Query 045984
Match_columns 127
No_of_seqs 128 out of 853
Neff 7.5
Searched_HMMs 46136
Date Fri Mar 29 07:31:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045984.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045984hhsearch_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 4E-31 8.6E-36 187.9 8.1 91 1-91 56-149 (149)
2 KOG1674 Cyclin [General functi 99.9 1.2E-23 2.6E-28 157.8 9.6 113 1-113 80-200 (218)
3 KOG1675 Predicted cyclin [Gene 99.8 6.9E-21 1.5E-25 147.1 6.0 112 2-113 196-308 (343)
4 PF00134 Cyclin_N: Cyclin, N-t 99.5 4.9E-14 1.1E-18 96.0 7.9 90 1-92 36-127 (127)
5 cd00043 CYCLIN Cyclin box fold 99.0 1.7E-09 3.6E-14 67.8 7.7 81 1-84 7-88 (88)
6 smart00385 CYCLIN domain prese 99.0 8E-09 1.7E-13 64.1 8.6 82 1-85 1-83 (83)
7 KOG0656 G1/S-specific cyclin D 98.5 6.8E-07 1.5E-11 71.0 9.4 102 1-102 83-189 (335)
8 KOG0653 Cyclin B and related k 98.5 6.4E-07 1.4E-11 72.6 7.5 92 1-95 163-258 (391)
9 TIGR00569 ccl1 cyclin ccl1. Un 98.1 1.9E-05 4.1E-10 62.3 8.4 90 2-94 62-157 (305)
10 COG5024 Cyclin [Cell division 98.1 9.1E-06 2E-10 66.8 6.3 96 1-98 218-315 (440)
11 KOG0655 G1/S-specific cyclin E 98.1 1.9E-05 4.2E-10 62.6 7.7 98 2-100 151-251 (408)
12 COG5333 CCL1 Cdk activating ki 97.6 0.00019 4.1E-09 56.2 6.3 91 2-94 51-148 (297)
13 KOG4164 Cyclin ik3-1/CABLES [C 97.3 0.00032 7E-09 56.9 4.6 103 4-108 390-496 (497)
14 PRK00423 tfb transcription ini 96.5 0.038 8.2E-07 43.6 9.7 102 2-106 128-231 (310)
15 KOG0794 CDK8 kinase-activating 96.2 0.0054 1.2E-07 46.7 3.5 91 2-94 47-151 (264)
16 KOG0835 Cyclin L [General func 95.9 0.11 2.3E-06 41.7 9.5 96 9-106 36-153 (367)
17 KOG0834 CDK9 kinase-activating 95.8 0.034 7.4E-07 44.3 6.3 106 2-109 45-166 (323)
18 KOG2496 Cdk activating kinase 94.4 0.14 3.1E-06 40.5 6.1 97 11-110 73-175 (325)
19 KOG1674 Cyclin [General functi 94.3 0.03 6.4E-07 42.2 2.1 96 16-111 3-109 (218)
20 PF00382 TFIIB: Transcription 92.7 1.4 3E-05 26.8 7.6 71 3-76 1-71 (71)
21 PRK00423 tfb transcription ini 91.6 1.9 4.2E-05 33.9 8.8 87 1-90 221-307 (310)
22 COG1405 SUA7 Transcription ini 89.3 6.1 0.00013 31.0 9.7 102 2-106 103-206 (285)
23 PF02984 Cyclin_C: Cyclin, C-t 86.6 1.5 3.3E-05 28.4 4.3 86 1-88 5-90 (118)
24 KOG0654 G2/Mitotic-specific cy 83.4 0.48 1E-05 38.4 0.7 91 5-97 146-238 (359)
25 COG1405 SUA7 Transcription ini 72.6 20 0.00044 28.1 6.9 83 1-86 196-278 (285)
26 PF11357 Spy1: Cell cycle regu 55.4 38 0.00082 23.7 4.9 74 22-100 38-116 (131)
27 PF00159 Hormone_3: Pancreatic 53.5 30 0.00065 18.7 3.3 23 92-114 11-33 (36)
28 cd00126 PAH Pancreatic Hormone 49.0 34 0.00074 18.5 3.1 21 93-113 12-32 (36)
29 smart00309 PAH Pancreatic horm 46.5 39 0.00086 18.3 3.1 21 93-113 12-32 (36)
30 KOG0487 Transcription factor A 40.8 15 0.00033 29.3 1.2 23 70-96 241-263 (308)
31 PF09869 DUF2096: Uncharacteri 38.4 88 0.0019 22.8 4.7 85 32-125 19-111 (169)
32 PF11201 DUF2982: Protein of u 37.9 69 0.0015 22.9 4.1 41 69-110 107-151 (152)
33 PF14054 DUF4249: Domain of un 36.1 53 0.0011 24.9 3.6 33 95-127 245-279 (298)
34 PF04282 DUF438: Family of unk 36.1 92 0.002 19.3 4.0 32 68-104 26-57 (71)
35 PF13744 HTH_37: Helix-turn-he 31.7 42 0.0009 20.8 2.0 39 55-93 27-77 (80)
36 PF12921 ATP13: Mitochondrial 29.4 89 0.0019 21.3 3.5 52 4-56 56-107 (126)
37 PF03914 CBF: CBF/Mak21 family 26.9 98 0.0021 21.7 3.5 28 2-29 67-95 (164)
38 PF04219 DUF413: Protein of un 26.6 84 0.0018 20.6 2.8 29 53-82 1-29 (93)
39 PF11197 DUF2835: Protein of u 26.4 39 0.00084 20.8 1.1 21 88-108 2-22 (68)
40 PF02108 FliH: Flagellar assem 25.8 1E+02 0.0022 20.1 3.3 39 88-126 69-107 (128)
41 smart00153 VHP Villin headpiec 23.3 39 0.00085 18.1 0.6 19 61-79 3-21 (36)
42 PF11455 DUF3018: Protein of 22.5 82 0.0018 19.3 2.0 27 97-123 4-30 (65)
43 PF12108 SF3a60_bindingd: Spli 21.8 1E+02 0.0023 15.6 2.0 17 94-110 5-21 (28)
44 COG1476 Predicted transcriptio 20.8 66 0.0014 19.9 1.4 24 59-82 14-37 (68)
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=99.97 E-value=4e-31 Score=187.89 Aligned_cols=91 Identities=46% Similarity=0.873 Sum_probs=76.6
Q ss_pred ChHHHHHHHcCCCHHHHHHHHHHHHHHhc---cCCcccccccHHHHHHHHHHHhhhhcCCCcccccchhhccCCCHHHHH
Q 045984 1 QYIERIFKYSRCSPSCSVVAYIYLDRFLQ---RISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIGGISTAEMN 77 (127)
Q Consensus 1 ~fl~~i~~~~~~s~~~~i~aliYi~Rl~~---~~~~~~~~~~~~rl~l~alilA~K~~~D~~~~n~~~a~v~g~s~~eln 77 (127)
+|+.||+++++++++|+++|++||+|+.. .+++.+++.|+||++++|+|+|+||++|.+++|++|++++|++++|||
T Consensus 56 ~fl~ri~~~~~~s~~~~i~aliYl~Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v~gis~~eln 135 (149)
T PF08613_consen 56 DFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDNTYSNKSWAKVGGISLKELN 135 (149)
T ss_dssp HHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS---HHHHHHHHTS-HHHHH
T ss_pred HHHHHHHHHcCCChHHHHHHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHhhcccccccHHHHHhhcCCCHHHHH
Confidence 59999999999999999999999999999 778889999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhcCCce
Q 045984 78 KLELNFLFTLEFKL 91 (127)
Q Consensus 78 ~lE~~fL~~Ld~~L 91 (127)
+||++||.+|||+|
T Consensus 136 ~lE~~fL~~l~~~L 149 (149)
T PF08613_consen 136 ELEREFLKLLDYNL 149 (149)
T ss_dssp HHHHHHHHHTTT--
T ss_pred HHHHHHHHHCCCcC
Confidence 99999999999997
No 2
>KOG1674 consensus Cyclin [General function prediction only]
Probab=99.90 E-value=1.2e-23 Score=157.83 Aligned_cols=113 Identities=52% Similarity=0.936 Sum_probs=106.5
Q ss_pred ChHHHHHHHcCCCHHHHHHHHHHHHHHhcc-------CCccccccc-HHHHHHHHHHHhhhhcCCCcccccchhhccCCC
Q 045984 1 QYIERIFKYSRCSPSCSVVAYIYLDRFLQR-------ISGCLTRLN-VHRLLITSFLVAAKFVDDECYNNAYYAKIGGIS 72 (127)
Q Consensus 1 ~fl~~i~~~~~~s~~~~i~aliYi~Rl~~~-------~~~~~~~~~-~~rl~l~alilA~K~~~D~~~~n~~~a~v~g~s 72 (127)
+|+.+|.++++++++++++|++|+||+.++ +...+++.| .||++++++++|+|+.+|.+|+|..|++++|++
T Consensus 80 ~yleri~k~~~~s~~~lv~al~Yldr~~~~~~~~~~~~~~~i~s~n~vhR~lit~v~vs~kf~~d~~y~n~~~a~vggl~ 159 (218)
T KOG1674|consen 80 QYLERIFKYSKCSPECLVLALVYLDRFVKQPQARSVKPQSLINSLNKVHRLLITTVTVSTKFLDDVYYSNAYYAKVGGLT 159 (218)
T ss_pred HHHHHHHHHhcCCchhhhhhhhhhhhhhhhhcccccCcccccccchhHHHHHHHHHHHHHhhccchhhhHHHHHHhCCCC
Confidence 589999999999999999999999999995 556678899 999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhcCCceeeCHHHHHHHHHHHHHhhhhhc
Q 045984 73 TAEMNKLELNFLFTLEFKLHVTTEVFAKYCSQLDMEGAAAE 113 (127)
Q Consensus 73 ~~eln~lE~~fL~~Ld~~L~V~~~~~~~~~~~L~~~~~~~~ 113 (127)
.+|||.||.+||..+||++.|+.+++..|+..+++......
T Consensus 160 ~~eln~lE~~~l~~~~~~l~i~~~~~~~~~~~~~~~~~~~~ 200 (218)
T KOG1674|consen 160 TDELNKLELDLLFLLDFRLIISRSEFNLYEDLLEREENLNK 200 (218)
T ss_pred hHhhhhhhHHHHhhCCeEEEechhHHHHHHHHHHHHHhccc
Confidence 99999999999999999999999999999999998777553
No 3
>KOG1675 consensus Predicted cyclin [General function prediction only]
Probab=99.83 E-value=6.9e-21 Score=147.07 Aligned_cols=112 Identities=26% Similarity=0.439 Sum_probs=104.2
Q ss_pred hHHHHHHHcCCCHHHHHHHHHHHHHHhccCCcccccccHHHHHHHHHHHhhhhcCCCcccccchhhcc-CCCHHHHHHHH
Q 045984 2 YIERIFKYSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIG-GISTAEMNKLE 80 (127)
Q Consensus 2 fl~~i~~~~~~s~~~~i~aliYi~Rl~~~~~~~~~~~~~~rl~l~alilA~K~~~D~~~~n~~~a~v~-g~s~~eln~lE 80 (127)
|+...+.+.+++.+|.++.|+|++|+....+...+|.+|+|..++++++|+|.|+|..++|-+|+++. ++++++||+||
T Consensus 196 ~v~~l~~~~qlta~~aiitL~~~erl~~~~e~~~~p~~w~r~~~g~il~sskv~~dqs~wnvdycqIlKd~tveDmNe~E 275 (343)
T KOG1675|consen 196 FVRILFSWAQLTAECDIITLVYAERLLWLAERDPCPRNWSRAVLGEILLSSKVYDDQSVWNVDYCEILKDQSVDDMNALE 275 (343)
T ss_pred hhhhHhhhhhhhhccchHHHHhhHhhhhHhhcCCCcchhhhhhhhhheehhhhhhhhhcccHHHHHHHhhccHhhHHHHH
Confidence 67889999999999999999999999996667689999999999999999999999999999999986 69999999999
Q ss_pred HHHHHhcCCceeeCHHHHHHHHHHHHHhhhhhc
Q 045984 81 LNFLFTLEFKLHVTTEVFAKYCSQLDMEGAAAE 113 (127)
Q Consensus 81 ~~fL~~Ld~~L~V~~~~~~~~~~~L~~~~~~~~ 113 (127)
|+||.+|+||+.|+..+|++||++|+..+..-+
T Consensus 276 RqfLelLqfNinvp~svYAKyYfdlr~Lae~n~ 308 (343)
T KOG1675|consen 276 RQFLELLQFNINVPSSEYAKYYFDLRCLAEANP 308 (343)
T ss_pred HHHHHHHhhccCccHHHHHHHHHHHhhhccccc
Confidence 999999999999999999999999997666433
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=99.52 E-value=4.9e-14 Score=96.00 Aligned_cols=90 Identities=20% Similarity=0.363 Sum_probs=76.2
Q ss_pred ChHHHHHHHcCCCHHHHHHHHHHHHHHhccCCcccccccHHHHHHHHHHHhhhhcCCCcccccchhhcc--CCCHHHHHH
Q 045984 1 QYIERIFKYSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIG--GISTAEMNK 78 (127)
Q Consensus 1 ~fl~~i~~~~~~s~~~~i~aliYi~Rl~~~~~~~~~~~~~~rl~l~alilA~K~~~D~~~~n~~~a~v~--g~s~~eln~ 78 (127)
+|+.++....++++.++..|+.|++|+..... ..+.+++.+.++|+++|+|+.++...+.+.|..++ .++.+++.+
T Consensus 36 ~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~--~~~~~~~li~~~cl~lA~K~~e~~~~~~~~~~~~~~~~~~~~~i~~ 113 (127)
T PF00134_consen 36 DWIIELCQRLKLSPETLHLAIYLFDRFLSKRP--VNRSKLQLIALACLFLASKMEEDNPPSISDLIRISDNTFTKKDILE 113 (127)
T ss_dssp HHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS---TTCCGHHHHHHHHHHHHHHHHTSS--HHHHHHHHTTTSSHHHHHHH
T ss_pred HHHHHHHHhcccchhHHHHHHHHHHHHHhhcc--cccchhhhhhhhHHHHhhhhhccccchHHHHHHHHcCCCCHHHHHH
Confidence 47889999999999999999999999998443 57889999999999999999999888888888776 389999999
Q ss_pred HHHHHHHhcCCcee
Q 045984 79 LELNFLFTLEFKLH 92 (127)
Q Consensus 79 lE~~fL~~Ld~~L~ 92 (127)
||+.+|..|+|+++
T Consensus 114 ~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 114 MEREILSALNFDLN 127 (127)
T ss_dssp HHHHHHHHTTT---
T ss_pred HHHHHHHHCCCCcC
Confidence 99999999999985
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=99.03 E-value=1.7e-09 Score=67.85 Aligned_cols=81 Identities=22% Similarity=0.204 Sum_probs=73.3
Q ss_pred ChHHHHHHHcCCCHHHHHHHHHHHHHHhccCCcccccccHHHHHHHHHHHhhhhcCCCcccccchhhccCC-CHHHHHHH
Q 045984 1 QYIERIFKYSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIGGI-STAEMNKL 79 (127)
Q Consensus 1 ~fl~~i~~~~~~s~~~~i~aliYi~Rl~~~~~~~~~~~~~~rl~l~alilA~K~~~D~~~~n~~~a~v~g~-s~~eln~l 79 (127)
+|+.++.+..++++++...|..|++|+.....+ ...+.+.+..+|+.+|+|+.++ ..+++.+..++|. +.+++..+
T Consensus 7 ~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~ia~a~l~lA~k~~~~-~~~~~~~~~~~~~~~~~~i~~~ 83 (88)
T cd00043 7 DFLRRVAKALGLSPETLTLAVNLLDRFLLDYSV--LGRSPSLVAAAALYLAAKVEEI-PPWLKDLVHVTGYATEEEILRM 83 (88)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHHHHHhccc--ccCChHHHHHHHHHHHHHHcCC-CCCHHHHhHHhCCCCHHHHHHH
Confidence 589999999999999999999999999984333 4788999999999999999998 8888899999999 99999999
Q ss_pred HHHHH
Q 045984 80 ELNFL 84 (127)
Q Consensus 80 E~~fL 84 (127)
|.+++
T Consensus 84 e~~il 88 (88)
T cd00043 84 EKLLL 88 (88)
T ss_pred HHHhC
Confidence 99874
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=98.96 E-value=8e-09 Score=64.12 Aligned_cols=82 Identities=20% Similarity=0.201 Sum_probs=72.3
Q ss_pred ChHHHHHHHcCCCHHHHHHHHHHHHHHhccCCcccccccHHHHHHHHHHHhhhhcCCCcccccchhhccCC-CHHHHHHH
Q 045984 1 QYIERIFKYSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIGGI-STAEMNKL 79 (127)
Q Consensus 1 ~fl~~i~~~~~~s~~~~i~aliYi~Rl~~~~~~~~~~~~~~rl~l~alilA~K~~~D~~~~n~~~a~v~g~-s~~eln~l 79 (127)
+|+.++.+..++++++...|..+++|.....++ ...+.+.+..+|+.+|+|..+.. .+++.+..+.|. +.+++.++
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~--~~~~~~~ia~a~l~lA~k~~~~~-~~~~~~~~~~~~~~~~~i~~~ 77 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKF--LKYSPSLIAAAALYLAAKTEEIP-PWTKELVHYTGYFTEEEILRM 77 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhc--ccCCHHHHHHHHHHHHHHHhcCC-CCchhHhHhhCCCCHHHHHHH
Confidence 699999999999999999999999999884333 24889999999999999999876 577788888888 99999999
Q ss_pred HHHHHH
Q 045984 80 ELNFLF 85 (127)
Q Consensus 80 E~~fL~ 85 (127)
|+++|.
T Consensus 78 ~~~il~ 83 (83)
T smart00385 78 EKLLLE 83 (83)
T ss_pred HHHHhC
Confidence 999873
No 7
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=98.54 E-value=6.8e-07 Score=70.97 Aligned_cols=102 Identities=22% Similarity=0.221 Sum_probs=79.4
Q ss_pred ChHHHHHHHcCCCHHHHHHHHHHHHHHhccCCcc-cccccHHHHHHHHHHHhhhhcCCCcccccchhhcc---CCCHHHH
Q 045984 1 QYIERIFKYSRCSPSCSVVAYIYLDRFLQRISGC-LTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIG---GISTAEM 76 (127)
Q Consensus 1 ~fl~~i~~~~~~s~~~~i~aliYi~Rl~~~~~~~-~~~~~~~rl~l~alilA~K~~~D~~~~n~~~a~v~---g~s~~el 76 (127)
|+|-++-+.-+++++|+.+|.-|+||+..-..++ -.+....-+-.+||-+|+|+-+-......+..-.+ -+..+.|
T Consensus 83 ~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~~feaktI 162 (335)
T KOG0656|consen 83 DWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVACLSLASKMEETDVPLLADLQVEYTDNVFEAKTI 162 (335)
T ss_pred HHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCCchHHHHHHHHHHHHHHHhhcCcCCchhhhhhhccccccccHHHH
Confidence 3567788888999999999999999999933332 13445788889999999999887543333332222 2789999
Q ss_pred HHHHHHHHHhcCCcee-eCHHHHHHHH
Q 045984 77 NKLELNFLFTLEFKLH-VTTEVFAKYC 102 (127)
Q Consensus 77 n~lE~~fL~~Ld~~L~-V~~~~~~~~~ 102 (127)
.+||.-+|..|+|++. |++-.|-+|.
T Consensus 163 ~rmELLVLstL~Wrl~aVTP~sF~~~f 189 (335)
T KOG0656|consen 163 QRMELLVLSTLKWRLRAVTPFSFIDHF 189 (335)
T ss_pred HHHHHHHHhhccccccCCCchHHHHHH
Confidence 9999999999999998 8888887664
No 8
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.46 E-value=6.4e-07 Score=72.61 Aligned_cols=92 Identities=23% Similarity=0.333 Sum_probs=75.3
Q ss_pred ChHHHHHHHcCCCHHHHHHHHHHHHHHhccCCcccccccHHHHHHHHHH-HhhhhcCC-Ccccccchhhcc--CCCHHHH
Q 045984 1 QYIERIFKYSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFL-VAAKFVDD-ECYNNAYYAKIG--GISTAEM 76 (127)
Q Consensus 1 ~fl~~i~~~~~~s~~~~i~aliYi~Rl~~~~~~~~~~~~~~rl~l~ali-lA~K~~~D-~~~~n~~~a~v~--g~s~~el 76 (127)
|++..++.+.+++++++-+|+-++||+.....+ ...-..-+-++|++ ||+|| +| .+..-.++..+. .++.+|+
T Consensus 163 dwlvevh~~F~L~~ETL~LaVnliDRfL~~~~v--~~~~lqLvgvsalf~IA~K~-EE~~~P~v~dlv~isd~~~s~~~i 239 (391)
T KOG0653|consen 163 DWLVEVHEKFGLSPETLYLAVNLIDRFLSKVKV--PLKKLQLVGVSALLSIACKY-EEISLPSVEDLVLITDGAYSREEI 239 (391)
T ss_pred HHHHHhhhhcCcCHHHHHHHHHHHHHHHHHhcc--cHHHhhHHhHHHHHHHHHhh-hhccCCccceeEeeeCCccchHHH
Confidence 578899999999999999999999999995333 45556667788867 99999 44 344556666664 4899999
Q ss_pred HHHHHHHHHhcCCceeeCH
Q 045984 77 NKLELNFLFTLEFKLHVTT 95 (127)
Q Consensus 77 n~lE~~fL~~Ld~~L~V~~ 95 (127)
-+||+.+|..|+|++.++.
T Consensus 240 l~mE~~il~~L~f~l~~p~ 258 (391)
T KOG0653|consen 240 LRMEKYILNVLEFDLSVPT 258 (391)
T ss_pred HHHHHHHHhccCeeecCCc
Confidence 9999999999999999875
No 9
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=98.10 E-value=1.9e-05 Score=62.27 Aligned_cols=90 Identities=17% Similarity=0.173 Sum_probs=71.7
Q ss_pred hHHHHHHHcC--CCHHHHHHHHHHHHHHhccCCcccccccHHHHHHHHHHHhhhhcCCCcccccchhhcc-CC---CHHH
Q 045984 2 YIERIFKYSR--CSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIG-GI---STAE 75 (127)
Q Consensus 2 fl~~i~~~~~--~s~~~~i~aliYi~Rl~~~~~~~~~~~~~~rl~l~alilA~K~~~D~~~~n~~~a~v~-g~---s~~e 75 (127)
+|.++-.+.+ ++..++-.|.+|++|+.....+ .....+.+.+||+.+|+|+-+.. .+...+.... +- ..++
T Consensus 62 ~i~~~~~~lkp~Lpq~viaTAivyf~RFy~~~Sv--~~~~p~~Ia~tclfLA~KvEE~~-~si~~fv~~~~~~~~~~~~~ 138 (305)
T TIGR00569 62 RLLDFCSAFKPTMPTSVVGTAIMYFKRFYLNNSV--MEYHPKIIMLTCVFLACKVEEFN-VSIDQFVGNLKETPLKALEQ 138 (305)
T ss_pred HHHHHHHHhcCCCCchHHHHHHHHHhHHhccCch--hhcCHHHHHHHHHHHHHhccccC-cCHHHHHhhccCCchhhHHH
Confidence 5777888888 9999999999999999885443 35778999999999999987653 3344444332 22 4589
Q ss_pred HHHHHHHHHHhcCCceeeC
Q 045984 76 MNKLELNFLFTLEFKLHVT 94 (127)
Q Consensus 76 ln~lE~~fL~~Ld~~L~V~ 94 (127)
|-++|..+|+.|+|+|.|.
T Consensus 139 Il~~E~~lL~~L~F~L~V~ 157 (305)
T TIGR00569 139 VLEYELLLIQQLNFHLIVH 157 (305)
T ss_pred HHHHHHHHHHHCCCcEEee
Confidence 9999999999999999985
No 10
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=98.07 E-value=9.1e-06 Score=66.75 Aligned_cols=96 Identities=16% Similarity=0.234 Sum_probs=82.5
Q ss_pred ChHHHHHHHcCCCHHHHHHHHHHHHHHhccCCcccccccHHHHHHHHHHHhhhhcCCCcccccchhhcc--CCCHHHHHH
Q 045984 1 QYIERIFKYSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIG--GISTAEMNK 78 (127)
Q Consensus 1 ~fl~~i~~~~~~s~~~~i~aliYi~Rl~~~~~~~~~~~~~~rl~l~alilA~K~~~D~~~~n~~~a~v~--g~s~~eln~ 78 (127)
||+.++....++.|+++.+|.-.+||++..+.+.+. -..-+-++|+.||+||-+=.+-..+.++.++ .++.+++-.
T Consensus 218 ~wlvevH~~F~llpeTL~lainiiDrfLs~~~v~l~--k~QLvg~s~LfIa~K~EE~~~p~i~~l~~~t~g~~t~~~i~~ 295 (440)
T COG5024 218 DWLVEVHGKFGLLPETLFLAINIIDRFLSSRVVSLE--KYQLVGISALFIASKYEEVNCPSIKDLVYATDGAFTRDDIIR 295 (440)
T ss_pred HHHHHhcccccccchHHHHHHHHHHHHhccCcccHH--HHHHHHHHHHHHHHhHhHhcCHHHHHHHHHHcccccHHHHHH
Confidence 578899999999999999999999999997766432 2456678899999999888888888888774 599999999
Q ss_pred HHHHHHHhcCCceeeCHHHH
Q 045984 79 LELNFLFTLEFKLHVTTEVF 98 (127)
Q Consensus 79 lE~~fL~~Ld~~L~V~~~~~ 98 (127)
+|+.+|..++|++.++....
T Consensus 296 aE~~ml~~l~f~is~P~P~s 315 (440)
T COG5024 296 AERYMLEVLDFNISWPSPMS 315 (440)
T ss_pred HHHHHhhhcccccCCCChHH
Confidence 99999999999999876554
No 11
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=98.06 E-value=1.9e-05 Score=62.59 Aligned_cols=98 Identities=20% Similarity=0.266 Sum_probs=78.3
Q ss_pred hHHHHHHHcCCCHHHHHHHHHHHHHHhccCCcccccccHHHHHHHHHHHhhhhcCCCcccccchhhcc--CCCHHHHHHH
Q 045984 2 YIERIFKYSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIG--GISTAEMNKL 79 (127)
Q Consensus 2 fl~~i~~~~~~s~~~~i~aliYi~Rl~~~~~~~~~~~~~~rl~l~alilA~K~~~D~~~~n~~~a~v~--g~s~~eln~l 79 (127)
++..+-.--++-.+++-+|.-|+||+.... ..++..+..-+-++|+.||+|+-+=-......||-+. ..|-++|..|
T Consensus 151 WlmEVCEvykLHRETFyLAvDy~DRyl~t~-~~v~kt~lQLIGitsLFIAAK~EEIYpPKl~eFAyvTDgAcs~ddIltm 229 (408)
T KOG0655|consen 151 WLMEVCEVYKLHRETFYLAVDYFDRYLETQ-VEVSKTNLQLIGITSLFIAAKLEEIYPPKLIEFAYVTDGACSEDDILTM 229 (408)
T ss_pred HHHHHHHHHHHhhhHHHHHHHHHHHHHHHH-HHhhhhhHHHhhHHHHHHHHHHhhccCccccceeeeccCccchHHHHHH
Confidence 445555566778899999999999999833 3345677888899999999998766667788898885 3899999999
Q ss_pred HHHHHHhcCCcee-eCHHHHHH
Q 045984 80 ELNFLFTLEFKLH-VTTEVFAK 100 (127)
Q Consensus 80 E~~fL~~Ld~~L~-V~~~~~~~ 100 (127)
|.-+|+.|+|+|. |+.-.|-.
T Consensus 230 E~iilkal~W~l~PiTii~WL~ 251 (408)
T KOG0655|consen 230 ELIILKALKWELSPITIISWLN 251 (408)
T ss_pred HHHHHHHhcccccceehHHHHH
Confidence 9999999999987 55544433
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=97.60 E-value=0.00019 Score=56.22 Aligned_cols=91 Identities=20% Similarity=0.303 Sum_probs=75.3
Q ss_pred hHHHHHHHcCCCHHHHHHHHHHHHHHhccCCcccccccHHHHHHHHHHHhhhhcC---CC---c-ccccchhhccCCCHH
Q 045984 2 YIERIFKYSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVD---DE---C-YNNAYYAKIGGISTA 74 (127)
Q Consensus 2 fl~~i~~~~~~s~~~~i~aliYi~Rl~~~~~~~~~~~~~~rl~l~alilA~K~~~---D~---~-~~n~~~a~v~g~s~~ 74 (127)
+|.++-.+.+++..+.-.|.+|.+|+.-... +.+...+-+..+|+.+|.|+-| |. + -.+.-|+..---+.+
T Consensus 51 ~i~~l~~~L~lp~~~laTAi~~f~Rf~Lk~s--v~e~~~~~vv~tcv~LA~K~ed~~~~I~i~~~~~~~~~se~~~~sr~ 128 (297)
T COG5333 51 LIMDLCTRLNLPQTVLATAILFFSRFYLKNS--VEEISLYSVVTTCVYLACKVEDTPRDISIESFEARDLWSEEPKSSRE 128 (297)
T ss_pred HHHHHHHhcCCCcchHHHHHHHHHHHHhhcc--cccccHHHHHHhheeeeeecccccchhhHHHHHhhccccccccccHH
Confidence 4667778888999999999999999987433 4678889999999999999987 21 1 234457777778999
Q ss_pred HHHHHHHHHHHhcCCceeeC
Q 045984 75 EMNKLELNFLFTLEFKLHVT 94 (127)
Q Consensus 75 eln~lE~~fL~~Ld~~L~V~ 94 (127)
.+-.+|...|+.|+|++.|.
T Consensus 129 ~Il~~E~~lLEaL~fd~~V~ 148 (297)
T COG5333 129 RILEYEFELLEALDFDLHVH 148 (297)
T ss_pred HHHHHHHHHHHHcccceEec
Confidence 99999999999999999985
No 13
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=97.33 E-value=0.00032 Score=56.87 Aligned_cols=103 Identities=17% Similarity=0.215 Sum_probs=80.9
Q ss_pred HHHHHHcCCCHHHHHHHHHHHHHHhccCCcccccccHHHHHHHHHHHhhhhcCCCcccccchh----hccCCCHHHHHHH
Q 045984 4 ERIFKYSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYA----KIGGISTAEMNKL 79 (127)
Q Consensus 4 ~~i~~~~~~s~~~~i~aliYi~Rl~~~~~~~~~~~~~~rl~l~alilA~K~~~D~~~~n~~~a----~v~g~s~~eln~l 79 (127)
.++-.-++++..++-+|.+|+++++-... ++..|-+-.--+|+++|.|+.|=.--.-+.+- ..+.++..|+-..
T Consensus 390 r~l~~d~~id~~TVa~AyVYFEKliLkgl--isK~NRKlcAGAclLlaaKmnD~Kks~vKslIek~Ee~fR~nrrdLia~ 467 (497)
T KOG4164|consen 390 RELGEDCGIDVVTVAMAYVYFEKLILKGL--ISKQNRKLCAGACLLLAAKMNDLKKSTVKSLIEKLEEQFRLNRRDLIAF 467 (497)
T ss_pred HHhhhccCccceeehhHHHHHHHHHHhhh--hhhhhhhHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhcccHHhhhhh
Confidence 45556678899999999999999987422 35566666677889999999833333444432 2467899999999
Q ss_pred HHHHHHhcCCceeeCHHHHHHHHHHHHHh
Q 045984 80 ELNFLFTLEFKLHVTTEVFAKYCSQLDME 108 (127)
Q Consensus 80 E~~fL~~Ld~~L~V~~~~~~~~~~~L~~~ 108 (127)
|...|..|+|.|+++..|..-++..|.++
T Consensus 468 Ef~VlvaLefaL~~~~~eVlPHy~RL~~e 496 (497)
T KOG4164|consen 468 EFPVLVALEFALHLPEHEVLPHYRRLQQE 496 (497)
T ss_pred hhhHHHhhhhhccCChhhcchHHHHHhhc
Confidence 99999999999999999999888888764
No 14
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=96.46 E-value=0.038 Score=43.60 Aligned_cols=102 Identities=14% Similarity=0.132 Sum_probs=79.0
Q ss_pred hHHHHHHHcCCCHHHHHHHHHHHHHHhccCCcccccccHHHHHHHHHHHhhhhcCCCcccccchhhccCCCHHHHHHHHH
Q 045984 2 YIERIFKYSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIGGISTAEMNKLEL 81 (127)
Q Consensus 2 fl~~i~~~~~~s~~~~i~aliYi~Rl~~~~~~~~~~~~~~rl~l~alilA~K~~~D~~~~n~~~a~v~g~s~~eln~lE~ 81 (127)
.|.++-...+++..+.=-|..+..++..... +...+..-+..+|+-+|.|. ++.+.+-+..+.+.+++.+++.+.++
T Consensus 128 ~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~~--~rgrs~~~i~AAclYiACR~-~~~prtl~eI~~~~~v~~k~i~~~~~ 204 (310)
T PRK00423 128 ELDRIASQLGLPRSVREEAAVIYRKAVEKGL--IRGRSIEGVVAAALYAACRR-CKVPRTLDEIAEVSRVSRKEIGRCYR 204 (310)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHHHHHhcCc--ccCCCHHHHHHHHHHHHHHH-cCCCcCHHHHHHHhCCCHHHHHHHHH
Confidence 3667778888888888888888777777432 34566778888999999996 66667888999999999999999999
Q ss_pred HHHHhcCCceee-CHHHH-HHHHHHHH
Q 045984 82 NFLFTLEFKLHV-TTEVF-AKYCSQLD 106 (127)
Q Consensus 82 ~fL~~Ld~~L~V-~~~~~-~~~~~~L~ 106 (127)
.+++.|+.++.+ ++++| .+|+..|.
T Consensus 205 ~l~k~L~~~~~~~~p~~~i~r~~~~L~ 231 (310)
T PRK00423 205 FLLRELNLKLPPTDPIDYVPRFASELG 231 (310)
T ss_pred HHHHHhCCCCCCCCHHHHHHHHHHHcC
Confidence 999999988764 35555 55655443
No 15
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=96.21 E-value=0.0054 Score=46.74 Aligned_cols=91 Identities=20% Similarity=0.252 Sum_probs=72.0
Q ss_pred hHHHHHHHcCCCHHHHHHHHHHHHHHhccCCcccccccHHHHHHHHHHHhhhhcCCC-cc-------ccc------chhh
Q 045984 2 YIERIFKYSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDE-CY-------NNA------YYAK 67 (127)
Q Consensus 2 fl~~i~~~~~~s~~~~i~aliYi~Rl~~~~~~~~~~~~~~rl~l~alilA~K~~~D~-~~-------~n~------~~a~ 67 (127)
+|..+-++.++--.++-.|.+|+.|+..+.. +...++.-+..||+.+|+|+-+-. .. .+. .|..
T Consensus 47 ~I~~lg~~lklRQ~ViATAivY~rRfy~r~S--~k~~~p~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L~~~f~~~~e 124 (264)
T KOG0794|consen 47 VIQKLGQHLKLRQRVIATAIVYFRRFYLRKS--LKEIEPRLLAPTCLYLACKVEECPIVHIRLLVNEAKVLKTRFSYWPE 124 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--hhccCHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHhhhcccchh
Confidence 5677778888888999999999999988544 456788899999999999987653 11 111 2555
Q ss_pred ccCCCHHHHHHHHHHHHHhcCCceeeC
Q 045984 68 IGGISTAEMNKLELNFLFTLEFKLHVT 94 (127)
Q Consensus 68 v~g~s~~eln~lE~~fL~~Ld~~L~V~ 94 (127)
-.......+-+||-..|+.||+-|-|-
T Consensus 125 ~~~~~~~~I~e~Ef~llE~Ld~~LIVh 151 (264)
T KOG0794|consen 125 KFPYERKDILEMEFYLLEALDCYLIVH 151 (264)
T ss_pred hcCCCcCcchhhhhhHHhhhceeEEEe
Confidence 566788999999999999999999873
No 16
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=95.90 E-value=0.11 Score=41.66 Aligned_cols=96 Identities=17% Similarity=0.219 Sum_probs=66.3
Q ss_pred HcCCCHHHHHHHHHHHHHHhccCCcccccccHHHHHHHHHHHhhhhcCCCcccccch----------h-hccC-------
Q 045984 9 YSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYY----------A-KIGG------- 70 (127)
Q Consensus 9 ~~~~s~~~~i~aliYi~Rl~~~~~~~~~~~~~~rl~l~alilA~K~~~D~~~~n~~~----------a-~v~g------- 70 (127)
-.+++-.+...++|+++|++....+. .....-+..+|+.+|+|.-+.-.--..-+ . +-.+
T Consensus 36 LL~L~q~a~atgqVLFqRf~~~ks~v--~~~~e~vv~ACv~LASKiEE~Prr~rdVinVFh~L~~r~~~~~~~~~~~~~~ 113 (367)
T KOG0835|consen 36 LLNLPQVAMATGQVLFQRFCYSKSFV--RHDFEIVVMACVLLASKIEEEPRRIRDVINVFHYLEQRRESEAAEHLILARL 113 (367)
T ss_pred hhcCcHHHHHHHHHHHHHHHhccccc--cccHHHHHHHHHHHHhhhccccccHhHHHHHHHHHHHHHhccCcchhhhhhH
Confidence 45688899999999999999954332 45677899999999999876531100000 0 0001
Q ss_pred -C-CHHHHHHHHHHHHHhcCCceee--CHHHHHHHHHHHH
Q 045984 71 -I-STAEMNKLELNFLFTLEFKLHV--TTEVFAKYCSQLD 106 (127)
Q Consensus 71 -~-s~~eln~lE~~fL~~Ld~~L~V--~~~~~~~~~~~L~ 106 (127)
+ -..+.-++|+++|..|+|+++| +-..+..|+..|+
T Consensus 114 ~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~ 153 (367)
T KOG0835|consen 114 YINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQ 153 (367)
T ss_pred HhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhc
Confidence 1 1345668999999999999998 4556677776665
No 17
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=95.75 E-value=0.034 Score=44.34 Aligned_cols=106 Identities=19% Similarity=0.223 Sum_probs=74.7
Q ss_pred hHHHHHHHcCCCHHHHHHHHHHHHHHhccCCcccccccHHHHHHHHHHHhhhhcCCCc-c------cccchhh-------
Q 045984 2 YIERIFKYSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDEC-Y------NNAYYAK------- 67 (127)
Q Consensus 2 fl~~i~~~~~~s~~~~i~aliYi~Rl~~~~~~~~~~~~~~rl~l~alilA~K~~~D~~-~------~n~~~a~------- 67 (127)
||.++-.+.+++.-++..|.+|.+|+.....+ .....+-+-.+|+.+|.|.-+-.- . +++....
T Consensus 45 fI~elg~~L~~~~~ti~tA~~~~hRFy~~~s~--~~~~~~~vA~sclfLAgKvEetp~kl~dIi~~s~~~~~~~~~~~~~ 122 (323)
T KOG0834|consen 45 FIQELGVRLKMPQKTIATAIVIFHRFYMFHSF--KKFDPYTVAASCLFLAGKVEETPRKLEDIIKVSYRYLNPKDLELEE 122 (323)
T ss_pred HHHHHHHHcCCCccchhhhhhhhhhhhhhccc--ccCcHHHHHHHHHHHHhhcccCcccHHHHHHHHHHHcCcccccHHH
Confidence 88999999999999999999999999885443 334446678889999999865421 1 1111111
Q ss_pred ccCCCHHHHHHHHHHHHHhcCCceeeCH-H-HHHHHHHHHHHhh
Q 045984 68 IGGISTAEMNKLELNFLFTLEFKLHVTT-E-VFAKYCSQLDMEG 109 (127)
Q Consensus 68 v~g~s~~eln~lE~~fL~~Ld~~L~V~~-~-~~~~~~~~L~~~~ 109 (127)
+.-=..+++-.+|+-+|+.|.|++.|.- - -..+|.+.+....
T Consensus 123 ~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~l~~~~ 166 (323)
T KOG0834|consen 123 VYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKKLKADE 166 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHHhhhhh
Confidence 0011377889999999999999999964 3 3355666665433
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=94.39 E-value=0.14 Score=40.45 Aligned_cols=97 Identities=18% Similarity=0.192 Sum_probs=72.0
Q ss_pred CCCHHHHHHHHHHHHHHhccCCcccccccHHHHHHHHHHHhhhhcCCCcccccchhhccC----CCHHHHHHHHHHHHHh
Q 045984 11 RCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIGG----ISTAEMNKLELNFLFT 86 (127)
Q Consensus 11 ~~s~~~~i~aliYi~Rl~~~~~~~~~~~~~~rl~l~alilA~K~~~D~~~~n~~~a~v~g----~s~~eln~lE~~fL~~ 86 (127)
.+++++.-.|+.|+-|+.-...+ ...+++-++.||+.+|.|.- +...+-..|++-.. -+.+.+-..|-..++.
T Consensus 73 ~lp~~Vv~TA~~fFkRffL~nsv--me~~pk~I~~tc~flA~Kie-ef~ISieqFvkn~~~~~~k~~e~vLk~E~~llqs 149 (325)
T KOG2496|consen 73 NLPTSVVSTAIEFFKRFFLENSV--MEYSPKIIMATCFFLACKIE-EFYISIEQFVKNMNGRKWKTHEIVLKYEFLLLQS 149 (325)
T ss_pred CCchHHHHHHHHHHHHHHHhcch--hhcChHHHHHHHHHHHhhhH-hheecHHHHHhhccCcccccHHHHHhchHHHHHh
Confidence 47888888999999999874332 35677889999999999964 44555555655322 5689999999999999
Q ss_pred cCCceeeC--HHHHHHHHHHHHHhhh
Q 045984 87 LEFKLHVT--TEVFAKYCSQLDMEGA 110 (127)
Q Consensus 87 Ld~~L~V~--~~~~~~~~~~L~~~~~ 110 (127)
|+|+|.|. ---+.-|+.+++...+
T Consensus 150 L~f~L~vh~PyRPleGFl~D~kt~l~ 175 (325)
T KOG2496|consen 150 LKFSLTVHNPYRPLEGFLLDMKTRLP 175 (325)
T ss_pred hhhhheecCCCCchHHHHHHHHHHHH
Confidence 99999884 3445566666665543
No 19
>KOG1674 consensus Cyclin [General function prediction only]
Probab=94.27 E-value=0.03 Score=42.24 Aligned_cols=96 Identities=14% Similarity=0.110 Sum_probs=75.3
Q ss_pred HHHHHHHHHH--HHhccCCc--ccccccHHHHHHHHHHHhhhhcCCCcc-----cccchhh-ccCC-CHHHHHHHHHHHH
Q 045984 16 CSVVAYIYLD--RFLQRISG--CLTRLNVHRLLITSFLVAAKFVDDECY-----NNAYYAK-IGGI-STAEMNKLELNFL 84 (127)
Q Consensus 16 ~~i~aliYi~--Rl~~~~~~--~~~~~~~~rl~l~alilA~K~~~D~~~-----~n~~~a~-v~g~-s~~eln~lE~~fL 84 (127)
+.+++..|++ |+...... .....+.++.++++++.+.|...|..- .++.|+. +.|+ .....|.+|+++|
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 6777888888 87774332 123456889999999999999988765 6888876 3454 6889999999999
Q ss_pred HhcCCceeeCHHHHHHHHHHHHHhhhh
Q 045984 85 FTLEFKLHVTTEVFAKYCSQLDMEGAA 111 (127)
Q Consensus 85 ~~Ld~~L~V~~~~~~~~~~~L~~~~~~ 111 (127)
+.++|....+++++..-+.-+.+....
T Consensus 83 eri~k~~~~s~~~lv~al~Yldr~~~~ 109 (218)
T KOG1674|consen 83 ERIFKYSKCSPECLVLALVYLDRFVKQ 109 (218)
T ss_pred HHHHHHhcCCchhhhhhhhhhhhhhhh
Confidence 999999999999997766666666554
No 20
>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=92.75 E-value=1.4 Score=26.84 Aligned_cols=71 Identities=14% Similarity=0.054 Sum_probs=54.0
Q ss_pred HHHHHHHcCCCHHHHHHHHHHHHHHhccCCcccccccHHHHHHHHHHHhhhhcCCCcccccchhhccCCCHHHH
Q 045984 3 IERIFKYSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIGGISTAEM 76 (127)
Q Consensus 3 l~~i~~~~~~s~~~~i~aliYi~Rl~~~~~~~~~~~~~~rl~l~alilA~K~~~D~~~~n~~~a~v~g~s~~el 76 (127)
|.++....+++..+.=.|.-+..+.....- ....+..-+..+|+-+|.+.. +..-+.+..+.+.|++..+|
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~--~~Gr~~~~iaAA~iY~acr~~-~~~~t~~eIa~~~~Vs~~tI 71 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGL--LKGRSPESIAAACIYLACRLN-GVPRTLKEIAEAAGVSEKTI 71 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTT--STTS-HHHHHHHHHHHHHHHT-TSSSSHHHHHHHCTSSHHHH
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCC--cccCCHHHHHHHHHHHHHHHc-CCCcCHHHHHHHhCCCCCcC
Confidence 578899999999999999988888877432 345677888889999998765 56668888889999987765
No 21
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=91.55 E-value=1.9 Score=33.95 Aligned_cols=87 Identities=14% Similarity=0.131 Sum_probs=69.1
Q ss_pred ChHHHHHHHcCCCHHHHHHHHHHHHHHhccCCcccccccHHHHHHHHHHHhhhhcCCCcccccchhhccCCCHHHHHHHH
Q 045984 1 QYIERIFKYSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIGGISTAEMNKLE 80 (127)
Q Consensus 1 ~fl~~i~~~~~~s~~~~i~aliYi~Rl~~~~~~~~~~~~~~rl~l~alilA~K~~~D~~~~n~~~a~v~g~s~~eln~lE 80 (127)
+|+.++....+++..+.-.|...+.+.... ++ ....++.-+..+|+-+|++... ..-+.+..+.+.|++..+|..-=
T Consensus 221 ~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~-~l-~~Gr~P~sIAAAaIYlA~~~~g-~~~t~keIa~v~~Vs~~tI~~~y 297 (310)
T PRK00423 221 DYVPRFASELGLSGEVQKKAIEILQKAKEK-GL-TSGKGPTGLAAAAIYIASLLLG-ERRTQREVAEVAGVTEVTVRNRY 297 (310)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHHHHhc-Cc-ccCCCHHHHHHHHHHHHHHHhC-CCCCHHHHHHHcCCCHHHHHHHH
Confidence 589999999999999888888777766652 32 3567888999999999998764 44578888999999999998777
Q ss_pred HHHHHhcCCc
Q 045984 81 LNFLFTLEFK 90 (127)
Q Consensus 81 ~~fL~~Ld~~ 90 (127)
+++...++..
T Consensus 298 kel~~~l~~~ 307 (310)
T PRK00423 298 KELAEKLDIK 307 (310)
T ss_pred HHHHHHhCcc
Confidence 7777766643
No 22
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=89.34 E-value=6.1 Score=31.04 Aligned_cols=102 Identities=17% Similarity=0.125 Sum_probs=69.8
Q ss_pred hHHHHHHHcCCCHHHHHHHHHHHHHHhccCCcccccccHHHHHHHHHHHhhhhcCCCcccccchhhccCCCHHHHHHHHH
Q 045984 2 YIERIFKYSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIGGISTAEMNKLEL 81 (127)
Q Consensus 2 fl~~i~~~~~~s~~~~i~aliYi~Rl~~~~~~~~~~~~~~rl~l~alilA~K~~~D~~~~n~~~a~v~g~s~~eln~lE~ 81 (127)
.+.++....+++..+.-.|....-+...+.-. ......-+ ++|.+-+..=..+.+-+-...+.+.+++.+++.+..+
T Consensus 103 ~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~--rGRsie~v-~AA~iY~acR~~~~prtl~eIa~a~~V~~kei~rtyr 179 (285)
T COG1405 103 ELERIASALGLPESVRETAARIYRKAVDKGLL--RGRSIESV-AAACIYAACRINGVPRTLDEIAKALGVSKKEIGRTYR 179 (285)
T ss_pred HHHHHHHHhCCCchHHHHHHHHHHHHhhcCCC--cCCcHHHH-HHHHHHHHHHHcCCCccHHHHHHHHCCCHHHHHHHHH
Confidence 46677777888877777776655555553322 23444444 4444554555667778888899999999999999999
Q ss_pred HHHHhcCCcee-eCHHHH-HHHHHHHH
Q 045984 82 NFLFTLEFKLH-VTTEVF-AKYCSQLD 106 (127)
Q Consensus 82 ~fL~~Ld~~L~-V~~~~~-~~~~~~L~ 106 (127)
.....|+=.+- +++++| .+|+..|.
T Consensus 180 ~~~~~L~l~~~~~~p~~yi~rf~s~L~ 206 (285)
T COG1405 180 LLVRELKLKIPPVDPSDYIPRFASKLG 206 (285)
T ss_pred HHHHhcCCCCCCCCHHHHHHHHHHHcC
Confidence 88888776655 566666 55665554
No 23
>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=86.63 E-value=1.5 Score=28.44 Aligned_cols=86 Identities=15% Similarity=0.152 Sum_probs=56.5
Q ss_pred ChHHHHHHHcCCCHHHHHHHHHHHHHHhccCCcccccccHHHHHHHHHHHhhhhcCCCcccccchhhccCCCHHHHHHHH
Q 045984 1 QYIERIFKYSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIGGISTAEMNKLE 80 (127)
Q Consensus 1 ~fl~~i~~~~~~s~~~~i~aliYi~Rl~~~~~~~~~~~~~~rl~l~alilA~K~~~D~~~~n~~~a~v~g~s~~eln~lE 80 (127)
+|+++..+..+.+..+--+|-++++--..... +-....-.+-.+|+.+|.+.++.....+.......|++.+++...=
T Consensus 5 ~Fl~~~~~~~~~~~~~~~~a~~l~el~l~~~~--fl~~~PS~iAaAai~lA~~~~~~~~~~~~~l~~~t~~~~~~l~~c~ 82 (118)
T PF02984_consen 5 DFLRRFLKISNADQEVRNLARYLLELSLLDYE--FLQYPPSVIAAAAILLARKILGKEPPWPESLEKLTGYDKEDLKECI 82 (118)
T ss_dssp HHHHHHHTSSSHHHHHHHHHHHHHHHHHHSHH--HTTS-HHHHHHHHHHHHHHHHHSSTCSHHHHHHHHTS-HHHHHHHH
T ss_pred HHHHHHHHHcCCcHHHHHHHHHHHHHHHhhcc--ccCCCHHHHHHHHHHHHHHHhCccccCCccchhhcCCCHHHHHHHH
Confidence 47888866666666777777777775444322 2345566788899999999987534444555567788888877766
Q ss_pred HHHHHhcC
Q 045984 81 LNFLFTLE 88 (127)
Q Consensus 81 ~~fL~~Ld 88 (127)
..+...+.
T Consensus 83 ~~i~~~~~ 90 (118)
T PF02984_consen 83 ELIQELLS 90 (118)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHH
Confidence 55555543
No 24
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=83.36 E-value=0.48 Score=38.38 Aligned_cols=91 Identities=19% Similarity=0.222 Sum_probs=70.1
Q ss_pred HHHHHcCCCHHHHHHHHHHHHHHhccCCcccccccHHHHHHHHHHHhhhhcCCCcccccchhhccC--CCHHHHHHHHHH
Q 045984 5 RIFKYSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIGG--ISTAEMNKLELN 82 (127)
Q Consensus 5 ~i~~~~~~s~~~~i~aliYi~Rl~~~~~~~~~~~~~~rl~l~alilA~K~~~D~~~~n~~~a~v~g--~s~~eln~lE~~ 82 (127)
++.+-.+...+++-++..+++|+.....+ .....+++-.+|+++|+|+-.-....-..+..+.+ ++..++-.||.+
T Consensus 146 evsee~r~~~e~l~ls~~~~drfl~~~~~--~~~k~ql~g~s~m~I~sk~ee~~~~~~~ef~~itd~ty~~~qv~~~~~~ 223 (359)
T KOG0654|consen 146 EVSEEYRLTFETLYLSVNYRDRFLSYKEV--NKQKLQLVGISAMLIASKYEEIKEPRVEEFCYITDNTYTYWQVLRMEID 223 (359)
T ss_pred HHHHHHHhhhhheeecHHHHHHHhccCcc--HHHHHHHhCcccceeeccchhhcchHHHHHHhhhhhhhHHHHHHHHHHH
Confidence 44455677888999999999999884433 45567788899999999998776554444444443 689999999999
Q ss_pred HHHhcCCceeeCHHH
Q 045984 83 FLFTLEFKLHVTTEV 97 (127)
Q Consensus 83 fL~~Ld~~L~V~~~~ 97 (127)
.|..+.|.+..+...
T Consensus 224 il~~l~~~~~~pt~~ 238 (359)
T KOG0654|consen 224 ILNALTFELVRPTSK 238 (359)
T ss_pred HHHHhHHHHhCchHH
Confidence 999999999887544
No 25
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=72.64 E-value=20 Score=28.13 Aligned_cols=83 Identities=13% Similarity=0.083 Sum_probs=61.3
Q ss_pred ChHHHHHHHcCCCHHHHHHHHHHHHHHhccCCcccccccHHHHHHHHHHHhhhhcCCCcccccchhhccCCCHHHHHHHH
Q 045984 1 QYIERIFKYSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIGGISTAEMNKLE 80 (127)
Q Consensus 1 ~fl~~i~~~~~~s~~~~i~aliYi~Rl~~~~~~~~~~~~~~rl~l~alilA~K~~~D~~~~n~~~a~v~g~s~~eln~lE 80 (127)
+|+.|+.+..++++++--.|.-.+.+.... +.. ....+--+-.+|+.+|++..+ ..-+.+.-+++.|++...|..-=
T Consensus 196 ~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~-g~~-~Gk~P~glAaaaiy~as~l~~-~~~tq~eva~v~~vtevTIrnry 272 (285)
T COG1405 196 DYIPRFASKLGLSDEVRRKAIEIVKKAKRA-GLT-AGKSPAGLAAAAIYLASLLLG-ERRTQKEVAKVAGVTEVTIRNRY 272 (285)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHHHHHh-Ccc-cCCCchhHHHHHHHHHHHHhC-CchHHHHHHHHhCCeeeHHHHHH
Confidence 589999999999999999998888888772 221 245566788899999998777 55577888888898766655433
Q ss_pred HHHHHh
Q 045984 81 LNFLFT 86 (127)
Q Consensus 81 ~~fL~~ 86 (127)
.++.+.
T Consensus 273 kel~~~ 278 (285)
T COG1405 273 KELADA 278 (285)
T ss_pred HHHHHh
Confidence 443333
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=55.43 E-value=38 Score=23.68 Aligned_cols=74 Identities=14% Similarity=0.185 Sum_probs=49.8
Q ss_pred HHHHHHhccCCcccccccHHHHHHHHHHHhhhhcCCCc-ccccchhhccCC----CHHHHHHHHHHHHHhcCCceeeCHH
Q 045984 22 IYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVDDEC-YNNAYYAKIGGI----STAEMNKLELNFLFTLEFKLHVTTE 96 (127)
Q Consensus 22 iYi~Rl~~~~~~~~~~~~~~rl~l~alilA~K~~~D~~-~~n~~~a~v~g~----s~~eln~lE~~fL~~Ld~~L~V~~~ 96 (127)
+|+.|..- .....+- --|+.|+=+|+-+-+|.. ....-+.=+.|- ......++-.+|...++|+..||.+
T Consensus 38 ~YF~Ragl----~~~~Y~r-i~FFlALYLAndmEED~~~~K~~If~f~~G~~w~~~~~~F~klr~~~~~~m~~Ra~Vsre 112 (131)
T PF11357_consen 38 AYFSRAGL----FSWQYQR-IHFFLALYLANDMEEDDEEPKYEIFPFLYGKNWRSQIPQFHKLRDQFWRRMDWRAWVSRE 112 (131)
T ss_pred HHHHhccc----chhhcch-HHHHHHHHHhhHHHhccchHHHHHHHHHHCcchHHHhHHHHHHHHHHHHHcCCceeeCHH
Confidence 56666543 2222332 246778999999998864 344433333343 3677889999999999999999997
Q ss_pred HHHH
Q 045984 97 VFAK 100 (127)
Q Consensus 97 ~~~~ 100 (127)
+.++
T Consensus 113 ~cEE 116 (131)
T PF11357_consen 113 ECEE 116 (131)
T ss_pred HHHH
Confidence 7643
No 27
>PF00159 Hormone_3: Pancreatic hormone peptide; InterPro: IPR001955 Pancreatic hormone (PP) [] is a peptide synthesized in pancreatic islets of Langherhans, which acts as a regulator of pancreatic and gastrointestinal functions. The hormone is produced as a larger propeptide, which is enzymatically cleaved to yield the mature active peptide: this is 36 amino acids in length [] and has an amidated C terminus []. The hormone has a globular structure, residues 2-8 forming a left-handed poly-proline-II-like helix, residues 9-13 a beta turn, and 14-32 an alpha-helix,held close to the first helix by hydrophobic interactions []. Unlike glucagon, another peptide hormone, the structure of pancreatic peptide is preserved in aqueous solution []. Both N and C termini are required for activity: receptor binding and activation functions may reside in the N and C termini respectively []. Pancreatic hormone is part of a wider family of active peptides that includes: Neuropeptide Y (NPY) [], one of the most abundant peptides in the mammalian nervous system. NPY is implicated in the control of feeding and the secretion of the gonadotrophin-releasing hormone. Peptide YY (PYY) []. PPY is a gut peptide that inhibits exocrine pancreatic secretion, has a vasoconstrictory action and inhibits jejunal and colonic mobility. Various NPY and PYY-like polypeptides from fish and amphibians [, ]. Neuropeptide F (NPF) from invertebrates such as worms and snail. Skin peptide Tyr-Tyr (SPYY) from the frog Phyllomedusa bicolor. SPYY shows a large spectra of antibacterial and antifungal activity. All these peptides are 36 to 39 amino acids long. Like most active peptides, their C-terminal is amidated and they are synthesized as larger protein precursors.; GO: 0005179 hormone activity, 0005576 extracellular region; PDB: 1LJV_A 1BBA_A 1V1D_A 1PPT_A 2H3T_A 2H4B_A 2BF9_A 2H3S_B 1K8V_A 2DF0_A ....
Probab=53.46 E-value=30 Score=18.69 Aligned_cols=23 Identities=17% Similarity=0.169 Sum_probs=18.6
Q ss_pred eeCHHHHHHHHHHHHHhhhhhcC
Q 045984 92 HVTTEVFAKYCSQLDMEGAAAEE 114 (127)
Q Consensus 92 ~V~~~~~~~~~~~L~~~~~~~~~ 114 (127)
+.+.|++.+|+..|++..+.-.+
T Consensus 11 ~aspeel~~Y~~~L~~Y~~lvtR 33 (36)
T PF00159_consen 11 FASPEELAQYYAALRHYINLVTR 33 (36)
T ss_dssp TSSHHHHHHHHHHHHHHHHHHTT
T ss_pred CCCHHHHHHHHHHHHHHHHHHcc
Confidence 35789999999999998876544
No 28
>cd00126 PAH Pancreatic Hormone domain, a regulator of pancreatic and gastrointestinal functions; neuropeptide Y (NPY)b, peptide YY (PYY), and pancreatic polypetide (PP) are closely related; propeptide is enzymatically cleaved to yield the mature active peptide with amidated C-terminal ends; receptor binding and activation functions may reside in the N- and C-termini respectively; occurs in neurons, intestinal endocrine cells, and pancreas; exist as monomers and dimers
Probab=49.04 E-value=34 Score=18.50 Aligned_cols=21 Identities=14% Similarity=0.091 Sum_probs=17.4
Q ss_pred eCHHHHHHHHHHHHHhhhhhc
Q 045984 93 VTTEVFAKYCSQLDMEGAAAE 113 (127)
Q Consensus 93 V~~~~~~~~~~~L~~~~~~~~ 113 (127)
.+.|++.+|+..|++....-.
T Consensus 12 a~~eel~~Y~~~L~~Yinlit 32 (36)
T cd00126 12 ASPEELRQYLAALREYINLIT 32 (36)
T ss_pred CCHHHHHHHHHHHHHHHHHHc
Confidence 478999999999999877543
No 29
>smart00309 PAH Pancreatic hormones / neuropeptide F / peptide YY family. Pancreatic hormone is a regulator of pancreatic and gastrointestinal functions.
Probab=46.52 E-value=39 Score=18.26 Aligned_cols=21 Identities=14% Similarity=0.075 Sum_probs=17.3
Q ss_pred eCHHHHHHHHHHHHHhhhhhc
Q 045984 93 VTTEVFAKYCSQLDMEGAAAE 113 (127)
Q Consensus 93 V~~~~~~~~~~~L~~~~~~~~ 113 (127)
.+.|++.+|+..|++....-.
T Consensus 12 a~~e~l~~Y~~~L~~Yinlit 32 (36)
T smart00309 12 ASPEDLRQYLAALREYINLIT 32 (36)
T ss_pred CCHHHHHHHHHHHHHHHHHhc
Confidence 578999999999999877543
No 30
>KOG0487 consensus Transcription factor Abd-B, contains HOX domain [Transcription]
Probab=40.75 E-value=15 Score=29.28 Aligned_cols=23 Identities=30% Similarity=0.478 Sum_probs=19.3
Q ss_pred CCCHHHHHHHHHHHHHhcCCceeeCHH
Q 045984 70 GISTAEMNKLELNFLFTLEFKLHVTTE 96 (127)
Q Consensus 70 g~s~~eln~lE~~fL~~Ld~~L~V~~~ 96 (127)
-+|..++.+||++|| ||.+|+.|
T Consensus 241 PYTK~QtlELEkEFl----fN~Yitke 263 (308)
T KOG0487|consen 241 PYTKHQTLELEKEFL----FNMYITKE 263 (308)
T ss_pred CchHHHHHHHHHHHH----HHHHHhHH
Confidence 378999999999999 57777754
No 31
>PF09869 DUF2096: Uncharacterized protein conserved in archaea (DUF2096); InterPro: IPR017098 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=38.38 E-value=88 Score=22.81 Aligned_cols=85 Identities=9% Similarity=0.137 Sum_probs=51.3
Q ss_pred CcccccccHHHHHHHHHHHhhhhcCCCcccccchhhccCCCHHHHHHHHHHHHHhcCCceeeCHHHHHHHHHHHHHhhhh
Q 045984 32 SGCLTRLNVHRLLITSFLVAAKFVDDECYNNAYYAKIGGISTAEMNKLELNFLFTLEFKLHVTTEVFAKYCSQLDMEGAA 111 (127)
Q Consensus 32 ~~~~~~~~~~rl~l~alilA~K~~~D~~~~n~~~a~v~g~s~~eln~lE~~fL~~Ld~~L~V~~~~~~~~~~~L~~~~~~ 111 (127)
+..+...-..+|=++-.++.. |..|.+-+.+.-++ --++||..+..++.+.| +.++-..+|...+.+...-
T Consensus 19 g~~vP~ev~e~LR~a~~ii~~-Y~~Dph~~~~~L~~----ae~~Ln~vQ~~L~~l~d----~~~d~~~~~l~km~kA~rg 89 (169)
T PF09869_consen 19 GVEVPEEVFEDLRLANAIINY-YKLDPHASFKELKD----AEKELNSVQSILFDLCD----EGEDYRKKWLDKMKKASRG 89 (169)
T ss_pred CCCCCHHHHHHHHHHHHHHHH-HcCCchhHHHHHHH----HHHHHHHHHHHHHHHHh----ccHHHHHHHHHHHHHHhcc
Confidence 333333334444444444433 22333323333333 35789999999999998 7777788899888876652
Q ss_pred --------hcCCCCCCCCCCCC
Q 045984 112 --------AEESWVPDTSKPTG 125 (127)
Q Consensus 112 --------~~~~~~~~~~~~~~ 125 (127)
..+.|-|..-.|+|
T Consensus 90 E~~~~fp~~kS~Fn~~v~~p~~ 111 (169)
T PF09869_consen 90 ELVFEFPLKKSKFNPEVKAPPG 111 (169)
T ss_pred chhhcCcchhhhhhhhcCCCCC
Confidence 25666666666665
No 32
>PF11201 DUF2982: Protein of unknown function (DUF2982); InterPro: IPR021367 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=37.88 E-value=69 Score=22.92 Aligned_cols=41 Identities=15% Similarity=0.248 Sum_probs=28.5
Q ss_pred cCCCHHHHHHHHHHHHHhcCCceeeCHHHH----HHHHHHHHHhhh
Q 045984 69 GGISTAEMNKLELNFLFTLEFKLHVTTEVF----AKYCSQLDMEGA 110 (127)
Q Consensus 69 ~g~s~~eln~lE~~fL~~Ld~~L~V~~~~~----~~~~~~L~~~~~ 110 (127)
.|+-..=-|+|+. .=+.++|+++|+.++. ..|...+++..+
T Consensus 107 ~Gl~AMfanRm~~-lr~~lGYdlfi~~~~LDR~~~eFv~Llr~~~a 151 (152)
T PF11201_consen 107 KGLIAMFANRMQY-LRQLLGYDLFIPASDLDRDPEEFVGLLRRYQA 151 (152)
T ss_pred hhHHHHHHHHHHH-HHHhcCceEEeEhhhccCCHHHHHHHHHHHHh
Confidence 4555555667653 2347999999999887 457777777654
No 33
>PF14054 DUF4249: Domain of unknown function (DUF4249)
Probab=36.15 E-value=53 Score=24.93 Aligned_cols=33 Identities=15% Similarity=0.290 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHhhhhh--cCCCCCCCCCCCCCC
Q 045984 95 TEVFAKYCSQLDMEGAAA--EESWVPDTSKPTGNL 127 (127)
Q Consensus 95 ~~~~~~~~~~L~~~~~~~--~~~~~~~~~~~~~~~ 127 (127)
.+++-+|++.+....... +..+.+.++.++||+
T Consensus 245 s~~~Y~y~~~l~~~~~~~~~g~~~~~~P~~v~sNI 279 (298)
T PF14054_consen 245 SEEAYRYLKTLNDQSNNGNDGGLFFPEPANVYSNI 279 (298)
T ss_pred CHHHHHHHHHHHHHhccCcccccCCCCCcccccce
Confidence 444558888887766654 455899999999995
No 34
>PF04282 DUF438: Family of unknown function (DUF438); InterPro: IPR007380 This is a a group of uncharacterised proteins.
Probab=36.06 E-value=92 Score=19.35 Aligned_cols=32 Identities=19% Similarity=0.342 Sum_probs=26.7
Q ss_pred ccCCCHHHHHHHHHHHHHhcCCceeeCHHHHHHHHHH
Q 045984 68 IGGISTAEMNKLELNFLFTLEFKLHVTTEVFAKYCSQ 104 (127)
Q Consensus 68 v~g~s~~eln~lE~~fL~~Ld~~L~V~~~~~~~~~~~ 104 (127)
++++|..||..||.++++ =.++.++..+.|..
T Consensus 26 ~~~Vs~~EI~~~Eq~Li~-----eG~~~eeiq~LCdv 57 (71)
T PF04282_consen 26 FSDVSASEISAAEQELIQ-----EGMPVEEIQKLCDV 57 (71)
T ss_pred HCCCCHHHHHHHHHHHHH-----cCCCHHHHHHHhHH
Confidence 568999999999999998 24888888887753
No 35
>PF13744 HTH_37: Helix-turn-helix domain; PDB: 2A6C_B 2O38_A.
Probab=31.73 E-value=42 Score=20.78 Aligned_cols=39 Identities=23% Similarity=0.300 Sum_probs=26.1
Q ss_pred cCCCcccccchhhccCCCHHHHHHHHH------------HHHHhcCCceee
Q 045984 55 VDDECYNNAYYAKIGGISTAEMNKLEL------------NFLFTLEFKLHV 93 (127)
Q Consensus 55 ~~D~~~~n~~~a~v~g~s~~eln~lE~------------~fL~~Ld~~L~V 93 (127)
.....++.+.-|+..|++...+.++|. .++..|++++.|
T Consensus 27 ~~~~~ltQ~e~A~~lgisq~~vS~l~~g~~~~~sl~~L~~~l~aLG~~v~i 77 (80)
T PF13744_consen 27 REERGLTQAELAERLGISQPRVSRLENGKIDDFSLDTLLRYLEALGGRVEI 77 (80)
T ss_dssp HHCCT--HHHHHHHHTS-HHHHHHHHTT-GCC--HHHHHHHHHHTTEEEEE
T ss_pred HHHcCCCHHHHHHHHCCChhHHHHHHcCcccCCCHHHHHHHHHHcCCeEEE
Confidence 344668888888889999999999984 355566666554
No 36
>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=29.36 E-value=89 Score=21.26 Aligned_cols=52 Identities=17% Similarity=0.068 Sum_probs=38.1
Q ss_pred HHHHHHcCCCHHHHHHHHHHHHHHhccCCcccccccHHHHHHHHHHHhhhhcC
Q 045984 4 ERIFKYSRCSPSCSVVAYIYLDRFLQRISGCLTRLNVHRLLITSFLVAAKFVD 56 (127)
Q Consensus 4 ~~i~~~~~~s~~~~i~aliYi~Rl~~~~~~~~~~~~~~rl~l~alilA~K~~~ 56 (127)
..|+... ....-+..|+-|++.+.+.-++++....|.+||-=|.++++|=.+
T Consensus 56 ~AIv~sf-~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v~s~~~~~ 107 (126)
T PF12921_consen 56 IAIVHSF-GYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYVLSSKRED 107 (126)
T ss_pred HHHHHHH-HhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhcCCccc
Confidence 3344444 334557788899999999333888889999999999998886433
No 37
>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=26.92 E-value=98 Score=21.67 Aligned_cols=28 Identities=21% Similarity=0.516 Sum_probs=20.7
Q ss_pred hHHHHHHHcC-CCHHHHHHHHHHHHHHhc
Q 045984 2 YIERIFKYSR-CSPSCSVVAYIYLDRFLQ 29 (127)
Q Consensus 2 fl~~i~~~~~-~s~~~~i~aliYi~Rl~~ 29 (127)
|++|+.+.+- .++...+..+..+.++.+
T Consensus 67 FiKRLl~~sl~~~~~~~~~~L~~i~~ll~ 95 (164)
T PF03914_consen 67 FIKRLLQLSLHLPPSFALAILALIRKLLK 95 (164)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence 7888888876 555666666677888877
No 38
>PF04219 DUF413: Protein of unknown function, DUF; InterPro: IPR007335 This is a family of uncharacterised proteins.
Probab=26.58 E-value=84 Score=20.61 Aligned_cols=29 Identities=24% Similarity=0.466 Sum_probs=19.0
Q ss_pred hhcCCCcccccchhhccCCCHHHHHHHHHH
Q 045984 53 KFVDDECYNNAYYAKIGGISTAEMNKLELN 82 (127)
Q Consensus 53 K~~~D~~~~n~~~a~v~g~s~~eln~lE~~ 82 (127)
+|.||..|.. =|++.|++|++|-..||..
T Consensus 1 rF~D~~~fPr-GF~RsGdFTi~Ea~lLe~~ 29 (93)
T PF04219_consen 1 RFFDDKNFPR-GFSRSGDFTIKEAQLLEQY 29 (93)
T ss_pred CCCcCCCCCC-ccccCCcccHHHHHHHHHH
Confidence 4566665543 2567777888888777753
No 39
>PF11197 DUF2835: Protein of unknown function (DUF2835); InterPro: IPR021363 This is a bacterial family of uncharacterised proteins. One member of this family (A4VM42 from SWISSPROT) is annotated as the A subunit of Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV).
Probab=26.41 E-value=39 Score=20.84 Aligned_cols=21 Identities=19% Similarity=0.355 Sum_probs=16.3
Q ss_pred CCceeeCHHHHHHHHHHHHHh
Q 045984 88 EFKLHVTTEVFAKYCSQLDME 108 (127)
Q Consensus 88 d~~L~V~~~~~~~~~~~L~~~ 108 (127)
-|+|++|.++|.+||.---+.
T Consensus 2 ~f~l~is~~~~l~~Y~G~a~~ 22 (68)
T PF11197_consen 2 YFSLNISYQEFLAYYQGAASK 22 (68)
T ss_pred EEEEEcCHHHHHHhccccccE
Confidence 378999999999998754433
No 40
>PF02108 FliH: Flagellar assembly protein FliH; InterPro: IPR018035 This entry represents a region found in the flagellar assembly protein FliH, as well as in type III secretion system protein HrpE. Many flagellar proteins are exported by a flagellum-specific export pathway. Attempts have been made to characterise the apparatus responsible for this process, by designing assays to screen for mutants with export defects. Experiments involving filament removal from temperature-sensitive flagellar mutants of Salmonella typhimurium have shown that, while most mutants were able to regrow filaments, flhA, fliH, fliI and fliN mutants showed no or greatly reduced regrowth. This suggests that the corresponding gene products are involved in the process of flagellum-specific export []. The sequence of fliH has been deduced and shown to encode a protein of molecular mass of 25,782 Da. Bacterial HrpE proteins are belived to function on the type III secretion system, specifically the secretion of HrpZ (harpinPss) [].
Probab=25.80 E-value=1e+02 Score=20.08 Aligned_cols=39 Identities=18% Similarity=0.193 Sum_probs=27.8
Q ss_pred CCceeeCHHHHHHHHHHHHHhhhhhcCCCCCCCCCCCCC
Q 045984 88 EFKLHVTTEVFAKYCSQLDMEGAAAEESWVPDTSKPTGN 126 (127)
Q Consensus 88 d~~L~V~~~~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~ 126 (127)
.-.++|+++++...-..+.......+-.+.++++-++|.
T Consensus 69 ~v~I~v~p~d~~~l~~~~~~~~~~~~~~l~~D~~l~~G~ 107 (128)
T PF02108_consen 69 KVTIRVHPDDYEALEELLEDELPELGWELVADPSLAPGD 107 (128)
T ss_pred CeEEEECHHHHHHHHHHHHHHHhhcCCEEEecCCCCCCC
Confidence 345889999998777766644444444668888888884
No 41
>smart00153 VHP Villin headpiece domain.
Probab=23.30 E-value=39 Score=18.13 Aligned_cols=19 Identities=21% Similarity=0.455 Sum_probs=12.6
Q ss_pred cccchhhccCCCHHHHHHH
Q 045984 61 NNAYYAKIGGISTAEMNKL 79 (127)
Q Consensus 61 ~n~~~a~v~g~s~~eln~l 79 (127)
+..++..+.|++.+|...|
T Consensus 3 sdeeF~~vfgmsr~eF~~L 21 (36)
T smart00153 3 SDEDFEEVFGMTREEFYKL 21 (36)
T ss_pred CHHHHHHHHCCCHHHHHhC
Confidence 4556677777777776654
No 42
>PF11455 DUF3018: Protein of unknown function (DUF3018); InterPro: IPR021558 This is a bacterial family of uncharacterised proteins.
Probab=22.49 E-value=82 Score=19.30 Aligned_cols=27 Identities=33% Similarity=0.576 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHhhhhhcCCCCCCCCCC
Q 045984 97 VFAKYCSQLDMEGAAAEESWVPDTSKP 123 (127)
Q Consensus 97 ~~~~~~~~L~~~~~~~~~~~~~~~~~~ 123 (127)
-..+|-..|+..-..+=.=|+|+|..|
T Consensus 4 RV~khR~~lRa~GLRPVqiWVPDtr~p 30 (65)
T PF11455_consen 4 RVRKHRERLRAAGLRPVQIWVPDTRRP 30 (65)
T ss_pred HHHHHHHHHHHcCCCcceeeCCCCCCh
Confidence 345677777776666777899999987
No 43
>PF12108 SF3a60_bindingd: Splicing factor SF3a60 binding domain; InterPro: IPR021966 This domain is found in eukaryotes. This domain is about 30 amino acids in length. This domain has a single completely conserved residue Y that may be functionally important. SF3a60 makes up the SF3a complex with SF3a66 and SF3a120. This domain is the binding site of SF3a60 for SF3a120. The SF3a complex is part of the spliceosome, a protein complex involved in splicing mRNA after transcription. ; PDB: 2DT7_A.
Probab=21.78 E-value=1e+02 Score=15.60 Aligned_cols=17 Identities=12% Similarity=0.257 Sum_probs=11.4
Q ss_pred CHHHHHHHHHHHHHhhh
Q 045984 94 TTEVFAKYCSQLDMEGA 110 (127)
Q Consensus 94 ~~~~~~~~~~~L~~~~~ 110 (127)
..++|..|+.+|.+-..
T Consensus 5 ~~d~f~eFY~rlk~Ike 21 (28)
T PF12108_consen 5 GGDPFSEFYERLKEIKE 21 (28)
T ss_dssp S--HHHHHHHHHHHHHH
T ss_pred CCChHHHHHHHHHHHHH
Confidence 46889999998886544
No 44
>COG1476 Predicted transcriptional regulators [Transcription]
Probab=20.79 E-value=66 Score=19.86 Aligned_cols=24 Identities=21% Similarity=0.238 Sum_probs=20.9
Q ss_pred cccccchhhccCCCHHHHHHHHHH
Q 045984 59 CYNNAYYAKIGGISTAEMNKLELN 82 (127)
Q Consensus 59 ~~~n~~~a~v~g~s~~eln~lE~~ 82 (127)
.++....|+..|+|.+.++.+|+.
T Consensus 14 ~ltQ~elA~~vgVsRQTi~~iEkg 37 (68)
T COG1476 14 GLTQEELAKLVGVSRQTIIAIEKG 37 (68)
T ss_pred CcCHHHHHHHcCcCHHHHHHHHcC
Confidence 467777889999999999999987
Done!