02 0.0041 23.5 7.7 96 77-180 14-116 (131)
27 PF12921 ATP13: Mitochondrial 36.2 77 0.0017 25.0 4.7 55 77-133 50-104 (126)
28 PF03914 CBF: CBF/Mak21 family 23.8 1.5E+02 0.0033 23.9 4.6 44 68-111 54-98 (164)
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=8.5e-35 Score=237.67 Aligned_cols=140 Identities=31% Similarity=0.699 Sum_probs=101.5
Q ss_pred hHHHHHHHHHHHHHHHhhhhhhhhccc------cCCCCCcccccCCCCCchhHHHHHHHHHHHcCCCchHHHHHHHHHHH
Q 041949 32 LVISVLASLIERTMARNERIARNCRRA------LSKDSRSRVFDSHEIPDMTIQSYLERIFRYTKAGPSVYVVAYVYIDR 105 (225)
Q Consensus 32 ~~i~~la~lle~~i~~n~~~~~~~~~~------~~~~~~~~~F~~~~~P~isi~~fl~rI~~~~~~s~~~~llAliYldR 105 (225)
.++..|+.++++.+..|+......+.. .......+.|++..+|++++.+|+.||+++++|+++|+++|++||+|
T Consensus 2 ~~~~~i~~~l~~~~~~n~~~~~~s~~~~~~~~~~~~~~~~~~F~~~~~p~i~i~~fl~ri~~~~~~s~~~~i~aliYl~R 81 (149)
T PF08613_consen 2 KLVQSIARQLDRLINNNESTAQSSSSSSSPSSPFQQSPKISQFHSQSVPSISIRDFLSRILKYTQCSPECLILALIYLDR 81 (149)
T ss_dssp HHHHHHHHHHHHHHHHHH--------------T---------T--SS--SS-HHHHHHHHHHHTT--HHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHhccCchhhhhcccccccccccccccccccccCCCCCCCcHHHHHHHHHHHcCCChHHHHHHHHHHHH
Confidence 478999999999999998765433211 12345677899999999999999999999999999999999999999
Q ss_pred HHh--hCCCccccccchHHHHHHHHHHhhhhcccCCcccccccccCCCCHHHHHHHHHHHHHhCCCce
Q 041949 106 FCQ--ANPGFRIHATNVHRLLITTIMVASKYVEDLNYRNSYFARVGGLETNELNKLELDFLFLMGFKM 171 (225)
Q Consensus 106 l~~--~~~~~~l~~~n~hRL~ltsl~lAsK~~dD~~~~N~~~AkVgGis~~eLN~LE~~FL~lLdf~L 171 (225)
+.. ..+.+.+++.|+||++++|+|||+||+||.+|+|++||+|||++++|||.||++||.+|||+|
T Consensus 82 l~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v~gis~~eln~lE~~fL~~l~~~L 149 (149)
T PF08613_consen 82 LRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDNTYSNKSWAKVGGISLKELNELEREFLKLLDYNL 149 (149)
T ss_dssp HHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS---HHHHHHHHTS-HHHHHHHHHHHHHHTTT--
T ss_pred HHHhhcccccccccchhHHHHHHHHHHHHhhcccccccHHHHHhhcCCCHHHHHHHHHHHHHHCCCcC
Confidence 999 568899999999999999999999999999999999999999999999999999999999997
No 2
>KOG1674 consensus Cyclin [General function prediction only]
Probab=99.97 E-value=1.2e-31 Score=232.07 Aligned_cols=186 Identities=43% Similarity=0.735 Sum_probs=168.7
Q ss_pred cccccccccccccccccCccCCCCC-ChhHHHHHHHHHHHHHHHhhhhhhhhccccCCCCCcccccCCCCCchhHHHHHH
Q 041949 5 SASLVISPRKLRSDVYSYSYENDSN-TPLVISVLASLIERTMARNERIARNCRRALSKDSRSRVFDSHEIPDMTIQSYLE 83 (225)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~d~~-~p~~i~~la~lle~~i~~n~~~~~~~~~~~~~~~~~~~F~~~~~P~isi~~fl~ 83 (225)
+++..++|.++.+|....+...... .|.++..++.++++..+.|+..... .+.+....++.|++...|+|++++|++
T Consensus 6 ~~s~~~~~~~~~~~~~~~~~~~~ss~~p~~l~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~f~~~~~p~isi~~yle 83 (218)
T KOG1674|consen 6 TMSVYINPDKLRLNLPDNPTGRNSSITPIFLTCLSSLLKRLNDSNENLSRE--NNKSWASPTTGFDGVSTPNISIRQYLE 83 (218)
T ss_pred HhHhhcCccchhhccCcccccccccccchHHHHHHHHHHHHHhcChhhhcc--cccccccccccccCCCCCCcchHHHHH
Confidence 3567889999999988887766655 7999999999999999999876532 233456778899999999999999999
Q ss_pred HHHHHcCCCchHHHHHHHHHHHHHhh------CCCccccccc-hHHHHHHHHHHhhhhcccCCcccccccccCCCCHHHH
Q 041949 84 RIFRYTKAGPSVYVVAYVYIDRFCQA------NPGFRIHATN-VHRLLITTIMVASKYVEDLNYRNSYFARVGGLETNEL 156 (225)
Q Consensus 84 rI~~~~~~s~~~~llAliYldRl~~~------~~~~~l~~~n-~hRL~ltsl~lAsK~~dD~~~~N~~~AkVgGis~~eL 156 (225)
||.++++|+++|+++|++|+||+.++ .|...+++.| +||++++++++|+||.+|.+|+|++||++||++.+||
T Consensus 84 ri~k~~~~s~~~lv~al~Yldr~~~~~~~~~~~~~~~i~s~n~vhR~lit~v~vs~kf~~d~~y~n~~~a~vggl~~~el 163 (218)
T KOG1674|consen 84 RIFKYSKCSPECLVLALVYLDRFVKQPQARSVKPQSLINSLNKVHRLLITTVTVSTKFLDDVYYSNAYYAKVGGLTTDEL 163 (218)
T ss_pred HHHHHhcCCchhhhhhhhhhhhhhhhhcccccCcccccccchhHHHHHHHHHHHHHhhccchhhhHHHHHHhCCCChHhh
Confidence 99999999999999999999999996 6888999999 9999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhCCCceeeCHHHHHHHHHHHHHhhhhC
Q 041949 157 NKLELDFLFLMGFKMHVNVSVFESYCCHLEREVSIG 192 (225)
Q Consensus 157 N~LE~~FL~lLdf~L~Vs~~ef~~y~~~L~~~~~~~ 192 (225)
|.||.+||..+||+|.|+.++|+.|+..++++...+
T Consensus 164 n~lE~~~l~~~~~~l~i~~~~~~~~~~~~~~~~~~~ 199 (218)
T KOG1674|consen 164 NKLELDLLFLLDFRLIISRSEFNLYEDLLEREENLN 199 (218)
T ss_pred hhhhHHHHhhCCeEEEechhHHHHHHHHHHHHHhcc
Confidence 999999999999999999999999999999887654
No 3
>KOG1675 consensus Predicted cyclin [General function prediction only]
Probab=99.78 E-value=1.3e-19 Score=162.00 Aligned_cols=145 Identities=20% Similarity=0.281 Sum_probs=132.1
Q ss_pred CCCCchhHHHHHHHHHHHcCCCchHHHHHHHHHHHHHhhCCCccccccchHHHHHHHHHHhhhhcccCCcccccccccC-
Q 041949 71 HEIPDMTIQSYLERIFRYTKAGPSVYVVAYVYIDRFCQANPGFRIHATNVHRLLITTIMVASKYVEDLNYRNSYFARVG- 149 (225)
Q Consensus 71 ~~~P~isi~~fl~rI~~~~~~s~~~~llAliYldRl~~~~~~~~l~~~n~hRL~ltsl~lAsK~~dD~~~~N~~~AkVg- 149 (225)
..+|..-+..|+.-.+.+.+++.+|-++.++|++|+... .+..+++.||+|....++++|+|.|+|..++|-.|+++.
T Consensus 186 ~~~~~~ri~k~v~~l~~~~qlta~~aiitL~~~erl~~~-~e~~~~p~~w~r~~~g~il~sskv~~dqs~wnvdycqIlK 264 (343)
T KOG1675|consen 186 SHPGLVRIKKFVRILFSWAQLTAECDIITLVYAERLLWL-AERDPCPRNWSRAVLGEILLSSKVYDDQSVWNVDYCEILK 264 (343)
T ss_pred cCcchhheehhhhhHhhhhhhhhccchHHHHhhHhhhhH-hhcCCCcchhhhhhhhhheehhhhhhhhhcccHHHHHHHh
Confidence 344556788899999999999999999999999999984 456688999999999999999999999999999999995
Q ss_pred CCCHHHHHHHHHHHHHhCCCceeeCHHHHHHHHHHHHHhhhhCCCcccchhhc--chH--HHHhhhhhhhh
Q 041949 150 GLETNELNKLELDFLFLMGFKMHVNVSVFESYCCHLEREVSIGGGYHIERTLR--CAE--EIKSRQTEDRI 216 (225)
Q Consensus 150 Gis~~eLN~LE~~FL~lLdf~L~Vs~~ef~~y~~~L~~~~~~~~~~~~~~~~~--~~~--e~~~~~~~~~~ 216 (225)
.+++.+||.|||+||.+|+||+.|+..+|.+||..|...+..+...+...|+. .++ ||++|.|||||
T Consensus 265 d~tveDmNe~ERqfLelLqfNinvp~svYAKyYfdlr~Lae~n~L~f~~ePlsKeRaqkleA~sr~~EDkd 335 (343)
T KOG1675|consen 265 DQSVDDMNALERQFLELLQFNINVPSSEYAKYYFDLRCLAEANPLLFPCEPLSKERAQKLEAMGRDAEDKD 335 (343)
T ss_pred hccHhhHHHHHHHHHHHHhhccCccHHHHHHHHHHHhhhccccccccccccchhhHHHHHHHHhhhhccch
Confidence 69999999999999999999999999999999999999988888888888884 454 89999999998
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=99.35 E-value=3.5e-12 Score=99.18 Aligned_cols=93 Identities=19% Similarity=0.358 Sum_probs=79.9
Q ss_pred hHHHHHHHHHHHcCCCchHHHHHHHHHHHHHhhCCCccccccchHHHHHHHHHHhhhhcccCCcccccccccC--CCCHH
Q 041949 77 TIQSYLERIFRYTKAGPSVYVVAYVYIDRFCQANPGFRIHATNVHRLLITTIMVASKYVEDLNYRNSYFARVG--GLETN 154 (225)
Q Consensus 77 si~~fl~rI~~~~~~s~~~~llAliYldRl~~~~~~~~l~~~n~hRL~ltsl~lAsK~~dD~~~~N~~~AkVg--Gis~~ 154 (225)
.+.+|+.++....++++.++..|+.|+||+..+.+ +...+++.+.++|+++|+|+.++...+...|..++ .++.+
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 57789999999999999999999999999998653 67889999999999999999999888888888875 47999
Q ss_pred HHHHHHHHHHHhCCCcee
Q 041949 155 ELNKLELDFLFLMGFKMH 172 (225)
Q Consensus 155 eLN~LE~~FL~lLdf~L~ 172 (225)
++.+||+.+|..|+|+|+
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=98.86 E-value=1.7e-08 Score=71.96 Aligned_cols=84 Identities=19% Similarity=0.220 Sum_probs=77.0
Q ss_pred hHHHHHHHHHHHcCCCchHHHHHHHHHHHHHhhCCCccccccchHHHHHHHHHHhhhhcccCCcccccccccCCC-CHHH
Q 041949 77 TIQSYLERIFRYTKAGPSVYVVAYVYIDRFCQANPGFRIHATNVHRLLITTIMVASKYVEDLNYRNSYFARVGGL-ETNE 155 (225)
Q Consensus 77 si~~fl~rI~~~~~~s~~~~llAliYldRl~~~~~~~~l~~~n~hRL~ltsl~lAsK~~dD~~~~N~~~AkVgGi-s~~e 155 (225)
...+|+.++.+..++++.+...|..|+||+...++ +...+.+.+.++|+.+|+|+.++ ..+++.+.+++|. +.++
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 67899999999999999999999999999998653 34788999999999999999988 8899999999999 9999
Q ss_pred HHHHHHHHH
Q 041949 156 LNKLELDFL 164 (225)
Q Consensus 156 LN~LE~~FL 164 (225)
+..+|.++|
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=98.64 E-value=1.9e-07 Score=65.80 Aligned_cols=82 Identities=18% Similarity=0.220 Sum_probs=72.5
Q ss_pred HHHHHHHHHcCCCchHHHHHHHHHHHHHhhCCCccccccchHHHHHHHHHHhhhhcccCCcccccccccCCC-CHHHHHH
Q 041949 80 SYLERIFRYTKAGPSVYVVAYVYIDRFCQANPGFRIHATNVHRLLITTIMVASKYVEDLNYRNSYFARVGGL-ETNELNK 158 (225)
Q Consensus 80 ~fl~rI~~~~~~s~~~~llAliYldRl~~~~~~~~l~~~n~hRL~ltsl~lAsK~~dD~~~~N~~~AkVgGi-s~~eLN~ 158 (225)
+|+.++.+..++++.+...|..++||+...+. + ...+.+.+..+|+.+|+|..+.. .+++.+.++.|+ +.+++..
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~-~--~~~~~~~ia~a~l~lA~k~~~~~-~~~~~~~~~~~~~~~~~i~~ 76 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYK-F--LKYSPSLIAAAALYLAAKTEEIP-PWTKELVHYTGYFTEEEILR 76 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhh-c--ccCCHHHHHHHHHHHHHHHhcCC-CCchhHhHhhCCCCHHHHHH
Confidence 48999999999999999999999999988532 2 34889999999999999999876 688899999888 9999999
Q ss_pred HHHHHHH
Q 041949 159 LELDFLF 165 (225)
Q Consensus 159 LE~~FL~ 165 (225)
+|+++|.
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=98.27 E-value=5.1e-06 Score=76.42 Aligned_cols=107 Identities=17% Similarity=0.171 Sum_probs=84.6
Q ss_pred hHHHHHHHHHHHcCCCchHHHHHHHHHHHHHhhCCCccccccchHHHHHHHHHHhhhhcccCCcccccccccC---CCCH
Q 041949 77 TIQSYLERIFRYTKAGPSVYVVAYVYIDRFCQANPGFRIHATNVHRLLITTIMVASKYVEDLNYRNSYFARVG---GLET 153 (225)
Q Consensus 77 si~~fl~rI~~~~~~s~~~~llAliYldRl~~~~~~~~l~~~n~hRL~ltsl~lAsK~~dD~~~~N~~~AkVg---Gis~ 153 (225)
--.+|+-++.++-+|++.|+.+|.-|+|||....+--.-.++-..-+-++|+-+|+|+-+-....-..+--.+ -+..
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 3568999999999999999999999999999854322233455788999999999999876533333332221 2689
Q ss_pred HHHHHHHHHHHHhCCCcee-eCHHHHHHHHH
Q 041949 154 NELNKLELDFLFLMGFKMH-VNVSVFESYCC 183 (225)
Q Consensus 154 ~eLN~LE~~FL~lLdf~L~-Vs~~ef~~y~~ 183 (225)
+.|-+||+-.|..|+|++. |++-.|-+|.-
T Consensus 160 ktI~rmELLVLstL~Wrl~aVTP~sF~~~fl 190 (335)
T KOG0656|consen 160 KTIQRMELLVLSTLKWRLRAVTPFSFIDHFL 190 (335)
T ss_pred HHHHHHHHHHHhhccccccCCCchHHHHHHH
Confidence 9999999999999999998 78888888763
No 8
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=97.93 E-value=7.7e-05 Score=69.97 Aligned_cols=94 Identities=18% Similarity=0.337 Sum_probs=77.8
Q ss_pred hHHHHHHHHHHHcCCCchHHHHHHHHHHHHHhhCCCccccccchHHHHHHHHH-HhhhhcccCC-ccccccccc--CCCC
Q 041949 77 TIQSYLERIFRYTKAGPSVYVVAYVYIDRFCQANPGFRIHATNVHRLLITTIM-VASKYVEDLN-YRNSYFARV--GGLE 152 (225)
Q Consensus 77 si~~fl~rI~~~~~~s~~~~llAliYldRl~~~~~~~~l~~~n~hRL~ltsl~-lAsK~~dD~~-~~N~~~AkV--gGis 152 (225)
-+.+|+..++.+.+++++++-+|+-++|||....+ +...-..-+-++|++ +|+|| ++.. ..-..+.-+ +.++
T Consensus 160 iLvdwlvevh~~F~L~~ETL~LaVnliDRfL~~~~---v~~~~lqLvgvsalf~IA~K~-EE~~~P~v~dlv~isd~~~s 235 (391)
T KOG0653|consen 160 ILVDWLVEVHEKFGLSPETLYLAVNLIDRFLSKVK---VPLKKLQLVGVSALLSIACKY-EEISLPSVEDLVLITDGAYS 235 (391)
T ss_pred HHHHHHHHhhhhcCcCHHHHHHHHHHHHHHHHHhc---ccHHHhhHHhHHHHHHHHHhh-hhccCCccceeEeeeCCccc
Confidence 46789999999999999999999999999999743 445556677788867 99999 4443 334555555 6689
Q ss_pred HHHHHHHHHHHHHhCCCceeeC
Q 041949 153 TNELNKLELDFLFLMGFKMHVN 174 (225)
Q Consensus 153 ~~eLN~LE~~FL~lLdf~L~Vs 174 (225)
.+++-.||...|..|+|++.++
T Consensus 236 ~~~il~mE~~il~~L~f~l~~p 257 (391)
T KOG0653|consen 236 REEILRMEKYILNVLEFDLSVP 257 (391)
T ss_pred hHHHHHHHHHHHhccCeeecCC
Confidence 9999999999999999999997
No 9
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=97.64 E-value=0.00017 Score=66.25 Aligned_cols=102 Identities=22% Similarity=0.339 Sum_probs=87.2
Q ss_pred cCCCCCchh--HHHHHHHHHHHcCCCchHHHHHHHHHHHHHhhCCCccccccchHHHHHHHHHHhhhhcccCCccccccc
Q 041949 69 DSHEIPDMT--IQSYLERIFRYTKAGPSVYVVAYVYIDRFCQANPGFRIHATNVHRLLITTIMVASKYVEDLNYRNSYFA 146 (225)
Q Consensus 69 ~~~~~P~is--i~~fl~rI~~~~~~s~~~~llAliYldRl~~~~~~~~l~~~n~hRL~ltsl~lAsK~~dD~~~~N~~~A 146 (225)
|..-.|+.. +.||+-.+..-.++-.++|-+|.=|+||+.... ..++..|..-+-++|+.+|+|+-+=....-..||
T Consensus 137 Hpdlqp~mRaILlDWlmEVCEvykLHRETFyLAvDy~DRyl~t~--~~v~kt~lQLIGitsLFIAAK~EEIYpPKl~eFA 214 (408)
T KOG0655|consen 137 HPDLQPQMRAILLDWLMEVCEVYKLHRETFYLAVDYFDRYLETQ--VEVSKTNLQLIGITSLFIAAKLEEIYPPKLIEFA 214 (408)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH--HHhhhhhHHHhhHHHHHHHHHHhhccCcccccee
Confidence 444456543 678999999999999999999999999999964 4556778888999999999998776667778899
Q ss_pred cc--CCCCHHHHHHHHHHHHHhCCCcee
Q 041949 147 RV--GGLETNELNKLELDFLFLMGFKMH 172 (225)
Q Consensus 147 kV--gGis~~eLN~LE~~FL~lLdf~L~ 172 (225)
-| |..|-.+|-.||+-+|+.|+|+|.
T Consensus 215 yvTDgAcs~ddIltmE~iilkal~W~l~ 242 (408)
T KOG0655|consen 215 YVTDGACSEDDILTMELIILKALKWELS 242 (408)
T ss_pred eeccCccchHHHHHHHHHHHHHhccccc
Confidence 88 679999999999999999999996
No 10
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=97.43 E-value=0.00069 Score=61.84 Aligned_cols=91 Identities=20% Similarity=0.185 Sum_probs=72.1
Q ss_pred HHHHHHHHHcC--CCchHHHHHHHHHHHHHhhCCCccccccchHHHHHHHHHHhhhhcccCCcccccccccC-CC---CH
Q 041949 80 SYLERIFRYTK--AGPSVYVVAYVYIDRFCQANPGFRIHATNVHRLLITTIMVASKYVEDLNYRNSYFARVG-GL---ET 153 (225)
Q Consensus 80 ~fl~rI~~~~~--~s~~~~llAliYldRl~~~~~~~~l~~~n~hRL~ltsl~lAsK~~dD~~~~N~~~AkVg-Gi---s~ 153 (225)
.++.++....+ ++..+.-.|.+|++||..++. +.....+-+.+||+.+|+|+-+-. .+-..+.+.. +- ..
T Consensus 61 ~~i~~~~~~lkp~Lpq~viaTAivyf~RFy~~~S---v~~~~p~~Ia~tclfLA~KvEE~~-~si~~fv~~~~~~~~~~~ 136 (305)
T TIGR00569 61 KRLLDFCSAFKPTMPTSVVGTAIMYFKRFYLNNS---VMEYHPKIIMLTCVFLACKVEEFN-VSIDQFVGNLKETPLKAL 136 (305)
T ss_pred HHHHHHHHHhcCCCCchHHHHHHHHHhHHhccCc---hhhcCHHHHHHHHHHHHHhccccC-cCHHHHHhhccCCchhhH
Confidence 45677778888 999999999999999988642 446778999999999999976543 3444444332 22 35
Q ss_pred HHHHHHHHHHHHhCCCceeeC
Q 041949 154 NELNKLELDFLFLMGFKMHVN 174 (225)
Q Consensus 154 ~eLN~LE~~FL~lLdf~L~Vs 174 (225)
.+|-.+|..+|..|+|+|.|.
T Consensus 137 ~~Il~~E~~lL~~L~F~L~V~ 157 (305)
T TIGR00569 137 EQVLEYELLLIQQLNFHLIVH 157 (305)
T ss_pred HHHHHHHHHHHHHCCCcEEee
Confidence 899999999999999999987
No 11
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=96.97 E-value=0.0023 Score=61.11 Aligned_cols=98 Identities=18% Similarity=0.216 Sum_probs=81.7
Q ss_pred hHHHHHHHHHHHcCCCchHHHHHHHHHHHHHhhCCCccccccch-HHHHHHHHHHhhhhcccCCccccccccc--CCCCH
Q 041949 77 TIQSYLERIFRYTKAGPSVYVVAYVYIDRFCQANPGFRIHATNV-HRLLITTIMVASKYVEDLNYRNSYFARV--GGLET 153 (225)
Q Consensus 77 si~~fl~rI~~~~~~s~~~~llAliYldRl~~~~~~~~l~~~n~-hRL~ltsl~lAsK~~dD~~~~N~~~AkV--gGis~ 153 (225)
.|-+|+..++...++.|+++.+|.-.+||+.... .+. .+. .-+-++|+.+|+||-+=.+..-+.|+-+ |.++.
T Consensus 215 ~Lv~wlvevH~~F~llpeTL~lainiiDrfLs~~-~v~---l~k~QLvg~s~LfIa~K~EE~~~p~i~~l~~~t~g~~t~ 290 (440)
T COG5024 215 ILVDWLVEVHGKFGLLPETLFLAINIIDRFLSSR-VVS---LEKYQLVGISALFIASKYEEVNCPSIKDLVYATDGAFTR 290 (440)
T ss_pred HHHHHHHHhcccccccchHHHHHHHHHHHHhccC-ccc---HHHHHHHHHHHHHHHHhHhHhcCHHHHHHHHHHcccccH
Confidence 4778999999999999999999999999999963 333 343 4455789999999987777677776665 78999
Q ss_pred HHHHHHHHHHHHhCCCceeeC-HHHH
Q 041949 154 NELNKLELDFLFLMGFKMHVN-VSVF 178 (225)
Q Consensus 154 ~eLN~LE~~FL~lLdf~L~Vs-~~ef 178 (225)
+++..+|+..|..++|++..+ +.-|
T Consensus 291 ~~i~~aE~~ml~~l~f~is~P~P~sF 316 (440)
T COG5024 291 DDIIRAERYMLEVLDFNISWPSPMSF 316 (440)
T ss_pred HHHHHHHHHHhhhcccccCCCChHHH
Confidence 999999999999999999877 5555
No 12
>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=96.92 E-value=0.0042 Score=56.43 Aligned_cols=98 Identities=14% Similarity=0.262 Sum_probs=81.9
Q ss_pred HHHHHHHHHcCCCchHHHHHHHHHHHHHhhCCCccccccchHHHHHHHHHHhhhhcc---cC----CcccccccccCCCC
Q 041949 80 SYLERIFRYTKAGPSVYVVAYVYIDRFCQANPGFRIHATNVHRLLITTIMVASKYVE---DL----NYRNSYFARVGGLE 152 (225)
Q Consensus 80 ~fl~rI~~~~~~s~~~~llAliYldRl~~~~~~~~l~~~n~hRL~ltsl~lAsK~~d---D~----~~~N~~~AkVgGis 152 (225)
.++.++-.+.+++..+.-.|.+|.+|+.-+++ +...+.+-+..||+.+|.|+-| |. +.-+.-|+..---+
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 67888889999999999999999999988643 6778899999999999999877 21 23344577777789
Q ss_pred HHHHHHHHHHHHHhCCCceeeC-HHHHHH
Q 041949 153 TNELNKLELDFLFLMGFKMHVN-VSVFES 180 (225)
Q Consensus 153 ~~eLN~LE~~FL~lLdf~L~Vs-~~ef~~ 180 (225)
.+.+-.+|.+.|+.|+|++.|. +-.+..
T Consensus 127 r~~Il~~E~~lLEaL~fd~~V~hPy~~l~ 155 (297)
T COG5333 127 RERILEYEFELLEALDFDLHVHHPYKYLE 155 (297)
T ss_pred HHHHHHHHHHHHHHcccceEeccccHHHH
Confidence 9999999999999999999997 444443
No 13
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=96.68 E-value=0.0029 Score=59.45 Aligned_cols=109 Identities=15% Similarity=0.162 Sum_probs=89.4
Q ss_pred hHHHHHHHHHHHcCCCchHHHHHHHHHHHHHhhCCCccccccchHHHHHHHHHHhhhhcccCCccccccc----ccCCCC
Q 041949 77 TIQSYLERIFRYTKAGPSVYVVAYVYIDRFCQANPGFRIHATNVHRLLITTIMVASKYVEDLNYRNSYFA----RVGGLE 152 (225)
Q Consensus 77 si~~fl~rI~~~~~~s~~~~llAliYldRl~~~~~~~~l~~~n~hRL~ltsl~lAsK~~dD~~~~N~~~A----kVgGis 152 (225)
|+..-+.++-.-|++...+.-.|.||++++.-++ .++..|-+-.--+|+++|.|+-|=.--.-+.+- ..+..+
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 6778888888899999999999999999999863 356777888888999999999833333333322 246788
Q ss_pred HHHHHHHHHHHHHhCCCceeeCHHHHHHHHHHHHHh
Q 041949 153 TNELNKLELDFLFLMGFKMHVNVSVFESYCCHLERE 188 (225)
Q Consensus 153 ~~eLN~LE~~FL~lLdf~L~Vs~~ef~~y~~~L~~~ 188 (225)
.+||-..|.-.|..|+|.|+++.+|..-.|+.|+.+
T Consensus 461 rrdLia~Ef~VlvaLefaL~~~~~eVlPHy~RL~~e 496 (497)
T KOG4164|consen 461 RRDLIAFEFPVLVALEFALHLPEHEVLPHYRRLQQE 496 (497)
T ss_pred HHhhhhhhhhHHHhhhhhccCChhhcchHHHHHhhc
Confidence 999999999999999999999999999888888754
No 14
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=94.32 E-value=0.17 Score=46.80 Aligned_cols=111 Identities=16% Similarity=0.174 Sum_probs=79.5
Q ss_pred hHHHHHHHHHHHcCCCchHHHHHHHHHHHHHhhCCCccccccchHHHHHHHHHHhhhhcccC------C-cccccccccC
Q 041949 77 TIQSYLERIFRYTKAGPSVYVVAYVYIDRFCQANPGFRIHATNVHRLLITTIMVASKYVEDL------N-YRNSYFARVG 149 (225)
Q Consensus 77 si~~fl~rI~~~~~~s~~~~llAliYldRl~~~~~~~~l~~~n~hRL~ltsl~lAsK~~dD~------~-~~N~~~AkVg 149 (225)
....||..+-.+.+++.-++-.|.+|..||...+ .+.....+-+-.+|+.+|.|.-|-- . -+++++....
T Consensus 41 ~~~~fI~elg~~L~~~~~ti~tA~~~~hRFy~~~---s~~~~~~~~vA~sclfLAgKvEetp~kl~dIi~~s~~~~~~~~ 117 (323)
T KOG0834|consen 41 EGAKFIQELGVRLKMPQKTIATAIVIFHRFYMFH---SFKKFDPYTVAASCLFLAGKVEETPRKLEDIIKVSYRYLNPKD 117 (323)
T ss_pred HHHHHHHHHHHHcCCCccchhhhhhhhhhhhhhc---ccccCcHHHHHHHHHHHHhhcccCcccHHHHHHHHHHHcCccc
Confidence 4557999999999999999999999999998853 2344445667888999999974332 1 1222222110
Q ss_pred -------CCCHHHHHHHHHHHHHhCCCceeeC-HHHHH-HHHHHHHHhhh
Q 041949 150 -------GLETNELNKLELDFLFLMGFKMHVN-VSVFE-SYCCHLEREVS 190 (225)
Q Consensus 150 -------Gis~~eLN~LE~~FL~lLdf~L~Vs-~~ef~-~y~~~L~~~~~ 190 (225)
-=..+++-.+|+-.|..|+|++.|. +..|. +|+..+.....
T Consensus 118 ~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~l~~~~~ 167 (323)
T KOG0834|consen 118 LELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKKLKADEN 167 (323)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHHhhhhhh
Confidence 0136889999999999999999998 35554 67777765543
No 15
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=93.07 E-value=1 Score=40.99 Aligned_cols=102 Identities=16% Similarity=0.144 Sum_probs=80.1
Q ss_pred HHHHHHHHHcCCCchHHHHHHHHHHHHHhhCCCccccccchHHHHHHHHHHhhhhcccCCcccccccccCCCCHHHHHHH
Q 041949 80 SYLERIFRYTKAGPSVYVVAYVYIDRFCQANPGFRIHATNVHRLLITTIMVASKYVEDLNYRNSYFARVGGLETNELNKL 159 (225)
Q Consensus 80 ~fl~rI~~~~~~s~~~~llAliYldRl~~~~~~~~l~~~n~hRL~ltsl~lAsK~~dD~~~~N~~~AkVgGis~~eLN~L 159 (225)
..|.++....+++..+.=-|..+..++.... . +...+..-+..+|+-+|.|. +....+-+..+.+.+++.+++.+.
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 4567777888899888888888888887742 2 34556778888889899886 777788889999999999999999
Q ss_pred HHHHHHhCCCceeeC-HHHHH-HHHHHH
Q 041949 160 ELDFLFLMGFKMHVN-VSVFE-SYCCHL 185 (225)
Q Consensus 160 E~~FL~lLdf~L~Vs-~~ef~-~y~~~L 185 (225)
++.+++.|++++-.. +++|. +|+..|
T Consensus 203 ~~~l~k~L~~~~~~~~p~~~i~r~~~~L 230 (310)
T PRK00423 203 YRFLLRELNLKLPPTDPIDYVPRFASEL 230 (310)
T ss_pred HHHHHHHhCCCCCCCCHHHHHHHHHHHc
Confidence 999999999887553 55554 455544
No 16
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=92.84 E-value=0.15 Score=45.13 Aligned_cols=96 Identities=18% Similarity=0.203 Sum_probs=76.6
Q ss_pred hhHHHHHHHHHHHcCCCchHHHHHHHHHHHHHhhCCCccccccchHHHHHHHHHHhhhhcccC-Cc-------ccc----
Q 041949 76 MTIQSYLERIFRYTKAGPSVYVVAYVYIDRFCQANPGFRIHATNVHRLLITTIMVASKYVEDL-NY-------RNS---- 143 (225)
Q Consensus 76 isi~~fl~rI~~~~~~s~~~~llAliYldRl~~~~~~~~l~~~n~hRL~ltsl~lAsK~~dD~-~~-------~N~---- 143 (225)
|-..+++..+-.+.++--.++-.|.+|+.|+..+.. +...+..-+..||+-+|+|.-+-- .+ .+.
T Consensus 42 i~~~n~I~~lg~~lklRQ~ViATAivY~rRfy~r~S---~k~~~p~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L~~~ 118 (264)
T KOG0794|consen 42 IFMANVIQKLGQHLKLRQRVIATAIVYFRRFYLRKS---LKEIEPRLLAPTCLYLACKVEECPIVHIRLLVNEAKVLKTR 118 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh---hhccCHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHhhh
Confidence 445577888888889999999999999999998743 456778899999999999986552 11 111
Q ss_pred --cccccCCCCHHHHHHHHHHHHHhCCCceeeC
Q 041949 144 --YFARVGGLETNELNKLELDFLFLMGFKMHVN 174 (225)
Q Consensus 144 --~~AkVgGis~~eLN~LE~~FL~lLdf~L~Vs 174 (225)
+|..-.....+.+-.+|...|..||+-|.|-
T Consensus 119 f~~~~e~~~~~~~~I~e~Ef~llE~Ld~~LIVh 151 (264)
T KOG0794|consen 119 FSYWPEKFPYERKDILEMEFYLLEALDCYLIVH 151 (264)
T ss_pred cccchhhcCCCcCcchhhhhhHHhhhceeEEEe
Confidence 4666667788999999999999999999884
No 17
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=92.11 E-value=1.3 Score=41.10 Aligned_cols=97 Identities=19% Similarity=0.216 Sum_probs=67.4
Q ss_pred HHcCCCchHHHHHHHHHHHHHhhCCCccccccchHHHHHHHHHHhhhhcccCCcc--------------------ccccc
Q 041949 87 RYTKAGPSVYVVAYVYIDRFCQANPGFRIHATNVHRLLITTIMVASKYVEDLNYR--------------------NSYFA 146 (225)
Q Consensus 87 ~~~~~s~~~~llAliYldRl~~~~~~~~l~~~n~hRL~ltsl~lAsK~~dD~~~~--------------------N~~~A 146 (225)
--.+++-.|...++|++.|++...+. -..+..-+..+|+.+|||.-+.-.-- ...++
T Consensus 35 ILL~L~q~a~atgqVLFqRf~~~ks~---v~~~~e~vv~ACv~LASKiEE~Prr~rdVinVFh~L~~r~~~~~~~~~~~~ 111 (367)
T KOG0835|consen 35 ILLNLPQVAMATGQVLFQRFCYSKSF---VRHDFEIVVMACVLLASKIEEEPRRIRDVINVFHYLEQRRESEAAEHLILA 111 (367)
T ss_pred HhhcCcHHHHHHHHHHHHHHHhcccc---ccccHHHHHHHHHHHHhhhccccccHhHHHHHHHHHHHHHhccCcchhhhh
Confidence 44568889999999999999996432 23567789999999999986543210 00011
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCceeeC--HHHHHHHHHHHH
Q 041949 147 RVGGLETNELNKLELDFLFLMGFKMHVN--VSVFESYCCHLE 186 (225)
Q Consensus 147 kVgGis~~eLN~LE~~FL~lLdf~L~Vs--~~ef~~y~~~L~ 186 (225)
+-.-=-....-..|++.|..|+|.++|. -..+..|...|+
T Consensus 112 ~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~ 153 (367)
T KOG0835|consen 112 RLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQ 153 (367)
T ss_pred hHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhc
Confidence 1100013456788999999999999987 556678887765
No 18
>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=89.96 E-value=2.7 Score=38.62 Aligned_cols=81 Identities=20% Similarity=0.239 Sum_probs=64.3
Q ss_pred CCCchHHHHHHHHHHHHHhhCCCccccccchHHHHHHHHHHhhhhcccCCcccccccccCC----CCHHHHHHHHHHHHH
Q 041949 90 KAGPSVYVVAYVYIDRFCQANPGFRIHATNVHRLLITTIMVASKYVEDLNYRNSYFARVGG----LETNELNKLELDFLF 165 (225)
Q Consensus 90 ~~s~~~~llAliYldRl~~~~~~~~l~~~n~hRL~ltsl~lAsK~~dD~~~~N~~~AkVgG----is~~eLN~LE~~FL~ 165 (225)
.+++++.-.|+.|..|+.-.+. +......-++.||+.+|.|. ++.+.+-..|.+-.. =+...+-..|...|+
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 5788889999999999987542 34566788999999999995 466666666665432 468889999999999
Q ss_pred hCCCceeeC
Q 041949 166 LMGFKMHVN 174 (225)
Q Consensus 166 lLdf~L~Vs 174 (225)
.|+|+|.|-
T Consensus 149 sL~f~L~vh 157 (325)
T KOG2496|consen 149 SLKFSLTVH 157 (325)
T ss_pred hhhhhheec
Confidence 999999985
No 19
>KOG1674 consensus Cyclin [General function prediction only]
Probab=89.82 E-value=0.2 Score=43.66 Aligned_cols=94 Identities=16% Similarity=0.102 Sum_probs=72.8
Q ss_pred HHHHHHHHHH--HHHhhCCCcc-ccccchHHHHHHHHHHhhhhcccCCc-----ccccccc-cCC-CCHHHHHHHHHHHH
Q 041949 95 VYVVAYVYID--RFCQANPGFR-IHATNVHRLLITTIMVASKYVEDLNY-----RNSYFAR-VGG-LETNELNKLELDFL 164 (225)
Q Consensus 95 ~~llAliYld--Rl~~~~~~~~-l~~~n~hRL~ltsl~lAsK~~dD~~~-----~N~~~Ak-VgG-is~~eLN~LE~~FL 164 (225)
+.+.+..|++ |+....+... ....+.++.++++++.+.|...|..- +++.|+. +.| ......|.+|+++|
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 5667788888 8877544321 23456899999999999999988876 7888985 334 46888999999999
Q ss_pred HhCCCceeeCHHHHHHHHHHHHHh
Q 041949 165 FLMGFKMHVNVSVFESYCCHLERE 188 (225)
Q Consensus 165 ~lLdf~L~Vs~~ef~~y~~~L~~~ 188 (225)
..++|...+++++|..=+-.+.+.
T Consensus 83 eri~k~~~~s~~~lv~al~Yldr~ 106 (218)
T KOG1674|consen 83 ERIFKYSKCSPECLVLALVYLDRF 106 (218)
T ss_pred HHHHHHhcCCchhhhhhhhhhhhh
Confidence 999999999999998644444443
No 20
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=89.71 E-value=3 Score=37.99 Aligned_cols=95 Identities=15% Similarity=0.132 Sum_probs=76.2
Q ss_pred CCCchhHHHHHHHHHHHcCCCchHHHHHHHHHHHHHhhCCCccccccchHHHHHHHHHHhhhhcccCCcccccccccCCC
Q 041949 72 EIPDMTIQSYLERIFRYTKAGPSVYVVAYVYIDRFCQANPGFRIHATNVHRLLITTIMVASKYVEDLNYRNSYFARVGGL 151 (225)
Q Consensus 72 ~~P~isi~~fl~rI~~~~~~s~~~~llAliYldRl~~~~~~~~l~~~n~hRL~ltsl~lAsK~~dD~~~~N~~~AkVgGi 151 (225)
..|.++-.+|+.|+....+++..+.-.|...+.+.... ++ ....++.-+..+|+-+|++... ..-+.+..+++.|+
T Consensus 213 ~~~~~~p~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~--~l-~~Gr~P~sIAAAaIYlA~~~~g-~~~t~keIa~v~~V 288 (310)
T PRK00423 213 KLPPTDPIDYVPRFASELGLSGEVQKKAIEILQKAKEK--GL-TSGKGPTGLAAAAIYIASLLLG-ERRTQREVAEVAGV 288 (310)
T ss_pred CCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc--Cc-ccCCCHHHHHHHHHHHHHHHhC-CCCCHHHHHHHcCC
Confidence 46677889999999999999999988888777777653 33 3567889999999999999764 44678889999999
Q ss_pred CHHHHHHHHHHHHHhCCCc
Q 041949 152 ETNELNKLELDFLFLMGFK 170 (225)
Q Consensus 152 s~~eLN~LE~~FL~lLdf~ 170 (225)
+...+..-=.++...++..
T Consensus 289 s~~tI~~~ykel~~~l~~~ 307 (310)
T PRK00423 289 TEVTVRNRYKELAEKLDIK 307 (310)
T ss_pred CHHHHHHHHHHHHHHhCcc
Confidence 9999887666666666543
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=82.80 E-value=8.9 Score=26.83 Aligned_cols=71 Identities=11% Similarity=0.104 Sum_probs=54.2
Q ss_pred HHHHHHHcCCCchHHHHHHHHHHHHHhhCCCccccccchHHHHHHHHHHhhhhcccCCcccccccccCCCCHHHH
Q 041949 82 LERIFRYTKAGPSVYVVAYVYIDRFCQANPGFRIHATNVHRLLITTIMVASKYVEDLNYRNSYFARVGGLETNEL 156 (225)
Q Consensus 82 l~rI~~~~~~s~~~~llAliYldRl~~~~~~~~l~~~n~hRL~ltsl~lAsK~~dD~~~~N~~~AkVgGis~~eL 156 (225)
+.|+....+++..+.=.|..+.++..... + ....+..-+..+|+-+|.+.. +...+-+..+.+.||+.+++
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 56888899999999999998888887742 2 345667888889999998765 66678888999999998775
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=78.57 E-value=6 Score=29.38 Aligned_cols=87 Identities=14% Similarity=0.143 Sum_probs=55.5
Q ss_pred hHHHHHHHHHHHcCCCchHHHHHHHHHHHHHhhCCCccccccchHHHHHHHHHHhhhhcccCCcccccccccCCCCHHHH
Q 041949 77 TIQSYLERIFRYTKAGPSVYVVAYVYIDRFCQANPGFRIHATNVHRLLITTIMVASKYVEDLNYRNSYFARVGGLETNEL 156 (225)
Q Consensus 77 si~~fl~rI~~~~~~s~~~~llAliYldRl~~~~~~~~l~~~n~hRL~ltsl~lAsK~~dD~~~~N~~~AkVgGis~~eL 156 (225)
+..+||+++.+..+.+..+.-++.+.++--... ...-....-.+-.+|+.+|.+.++....++....+..|++.+++
T Consensus 2 Tp~~Fl~~~~~~~~~~~~~~~~a~~l~el~l~~---~~fl~~~PS~iAaAai~lA~~~~~~~~~~~~~l~~~t~~~~~~l 78 (118)
T PF02984_consen 2 TPYDFLRRFLKISNADQEVRNLARYLLELSLLD---YEFLQYPPSVIAAAAILLARKILGKEPPWPESLEKLTGYDKEDL 78 (118)
T ss_dssp -HHHHHHHHHTSSSHHHHHHHHHHHHHHHHHHS---HHHTTS-HHHHHHHHHHHHHHHHHSSTCSHHHHHHHHTS-HHHH
T ss_pred cHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhh---ccccCCCHHHHHHHHHHHHHHHhCccccCCccchhhcCCCHHHH
Confidence 567899998776666667777777777754442 12334556688899999999998744455555556677777666
Q ss_pred HHHHHHHHHh
Q 041949 157 NKLELDFLFL 166 (225)
Q Consensus 157 N~LE~~FL~l 166 (225)
...=..+...
T Consensus 79 ~~c~~~i~~~ 88 (118)
T PF02984_consen 79 KECIELIQEL 88 (118)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHHH
Confidence 5544444433
No 23
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=66.81 E-value=2.3 Score=39.96 Aligned_cols=97 Identities=19% Similarity=0.261 Sum_probs=77.0
Q ss_pred hHHHHHHHHHHHcCCCchHHHHHHHHHHHHHhhCCCccccccchHHHHHHHHHHhhhhcccCCccccccccc--CCCCHH
Q 041949 77 TIQSYLERIFRYTKAGPSVYVVAYVYIDRFCQANPGFRIHATNVHRLLITTIMVASKYVEDLNYRNSYFARV--GGLETN 154 (225)
Q Consensus 77 si~~fl~rI~~~~~~s~~~~llAliYldRl~~~~~~~~l~~~n~hRL~ltsl~lAsK~~dD~~~~N~~~AkV--gGis~~ 154 (225)
.+.+++-.+.+-.....+++-++..|+||+.... .++...-|++=++++++|+||.+-....-..+..+ .-+.-.
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 6789999999999999999999999999998843 34556678888999999999976554333333322 224688
Q ss_pred HHHHHHHHHHHhCCCceeeCHH
Q 041949 155 ELNKLELDFLFLMGFKMHVNVS 176 (225)
Q Consensus 155 eLN~LE~~FL~lLdf~L~Vs~~ 176 (225)
++-.||...|..+.|.+.++..
T Consensus 216 qv~~~~~~il~~l~~~~~~pt~ 237 (359)
T KOG0654|consen 216 QVLRMEIDILNALTFELVRPTS 237 (359)
T ss_pred HHHHHHHHHHHHhHHHHhCchH
Confidence 9999999999999999998843
No 24
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=65.53 E-value=38 Score=30.79 Aligned_cols=82 Identities=17% Similarity=0.184 Sum_probs=66.2
Q ss_pred CCCchhHHHHHHHHHHHcCCCchHHHHHHHHHHHHHhhCCCccccccchHHHHHHHHHHhhhhcccCCcccccccccCCC
Q 041949 72 EIPDMTIQSYLERIFRYTKAGPSVYVVAYVYIDRFCQANPGFRIHATNVHRLLITTIMVASKYVEDLNYRNSYFARVGGL 151 (225)
Q Consensus 72 ~~P~isi~~fl~rI~~~~~~s~~~~llAliYldRl~~~~~~~~l~~~n~hRL~ltsl~lAsK~~dD~~~~N~~~AkVgGi 151 (225)
..|.+...+|+.|+.+..+++.++--.|.-.+++..... .. .....--+-.+|+.+|++..+ ..-+.+.-|+|.|+
T Consensus 188 ~~~~~~p~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g--~~-~Gk~P~glAaaaiy~as~l~~-~~~tq~eva~v~~v 263 (285)
T COG1405 188 KIPPVDPSDYIPRFASKLGLSDEVRRKAIEIVKKAKRAG--LT-AGKSPAGLAAAAIYLASLLLG-ERRTQKEVAKVAGV 263 (285)
T ss_pred CCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhC--cc-cCCCchhHHHHHHHHHHHHhC-CchHHHHHHHHhCC
Confidence 455588999999999999999999999999999888853 32 245677888999999999877 66778888889998
Q ss_pred CHHHHH
Q 041949 152 ETNELN 157 (225)
Q Consensus 152 s~~eLN 157 (225)
+..-|.
T Consensus 264 tevTIr 269 (285)
T COG1405 264 TEVTIR 269 (285)
T ss_pred eeeHHH
Confidence 755444
No 25
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=57.55 E-value=1.4e+02 Score=27.11 Aligned_cols=106 Identities=17% Similarity=0.193 Sum_probs=75.5
Q ss_pred hhHHHHHHHHHHHcCCCchHHHHHHHHHHHHHhhCCCccccccchHHHHHHHHHHhhhhcccCCcccccccccCCCCHHH
Q 041949 76 MTIQSYLERIFRYTKAGPSVYVVAYVYIDRFCQANPGFRIHATNVHRLLITTIMVASKYVEDLNYRNSYFARVGGLETNE 155 (225)
Q Consensus 76 isi~~fl~rI~~~~~~s~~~~llAliYldRl~~~~~~~~l~~~n~hRL~ltsl~lAsK~~dD~~~~N~~~AkVgGis~~e 155 (225)
+....++.++....+++..+--.|....-+.... ++ +...++.-++.+|+-+|.+ ......+-...+++.+++.++
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 ITALEELERIASALGLPESVRETAARIYRKAVDK--GL-LRGRSIESVAAACIYAACR-INGVPRTLDEIAKALGVSKKE 173 (285)
T ss_pred HHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhc--CC-CcCCcHHHHHHHHHHHHHH-HcCCCccHHHHHHHHCCCHHH
Confidence 4667789999999999999988888666666553 22 2334455555555555555 677788888999999999999
Q ss_pred HHHHHHHHHHhCCCcee-eCHHHHH-HHHHHH
Q 041949 156 LNKLELDFLFLMGFKMH-VNVSVFE-SYCCHL 185 (225)
Q Consensus 156 LN~LE~~FL~lLdf~L~-Vs~~ef~-~y~~~L 185 (225)
+.+..+.....++=.+- +++.+|. .|+..|
T Consensus 174 i~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~L 205 (285)
T COG1405 174 IGRTYRLLVRELKLKIPPVDPSDYIPRFASKL 205 (285)
T ss_pred HHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHc
Confidence 99999987777755554 4566665 455544
No 26
>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=41.72 E-value=1.9e+02 Score=23.46 Aligned_cols=96 Identities=19% Similarity=0.236 Sum_probs=58.6
Q ss_pred hHHHHHHHHHHHcCCCchHHHHHH--HHHHHHHhhCCCccccccchHHHHHHHHHHhhhhcccCC-cccccccccCCCC-
Q 041949 77 TIQSYLERIFRYTKAGPSVYVVAY--VYIDRFCQANPGFRIHATNVHRLLITTIMVASKYVEDLN-YRNSYFARVGGLE- 152 (225)
Q Consensus 77 si~~fl~rI~~~~~~s~~~~llAl--iYldRl~~~~~~~~l~~~n~hRL~ltsl~lAsK~~dD~~-~~N~~~AkVgGis- 152 (225)
.|++||.- =+..++| .-+++|. +|..|.. ......|--. |..|+-+|+-+-+|.. ....-+.=+.|-.
T Consensus 14 ~I~~FL~~-D~~~~~s-DKYLLAmV~~YF~Rag-----l~~~~Y~ri~-FFlALYLAndmEED~~~~K~~If~f~~G~~w 85 (131)
T PF11357_consen 14 VIQKFLAW-DKCLRVS-DKYLLAMVIAYFSRAG-----LFSWQYQRIH-FFLALYLANDMEEDDEEPKYEIFPFLYGKNW 85 (131)
T ss_pred HHHHHHHh-Ccchhhh-hHHHHHHHHHHHHhcc-----cchhhcchHH-HHHHHHHhhHHHhccchHHHHHHHHHHCcch
Confidence 45566543 1223344 3344444 5666643 2223333333 5566999999998865 3444333344443
Q ss_pred ---HHHHHHHHHHHHHhCCCceeeCHHHHHH
Q 041949 153 ---TNELNKLELDFLFLMGFKMHVNVSVFES 180 (225)
Q Consensus 153 ---~~eLN~LE~~FL~lLdf~L~Vs~~ef~~ 180 (225)
.....++-.+|...++|+..||.++-+.
T Consensus 86 ~~~~~~F~klr~~~~~~m~~Ra~Vsre~cEE 116 (131)
T PF11357_consen 86 RSQIPQFHKLRDQFWRRMDWRAWVSREECEE 116 (131)
T ss_pred HHHhHHHHHHHHHHHHHcCCceeeCHHHHHH
Confidence 5677889999999999999999887543
No 27
>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=36.24 E-value=77 Score=25.03 Aligned_cols=55 Identities=22% Similarity=0.158 Sum_probs=46.1
Q ss_pred hHHHHHHHHHHHcCCCchHHHHHHHHHHHHHhhCCCccccccchHHHHHHHHHHhhh
Q 041949 77 TIQSYLERIFRYTKAGPSVYVVAYVYIDRFCQANPGFRIHATNVHRLLITTIMVASK 133 (225)
Q Consensus 77 si~~fl~rI~~~~~~s~~~~llAliYldRl~~~~~~~~l~~~n~hRL~ltsl~lAsK 133 (225)
+=.+-|..|+... +...-+..|+-|+|.+.+.++ +.+...-|.+||==|.++++|
T Consensus 50 Pt~~lL~AIv~sf-~~n~~i~~al~~vd~fs~~Y~-I~i~~~~W~~Ll~W~~v~s~~ 104 (126)
T PF12921_consen 50 PTSRLLIAIVHSF-GYNGDIFSALKLVDFFSRKYP-IPIPKEFWRRLLEWAYVLSSK 104 (126)
T ss_pred CCHHHHHHHHHHH-HhcccHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHHhcCC
Confidence 3456677777766 555778899999999999998 999999999999999998886
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=23.81 E-value=1.5e+02 Score=23.93 Aligned_cols=44 Identities=16% Similarity=0.434 Sum_probs=32.6
Q ss_pred ccCCCCCchhHHHHHHHHHHHcC-CCchHHHHHHHHHHHHHhhCC
Q 041949 68 FDSHEIPDMTIQSYLERIFRYTK-AGPSVYVVAYVYIDRFCQANP 111 (225)
Q Consensus 68 F~~~~~P~isi~~fl~rI~~~~~-~s~~~~llAliYldRl~~~~~ 111 (225)
+.....|.--+..|+.|+...+- +++...+..+..+.++.+++|
T Consensus 54 l~~~~~~~~rvaAFiKRLl~~sl~~~~~~~~~~L~~i~~ll~~~p 98 (164)
T PF03914_consen 54 LKSDHLPIQRVAAFIKRLLQLSLHLPPSFALAILALIRKLLKRHP 98 (164)
T ss_pred HcccCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCH
Confidence 34555677778999999998775 555556666688888888765
Done!