Query psy7372
Match_columns 352
No_of_seqs 280 out of 1280
Neff 6.6
Searched_HMMs 46136
Date Fri Aug 16 16:35:16 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7372.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7372hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR00569 ccl1 cyclin ccl1. Un 100.0 1.4E-72 3E-77 541.6 30.0 302 27-331 1-305 (305)
2 KOG2496|consensus 100.0 1.3E-64 2.9E-69 472.4 21.3 299 26-326 1-304 (325)
3 KOG0794|consensus 100.0 2.7E-47 5.8E-52 344.2 15.4 241 26-299 4-258 (264)
4 KOG0834|consensus 100.0 2.2E-38 4.7E-43 305.0 14.8 225 31-279 9-246 (323)
5 COG5333 CCL1 Cdk activating ki 100.0 1.8E-35 4E-40 278.9 15.2 170 71-246 36-209 (297)
6 KOG0835|consensus 100.0 8.7E-34 1.9E-38 267.6 20.8 231 63-304 6-254 (367)
7 KOG0656|consensus 99.8 2.2E-18 4.7E-23 166.7 16.7 158 78-241 76-238 (335)
8 PRK00423 tfb transcription ini 99.7 8.5E-17 1.8E-21 156.1 18.5 159 75-246 118-276 (310)
9 KOG0653|consensus 99.7 2.3E-15 5.1E-20 150.4 15.9 188 78-278 156-345 (391)
10 KOG0655|consensus 99.6 2.8E-15 6.1E-20 142.6 11.5 166 72-241 137-309 (408)
11 PF00134 Cyclin_N: Cyclin, N-t 99.6 8.2E-15 1.8E-19 122.7 10.9 100 76-179 27-127 (127)
12 COG5024 Cyclin [Cell division 99.5 1.4E-13 3.1E-18 137.8 14.4 189 77-278 210-399 (440)
13 cd00043 CYCLIN Cyclin box fold 99.4 2.6E-12 5.6E-17 99.0 8.9 86 81-171 3-88 (88)
14 smart00385 CYCLIN domain prese 99.3 1.4E-11 3E-16 94.1 7.6 83 85-172 1-83 (83)
15 KOG0654|consensus 99.2 5E-11 1.1E-15 116.8 11.1 190 79-283 136-326 (359)
16 COG1405 SUA7 Transcription ini 99.2 1E-09 2.3E-14 105.2 17.5 153 82-246 99-251 (285)
17 KOG1597|consensus 98.8 1.4E-07 3.1E-12 89.4 14.7 150 83-244 107-258 (308)
18 PF00382 TFIIB: Transcription 98.4 1.2E-06 2.7E-11 66.7 7.3 65 87-153 1-65 (71)
19 PF02984 Cyclin_C: Cyclin, C-t 98.3 9.8E-07 2.1E-11 72.3 5.6 89 181-278 1-89 (118)
20 KOG4164|consensus 98.0 7.6E-06 1.6E-10 80.3 6.2 123 44-181 359-482 (497)
21 KOG1598|consensus 98.0 0.0003 6.5E-09 72.0 16.2 156 81-246 68-226 (521)
22 PF08613 Cyclin: Cyclin; Inte 97.7 0.0004 8.7E-09 60.5 10.0 88 85-178 56-149 (149)
23 PRK00423 tfb transcription ini 97.6 0.00051 1.1E-08 67.0 10.2 89 84-178 220-308 (310)
24 cd00043 CYCLIN Cyclin box fold 97.3 0.0014 3E-08 49.8 8.0 66 181-254 3-68 (88)
25 smart00385 CYCLIN domain prese 97.2 0.0022 4.9E-08 48.1 7.7 50 203-254 13-62 (83)
26 COG1405 SUA7 Transcription ini 95.6 0.056 1.2E-06 52.2 8.5 85 85-175 196-280 (285)
27 PF00382 TFIIB: Transcription 93.4 0.25 5.4E-06 37.3 5.7 44 203-246 11-54 (71)
28 PF01857 RB_B: Retinoblastoma- 92.6 0.64 1.4E-05 40.0 7.8 71 81-153 12-84 (135)
29 KOG1597|consensus 92.2 0.47 1E-05 45.8 7.0 68 83-152 203-270 (308)
30 KOG0835|consensus 87.5 0.92 2E-05 44.4 5.0 58 85-144 143-202 (367)
31 KOG1674|consensus 86.7 2.6 5.6E-05 39.2 7.3 81 98-181 91-181 (218)
32 KOG0834|consensus 84.2 0.51 1.1E-05 46.4 1.4 61 86-146 154-216 (323)
33 PF02984 Cyclin_C: Cyclin, C-t 81.8 4.3 9.2E-05 32.5 5.9 42 99-140 17-58 (118)
34 TIGR00569 ccl1 cyclin ccl1. Un 79.2 5.2 0.00011 39.1 6.4 42 99-140 180-221 (305)
35 PF00134 Cyclin_N: Cyclin, N-t 78.4 34 0.00074 27.7 10.5 42 204-245 49-90 (127)
36 KOG1675|consensus 50.9 25 0.00054 34.5 4.6 75 105-182 213-290 (343)
37 KOG0794|consensus 50.6 21 0.00045 33.7 3.9 24 121-144 190-213 (264)
38 KOG2496|consensus 45.8 38 0.00083 33.1 5.0 50 203-252 75-126 (325)
39 KOG1598|consensus 43.4 24 0.00053 36.8 3.5 54 100-153 184-237 (521)
40 KOG1010|consensus 39.7 76 0.0016 35.2 6.6 75 77-153 671-750 (920)
41 COG1422 Predicted membrane pro 34.0 2.5E+02 0.0054 25.9 8.1 82 206-296 25-106 (201)
42 PF11357 Spy1: Cell cycle regu 31.5 1.7E+02 0.0037 25.1 6.3 79 100-181 30-110 (131)
43 COG0484 DnaJ DnaJ-class molecu 24.5 2E+02 0.0043 29.1 6.3 60 283-350 14-73 (371)
44 PF07739 TipAS: TipAS antibiot 24.5 2E+02 0.0044 22.9 5.5 62 265-328 35-96 (118)
45 KOG0656|consensus 21.8 4.8E+02 0.01 26.0 8.3 85 160-246 49-141 (335)
46 COG5333 CCL1 Cdk activating ki 20.5 2.7E+02 0.0058 27.3 6.1 42 203-244 62-103 (297)
No 1
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=100.00 E-value=1.4e-72 Score=541.61 Aligned_cols=302 Identities=47% Similarity=0.739 Sum_probs=281.3
Q ss_pred hhhc--ccCcccCCHHHHHHHHHHHhHHHHHHHhhhcCccccccCCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy7372 27 FSEG--QSYGQCSVEAELIALREAANQNFILEHRAELTDEEASEHFLSASEERVLVRHYQLQLRDFCKRFSPPMPKVVIG 104 (352)
Q Consensus 27 y~~S--~r~W~Ft~e~~L~~~R~~~n~~~~~~~~~~~~~~~~~~~~lt~eeE~~l~~~y~~~I~~i~~~l~~~Lp~~V~a 104 (352)
||+| +|+|+|+++++|+++|.++|+++++++.+++++.+....+||+|||+.++.||+.+|+++|.+|+|+||+.|++
T Consensus 1 y~~StQ~r~W~F~~~~~L~~~R~~~N~~~~~~~~~~~~~~~~~~~~Lt~eeE~~l~~~y~~~i~~~~~~lkp~Lpq~via 80 (305)
T TIGR00569 1 YRNSSQKRHWTFTSEEQLQEKRADANAKFREAHEEEEKVLEAKPIFLTPEEELDLVKYYEKRLLDFCSAFKPTMPTSVVG 80 (305)
T ss_pred CCCCcccccCcCCCHHHHHHHHHHHHHHHHHHHhhhccccccccCCCCHHHHHHHHHHHHHHHHHHHHHhcCCCCchHHH
Confidence 7888 99999997789999999999999999877766666677899999999999999999999999999999999999
Q ss_pred HHHHHHHHHhccCCcCccChHHHHHHHHHhhhccccCCCCHHHHHhhhccchhhhHHHHHHHHHHHHHHcCccccccCCh
Q psy7372 105 TAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKGDQQKASDIILNNELLLMQQLKYHLTVHNPY 184 (352)
Q Consensus 105 TAi~yf~RFyl~~S~~~~~p~~I~~tcLfLA~K~EE~~~~i~~~v~~l~~d~~~~~e~Il~~E~~lL~~L~F~L~v~~P~ 184 (352)
||++||||||+++|+++|||++|++||||||||+||+++++++|++.++.++..++++|+++|+.||++|+|+|.|+|||
T Consensus 81 TAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE~~~si~~fv~~~~~~~~~~~~~Il~~E~~lL~~L~F~L~V~hPy 160 (305)
T TIGR00569 81 TAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLKETPLKALEQVLEYELLLIQQLNFHLIVHNPY 160 (305)
T ss_pred HHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhccccCcCHHHHHhhccCCchhhHHHHHHHHHHHHHHCCCcEEeeCcc
Confidence 99999999999999999999999999999999999999999999998875555677899999999999999999999999
Q ss_pred HHHHHHHHHhhcc-cCCCCchhHHHHHHHHHHHHhccccccccCHHHHHHHHHHHHHHhcccchhhHHHHHhcCCCcccc
Q psy7372 185 RPVEGFLIDIKTR-SQLRDPDRLRPGIDEFLDKMFLTDACLLFSPSQIALAAVLQSASKLQENLDAYVTQTLLGQHANVR 263 (352)
Q Consensus 185 r~L~~~l~~l~~~-~~l~~~~~l~~~A~~~l~ds~~Td~~L~y~Ps~IAlAal~lA~~~~~~~~~~y~~~~~~~~~~~~~ 263 (352)
++|.+|+.+++++ ++..+.+.+.+.||.++||+++||+||+|+|++||+|||++|++..|++++++..+.+..+++++.
T Consensus 161 r~L~~~l~dl~~~l~~~~~~~~l~q~a~~~lndsl~Td~~L~y~Ps~IAlAAI~lA~~~~~~~l~~~~~e~~~~~~~~~~ 240 (305)
T TIGR00569 161 RPLEGFLIDIKTRLPGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIALAAILHTASRAGLNMESYLTEQLSVPGNREE 240 (305)
T ss_pred HHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHcCCceecCCHHHHHHHHHHHHHHHhCCCCcccchhhhcccccHHH
Confidence 9999999999875 355566788999999999999999999999999999999999999999999988888777678899
Q ss_pred HHHHHHHHHHHHHHHhCcCCCCCHHhHHHHHHHHHHhcCCCCCCCcHHHHHHHhhccCCcchHHHHhh
Q psy7372 264 LVDLIEAVRKIRTLVSKPIESPSREMFKQLEKRLEKCRNQANNPDSHIYKERMLESLNDDDESAARRY 331 (352)
Q Consensus 264 l~~l~~~i~~i~~l~~~~~~~~~~~~v~~i~~KL~~c~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 331 (352)
++.|++.|++|..++ +++++|+.++++.|++||++|+||+++++|+ +.|+|++|||||++.+.++
T Consensus 241 ~~~l~~~~~~~~~~~-~~~~~~~~~~~~~i~~kl~~c~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~ 305 (305)
T TIGR00569 241 LPQLIDIMRELRILV-KKYEEPRSEKVAALKKKLDECHSIEENLSSV--KIRKRKGYEDDTYISKKAK 305 (305)
T ss_pred HHHHHHHHHHHHHHH-HcCCCCCHHHHHHHHHHHHHHhChhhCcchH--HHHHHhccccccccccccC
Confidence 999999999999999 9999999999999999999999999999996 6789999999999887653
No 2
>KOG2496|consensus
Probab=100.00 E-value=1.3e-64 Score=472.38 Aligned_cols=299 Identities=43% Similarity=0.736 Sum_probs=280.9
Q ss_pred chhhc--ccCcccCCHHHHHHHHHHHhHHHHHHHhhhcCccccccCCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q psy7372 26 FFSEG--QSYGQCSVEAELIALREAANQNFILEHRAELTDEEASEHFLSASEERVLVRHYQLQLRDFCKRFSPPMPKVVI 103 (352)
Q Consensus 26 ~y~~S--~r~W~Ft~e~~L~~~R~~~n~~~~~~~~~~~~~~~~~~~~lt~eeE~~l~~~y~~~I~~i~~~l~~~Lp~~V~ 103 (352)
||++| +|+|+|| |+||++.|.++|++|++.+.+.+...+....++++++|+.|...++.-+.++|.+|+|+||..|+
T Consensus 1 ~y~~Ssq~r~W~ft-e~qL~e~r~~~N~k~i~~~ee~~~~~~~~e~~v~~~ee~tl~k~~E~~l~~f~~k~~p~lp~~Vv 79 (325)
T KOG2496|consen 1 MYRTSSQYRKWIFT-EEQLAERRVDANQKAIQMLEEEAHNLDENEVFVLEAEELTLTKEEELSLVNFYSKFKPNLPTSVV 79 (325)
T ss_pred CCCcchhhhccccc-HHHHHHHHHHHHHHHHHHHHHhccCCCccchhccccccccccHHHHHHHHHHHHHhcCCCchHHH
Confidence 69988 9999999 78999999999999999888776556667789999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhccCCcCccChHHHHHHHHHhhhccccCCCCHHHHHhhhccchhhhHHHHHHHHHHHHHHcCccccccCC
Q psy7372 104 GTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKGDQQKASDIILNNELLLMQQLKYHLTVHNP 183 (352)
Q Consensus 104 aTAi~yf~RFyl~~S~~~~~p~~I~~tcLfLA~K~EE~~~~i~~~v~~l~~d~~~~~e~Il~~E~~lL~~L~F~L~v~~P 183 (352)
+||+.||+|||+.||+|+|+|+.||+||+|||||+||+++||++|+++++++++++.+.|+.+|+.+|++|+|+|.||+|
T Consensus 80 ~TA~~fFkRffL~nsvme~~pk~I~~tc~flA~Kieef~ISieqFvkn~~~~~~k~~e~vLk~E~~llqsL~f~L~vh~P 159 (325)
T KOG2496|consen 80 STAIEFFKRFFLENSVMEYSPKIIMATCFFLACKIEEFYISIEQFVKNMNGRKWKTHEIVLKYEFLLLQSLKFSLTVHNP 159 (325)
T ss_pred HHHHHHHHHHHHhcchhhcChHHHHHHHHHHHhhhHhheecHHHHHhhccCcccccHHHHHhchHHHHHhhhhhheecCC
Confidence 99999999999999999999999999999999999999999999999999888889999999999999999999999999
Q ss_pred hHHHHHHHHHhhcc-cCCCCchhHHHHHH--HHHHHHhccccccccCHHHHHHHHHHHHHHhcccchhhHHHHHhcCCCc
Q psy7372 184 YRPVEGFLIDIKTR-SQLRDPDRLRPGID--EFLDKMFLTDACLLFSPSQIALAAVLQSASKLQENLDAYVTQTLLGQHA 260 (352)
Q Consensus 184 ~r~L~~~l~~l~~~-~~l~~~~~l~~~A~--~~l~ds~~Td~~L~y~Ps~IAlAal~lA~~~~~~~~~~y~~~~~~~~~~ 260 (352)
||+++||+.|++++ +.+.++..+++... .+++.+++||++++|||||||+|||.+|+...|+.+++|+.+.++..++
T Consensus 160 yRPleGFl~D~kt~l~~~~n~d~~~~~~d~~~fl~~~lltDa~lLytPsQIALaAil~a~~~~~~~l~s~~~e~l~~~en 239 (325)
T KOG2496|consen 160 YRPLEGFLLDMKTRLPALENPDILRKHDDSKKFLDRALLTDAYLLYTPSQIALAAILHAAGRTGETLESYLLESLGSQEN 239 (325)
T ss_pred CCchHHHHHHHHHHHHhccCHHHHhhhhhHHHHHHHHHHhccceecChHHHHHHHHHHHhccccchHHHHHHHHhcCccc
Confidence 99999999999998 77888877776666 9999999999999999999999999999889999999999998888888
Q ss_pred cccHHHHHHHHHHHHHHHhCcCCCCCHHhHHHHHHHHHHhcCCCCCCCcHHHHHHHhhccCCcchH
Q psy7372 261 NVRLVDLIEAVRKIRTLVSKPIESPSREMFKQLEKRLEKCRNQANNPDSHIYKERMLESLNDDDES 326 (352)
Q Consensus 261 ~~~l~~l~~~i~~i~~l~~~~~~~~~~~~v~~i~~KL~~c~~p~~~~~~~~~~~~~~~~~~~~~~~ 326 (352)
+..++.+.++++.+..++ ++|+.|+.++++.+.+||+.|+|+..++++.+|+++.++.|++.++-
T Consensus 240 r~~~s~l~d~~~~~~nlv-k~~~~~~~~~va~~~~kl~~C~~~~~~~~~~~~~e~~rk~~~~~~~~ 304 (325)
T KOG2496|consen 240 REKLSELLDILKKIRNLV-KQYKEPDRKDVAVIERKLESCKSQLENHDSSLYKEKRRKHYEDRDSN 304 (325)
T ss_pred cccchhhHHHHHHHHHHH-HhccCccHHHHHHHHHHHHHHhhHhhcccchhhHHHHHhhhhccCCC
Confidence 999999999999999999 99999999999999999999999999999999999888888774443
No 3
>KOG0794|consensus
Probab=100.00 E-value=2.7e-47 Score=344.19 Aligned_cols=241 Identities=27% Similarity=0.396 Sum_probs=212.6
Q ss_pred chhhc--ccCcccCCHHHHHHHHHHHhHHHHHHHhhhcCccccccCCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q psy7372 26 FFSEG--QSYGQCSVEAELIALREAANQNFILEHRAELTDEEASEHFLSASEERVLVRHYQLQLRDFCKRFSPPMPKVVI 103 (352)
Q Consensus 26 ~y~~S--~r~W~Ft~e~~L~~~R~~~n~~~~~~~~~~~~~~~~~~~~lt~eeE~~l~~~y~~~I~~i~~~l~~~Lp~~V~ 103 (352)
.||+| +..|+|++ ++|...|.. +..+++.||-..+..|....|+.+|++++ ++|.|+
T Consensus 4 NFW~SSh~~qwl~dk-~el~k~r~~------------------D~r~l~~d~~~~l~i~~~n~I~~lg~~lk--lRQ~Vi 62 (264)
T KOG0794|consen 4 NFWTSSHYQQWLLDK-TELLKERQL------------------DLRGLSEDEYSKLKIFMANVIQKLGQHLK--LRQRVI 62 (264)
T ss_pred chhhhhhhhhHhcCH-HHHhhhccc------------------hhhcccHHHHHhHHHHHHHHHHHHHHHHH--HHHHHH
Confidence 59999 99999997 589888751 24489999999999999999999999999 999999
Q ss_pred HHHHHHHHHHhccCCcCccChHHHHHHHHHhhhccccCC-CCHHHHHhhhc------c--c--hhhhHHHHHHHHHHHHH
Q psy7372 104 GTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFN-LSISQFVSNIK------G--D--QQKASDIILNNELLLMQ 172 (352)
Q Consensus 104 aTAi~yf~RFyl~~S~~~~~p~~I~~tcLfLA~K~EE~~-~~i~~~v~~l~------~--d--~~~~~e~Il~~E~~lL~ 172 (352)
|||++||+|||+++|+.+++|.+++.||+|||||+||++ ..++-+++..+ + + .......|+++|+.||+
T Consensus 63 ATAivY~rRfy~r~S~k~~~p~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L~~~f~~~~e~~~~~~~~I~e~Ef~llE 142 (264)
T KOG0794|consen 63 ATAIVYFRRFYLRKSLKEIEPRLLAPTCLYLACKVEECPIVHIRLLVNEAKVLKTRFSYWPEKFPYERKDILEMEFYLLE 142 (264)
T ss_pred HHHHHHHHHHHHHHhhhccCHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHhhhcccchhhcCCCcCcchhhhhhHHh
Confidence 999999999999999999999999999999999999998 56776665432 0 0 11345679999999999
Q ss_pred HcCccccccCChHHHHHHHHHhhcccCCCCchhHHHHHHHHHHHHhccccccccCHHHHHHHHHHHHHHhcccch-hhHH
Q psy7372 173 QLKYHLTVHNPYRPVEGFLIDIKTRSQLRDPDRLRPGIDEFLDKMFLTDACLLFSPSQIALAAVLQSASKLQENL-DAYV 251 (352)
Q Consensus 173 ~L~F~L~v~~P~r~L~~~l~~l~~~~~l~~~~~l~~~A~~~l~ds~~Td~~L~y~Ps~IAlAal~lA~~~~~~~~-~~y~ 251 (352)
.|++.|.||||||+|.+++.|++. +...+.+.+|.++||++.+|+||.|||++||+||+++|+...|.+. ..|+
T Consensus 143 ~Ld~~LIVhHPYrsL~q~~qd~gi-----~d~~~l~~~W~ivNDSyr~Dl~Ll~PPh~IalAcl~Ia~~~~~k~~~~~w~ 217 (264)
T KOG0794|consen 143 ALDCYLIVHHPYRSLLQFVQDMGI-----NDQKLLQLAWSIVNDSYRMDLCLLYPPHQIALACLYIACVIDEKDIPKAWF 217 (264)
T ss_pred hhceeEEEecCCccHHHHHHHhcc-----cchhhhhhhHhhhcchhhcceeeecCHHHHHHHHHHHHHhhcCCChHHHHH
Confidence 999999999999999999999852 2455779999999999999999999999999999999999999988 6787
Q ss_pred HHHhcCCCccccHHHHHHHHHHHHHHHhCcCCCCCHHhHHHHHHHHHH
Q psy7372 252 TQTLLGQHANVRLVDLIEAVRKIRTLVSKPIESPSREMFKQLEKRLEK 299 (352)
Q Consensus 252 ~~~~~~~~~~~~l~~l~~~i~~i~~l~~~~~~~~~~~~v~~i~~KL~~ 299 (352)
.+. .++++++.+++++|.+++ ...+.-+.+.|+.+-.||.+
T Consensus 218 ~el------~vD~ekV~~~v~~I~~lY-e~wk~~~E~~v~~ll~kl~~ 258 (264)
T KOG0794|consen 218 AEL------SVDMEKVKDIVQEILKLY-ELWKIFDEKKVKKLLSKLPK 258 (264)
T ss_pred HHH------hccHHHHHHHHHHHHHHH-HHHhhhhHHHHHHHHHhccc
Confidence 765 378999999999999999 77777788889999999988
No 4
>KOG0834|consensus
Probab=100.00 E-value=2.2e-38 Score=305.00 Aligned_cols=225 Identities=24% Similarity=0.321 Sum_probs=193.7
Q ss_pred ccCcccCCHHHHHHHHHHHhHHHHHHHhhhcCccccccCCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Q psy7372 31 QSYGQCSVEAELIALREAANQNFILEHRAELTDEEASEHFLSASEERVLVRHYQLQLRDFCKRFSPPMPKVVIGTAFHYL 110 (352)
Q Consensus 31 ~r~W~Ft~e~~L~~~R~~~n~~~~~~~~~~~~~~~~~~~~lt~eeE~~l~~~y~~~I~~i~~~l~~~Lp~~V~aTAi~yf 110 (352)
...|.|++| |+.+ | .++..+++++++|...|..++.+|+++|.+|+ +|+.+++||++||
T Consensus 9 ~~~w~~s~e-~~~~-----~-------------tpSr~~g~~~~~E~~~r~~~~~fI~elg~~L~--~~~~ti~tA~~~~ 67 (323)
T KOG0834|consen 9 TSRWYFSKE-QLEE-----N-------------TPSRRDGIDLKKELRLRQEGAKFIQELGVRLK--MPQKTIATAIVIF 67 (323)
T ss_pred ccccccCHH-HHcc-----C-------------ChhhccCCchhHHHHHHHHHHHHHHHHHHHcC--CCccchhhhhhhh
Confidence 568999974 7754 1 24456789999999999999999999999999 9999999999999
Q ss_pred HHHhccCCcCccChHHHHHHHHHhhhccccCCCCHHHHHhhhc---c----c----hhhhHHHHHHHHHHHHHHcCcccc
Q psy7372 111 KRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIK---G----D----QQKASDIILNNELLLMQQLKYHLT 179 (352)
Q Consensus 111 ~RFyl~~S~~~~~p~~I~~tcLfLA~K~EE~~~~i~~~v~~l~---~----d----~~~~~e~Il~~E~~lL~~L~F~L~ 179 (352)
||||+.+|+.+|+++.|+++|||||||+||+++++++++.+.. . + .+..++.|+..|..||++|+|||.
T Consensus 68 hRFy~~~s~~~~~~~~vA~sclfLAgKvEetp~kl~dIi~~s~~~~~~~~~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~ 147 (323)
T KOG0834|consen 68 HRFYMFHSFKKFDPYTVAASCLFLAGKVEETPRKLEDIIKVSYRYLNPKDLELEEVYWELKERIVQLELLLLETLGFDLN 147 (323)
T ss_pred hhhhhhcccccCcHHHHHHHHHHHHhhcccCcccHHHHHHHHHHHcCcccccHHHHHHHHHHHHHHHHHHHHHHccCcee
Confidence 9999999999999999999999999999999999999998752 1 1 235789999999999999999999
Q ss_pred ccCChHHHHHHHHHhhcccCCCCchhHHHHHHHHHHHHhccccccccCHHHHHHHHHHHHHHhcccchhhHH--HHHhcC
Q psy7372 180 VHNPYRPVEGFLIDIKTRSQLRDPDRLRPGIDEFLDKMFLTDACLLFSPSQIALAAVLQSASKLQENLDAYV--TQTLLG 257 (352)
Q Consensus 180 v~~P~r~L~~~l~~l~~~~~l~~~~~l~~~A~~~l~ds~~Td~~L~y~Ps~IAlAal~lA~~~~~~~~~~y~--~~~~~~ 257 (352)
|.|||.+|..|++.++.+.+.. ..+.+.||.++||+++|.+||.|+|++||+|||++|+...|..++.+- .||..+
T Consensus 148 v~hPy~~ll~~~k~l~~~~~~~--~~~a~~Aw~~~nD~~~t~~cL~y~p~~IAva~i~lA~~~~~~~~~~~~~~~w~~~~ 225 (323)
T KOG0834|consen 148 VEHPYKYLLKYLKKLKADENLK--QPLAQAAWNFVNDSLRTTLCLQYSPHSIAVACIHLAAKLLGVELPSDTDKRWWREF 225 (323)
T ss_pred ccCchHHHHHHHHHhhhhhhcc--ccHHHHHHHHhchhheeeeeEeecCcEEEeehhhHHHHHcCCCCCCCcccchhhhh
Confidence 9999999999999988542211 257899999999999999999999999999999999999888665433 345444
Q ss_pred CCccccHHHHHHHHHHHHHHHh
Q psy7372 258 QHANVRLVDLIEAVRKIRTLVS 279 (352)
Q Consensus 258 ~~~~~~l~~l~~~i~~i~~l~~ 279 (352)
+...+.+.+.+++..+.+++.
T Consensus 226 -d~~vt~e~l~~i~~~~l~~y~ 246 (323)
T KOG0834|consen 226 -DETVTNELLDDICHEFLDLYE 246 (323)
T ss_pred -cccCCHHHHHHHHHHHHHHHh
Confidence 234678888999999999883
No 5
>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=100.00 E-value=1.8e-35 Score=278.85 Aligned_cols=170 Identities=36% Similarity=0.640 Sum_probs=152.4
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccCCcCccChHHHHHHHHHhhhccccC--CCCHHHH
Q psy7372 71 LSASEERVLVRHYQLQLRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEF--NLSISQF 148 (352)
Q Consensus 71 lt~eeE~~l~~~y~~~I~~i~~~l~~~Lp~~V~aTAi~yf~RFyl~~S~~~~~p~~I~~tcLfLA~K~EE~--~~~i~~~ 148 (352)
|+.++|..++.||+.+|+.+|.+|+ +|+.|.+||+.||+|||+++|+++++++.|+.||+|||||+||+ .+.++.+
T Consensus 36 l~~~~e~~l~i~~~k~i~~l~~~L~--lp~~~laTAi~~f~Rf~Lk~sv~e~~~~~vv~tcv~LA~K~ed~~~~I~i~~~ 113 (297)
T COG5333 36 LTLEKELNLVIYYLKLIMDLCTRLN--LPQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVEDTPRDISIESF 113 (297)
T ss_pred cchhhhhhHHHHHHHHHHHHHHhcC--CCcchHHHHHHHHHHHHhhcccccccHHHHHHhheeeeeecccccchhhHHHH
Confidence 7889999999999999999999999 99999999999999999999999999999999999999999995 4566666
Q ss_pred Hhh-hccc-hhhhHHHHHHHHHHHHHHcCccccccCChHHHHHHHHHhhcccCCCCchhHHHHHHHHHHHHhcccccccc
Q psy7372 149 VSN-IKGD-QQKASDIILNNELLLMQQLKYHLTVHNPYRPVEGFLIDIKTRSQLRDPDRLRPGIDEFLDKMFLTDACLLF 226 (352)
Q Consensus 149 v~~-l~~d-~~~~~e~Il~~E~~lL~~L~F~L~v~~P~r~L~~~l~~l~~~~~l~~~~~l~~~A~~~l~ds~~Td~~L~y 226 (352)
+.+ +..+ .+.+++.|+++|+.+|++|+|+|.|+|||+++.||+.+++.. +...+.+.||.++||++.||+|+.|
T Consensus 114 ~~~~~~se~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~~q~~----~~~~~~~~aw~~inDa~~t~~~lly 189 (297)
T COG5333 114 EARDLWSEEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEK----DKYKLLQIAWKIINDALRTDLCLLY 189 (297)
T ss_pred HhhccccccccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHHHHhc----cHHHHHHHHHHHHHhhhhceeeeec
Confidence 653 2111 235788999999999999999999999999999999999843 2356789999999999999999999
Q ss_pred CHHHHHHHHHHHHHHhcccc
Q psy7372 227 SPSQIALAAVLQSASKLQEN 246 (352)
Q Consensus 227 ~Ps~IAlAal~lA~~~~~~~ 246 (352)
||++||+||+++|+...|..
T Consensus 190 pphiIA~a~l~ia~~~~~~~ 209 (297)
T COG5333 190 PPHIIALAALLIACEVLGMP 209 (297)
T ss_pred ChHHHHHHHHHHHHHhcCCc
Confidence 99999999999999987654
No 6
>KOG0835|consensus
Probab=100.00 E-value=8.7e-34 Score=267.63 Aligned_cols=231 Identities=18% Similarity=0.223 Sum_probs=197.5
Q ss_pred ccccccCCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccCCcCccChHHHHHHHHHhhhccccCC
Q psy7372 63 DEEASEHFLSASEERVLVRHYQLQLRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFN 142 (352)
Q Consensus 63 ~~~~~~~~lt~eeE~~l~~~y~~~I~~i~~~l~~~Lp~~V~aTAi~yf~RFyl~~S~~~~~p~~I~~tcLfLA~K~EE~~ 142 (352)
..++..++++-|.|..++..+|++|++.|..|+ |||.+++|++++|+|||...|+..||...|++||+.||+|+||.|
T Consensus 6 ~~~s~qd~l~~e~e~el~~LG~e~Iqea~ILL~--L~q~a~atgqVLFqRf~~~ks~v~~~~e~vv~ACv~LASKiEE~P 83 (367)
T KOG0835|consen 6 STPSLQDGLSLETEEELRILGCELIQEAGILLN--LPQVAMATGQVLFQRFCYSKSFVRHDFEIVVMACVLLASKIEEEP 83 (367)
T ss_pred CchhhhcccccchHHHHHHHhHHHHHhhhHhhc--CcHHHHHHHHHHHHHHHhccccccccHHHHHHHHHHHHhhhcccc
Confidence 346677899999999999999999999999999 999999999999999999999999999999999999999999999
Q ss_pred CCHHHHHhhhc------c-----------chhhhHHHHHHHHHHHHHHcCccccccCChHHHHHHHHHhhcccCCCCchh
Q psy7372 143 LSISQFVSNIK------G-----------DQQKASDIILNNELLLMQQLKYHLTVHNPYRPVEGFLIDIKTRSQLRDPDR 205 (352)
Q Consensus 143 ~~i~~~v~~l~------~-----------d~~~~~e~Il~~E~~lL~~L~F~L~v~~P~r~L~~~l~~l~~~~~l~~~~~ 205 (352)
.+++++++++. . +....+..++.+|..||.+|||+.+|.|||+.+.+|++.++. .....
T Consensus 84 rr~rdVinVFh~L~~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~~----~~~~~ 159 (367)
T KOG0835|consen 84 RRIRDVINVFHYLEQRRESEAAEHLILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQL----PPNLK 159 (367)
T ss_pred ccHhHHHHHHHHHHHHHhccCcchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhcC----CCchh
Confidence 99999999863 0 112356679999999999999999999999999999998874 23346
Q ss_pred HHHHHHHHHHHHhccccccccCHHHHHHHHHHHHHHhcccchhhHHHHHhcCCCccccHHHHHHHHHHHHHHHhCcCCCC
Q psy7372 206 LRPGIDEFLDKMFLTDACLLFSPSQIALAAVLQSASKLQENLDAYVTQTLLGQHANVRLVDLIEAVRKIRTLVSKPIESP 285 (352)
Q Consensus 206 l~~~A~~~l~ds~~Td~~L~y~Ps~IAlAal~lA~~~~~~~~~~y~~~~~~~~~~~~~l~~l~~~i~~i~~l~~~~~~~~ 285 (352)
|.+.+|+|+||++.||+|..|+|..||+||+|+|++..++.++.-..|+..++ .+.+++-++...+..+| +. ..|
T Consensus 160 l~Q~~wNfmNDslRT~v~vry~pe~iACaciyLaAR~~eIpLp~~P~Wf~~Fd---~~k~eid~ic~~l~~lY-~~-~~p 234 (367)
T KOG0835|consen 160 LLQAAWNFMNDSLRTDVFVRYSPESIACACIYLAARNLEIPLPFQPHWFKAFD---TTKREIDEICYRLIPLY-KR-AKP 234 (367)
T ss_pred HHHHHHHhhhhccccceeeecCHHHHHHHHHHHHHhhhcCCCCCCccHHHHcC---CcHHHHHHHHHHHHHHH-Hh-ccc
Confidence 88999999999999999999999999999999999999877765444444443 56678888888888888 44 567
Q ss_pred CHHhHHHHHHHHHH-hcCCC
Q psy7372 286 SREMFKQLEKRLEK-CRNQA 304 (352)
Q Consensus 286 ~~~~v~~i~~KL~~-c~~p~ 304 (352)
+...+.....++++ ..+..
T Consensus 235 ~~~li~~~vd~~k~~~~da~ 254 (367)
T KOG0835|consen 235 DETLIEAFVDRLKRKFSDAS 254 (367)
T ss_pred CHHHHHHHHHHhhHHHHhcc
Confidence 88888777666655 44433
No 7
>KOG0656|consensus
Probab=99.79 E-value=2.2e-18 Score=166.69 Aligned_cols=158 Identities=23% Similarity=0.339 Sum_probs=128.7
Q ss_pred HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccCCcCccC---hHHHHHHHHHhhhccccCCC--CHHHHHhhh
Q psy7372 78 VLVRHYQLQLRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYH---PKEILVTCVYLACKVEEFNL--SISQFVSNI 152 (352)
Q Consensus 78 ~l~~~y~~~I~~i~~~l~~~Lp~~V~aTAi~yf~RFyl~~S~~~~~---p~~I~~tcLfLA~K~EE~~~--~i~~~v~~l 152 (352)
..|....+||.++|.+.+ +...|...|++||+||.....+.+.. .+++++|||+||+|+||..+ .++-.+...
T Consensus 76 ~~R~~A~~WIl~V~~~~~--~~~~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~ 153 (335)
T KOG0656|consen 76 SMRKQALDWILKVCEEYN--FEPLVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVACLSLASKMEETDVPLLADLQVEYT 153 (335)
T ss_pred HHHHHHHHHHHHHHHHhC--CchHHHHHHHHHHHHhhcccccCCCchHHHHHHHHHHHHHHHhhcCcCCchhhhhhhccc
Confidence 358889999999999999 99999999999999999999999988 79999999999999999853 344444433
Q ss_pred ccchhhhHHHHHHHHHHHHHHcCccccccCChHHHHHHHHHhhcccCCCCchhHHHHHHHHHHHHhccccccccCHHHHH
Q psy7372 153 KGDQQKASDIILNNELLLMQQLKYHLTVHNPYRPVEGFLIDIKTRSQLRDPDRLRPGIDEFLDKMFLTDACLLFSPSQIA 232 (352)
Q Consensus 153 ~~d~~~~~e~Il~~E~~lL~~L~F~L~v~~P~r~L~~~l~~l~~~~~l~~~~~l~~~A~~~l~ds~~Td~~L~y~Ps~IA 232 (352)
++-...+.|.+||++||.+|+|++...+||.|+..|+..+... ......+...+..++-.....--++.|+||.||
T Consensus 154 --~~~feaktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~ki~~~--~~~~~~~~~~~s~~ll~~~~d~~Fl~y~pSviA 229 (335)
T KOG0656|consen 154 --DNVFEAKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSKISQK--DHNKHLFLKHASLFLLSVITDIKFLEYPPSVIA 229 (335)
T ss_pred --cccccHHHHHHHHHHHHhhccccccCCCchHHHHHHHHHcCcc--cchHHHHHHHHHHHHHHHhhhhhhhcCChHHHH
Confidence 2334568899999999999999999999999999999877521 122345667777777665333348999999999
Q ss_pred HHHHHHHHH
Q psy7372 233 LAAVLQSAS 241 (352)
Q Consensus 233 lAal~lA~~ 241 (352)
.|++..+..
T Consensus 230 aa~~~~v~~ 238 (335)
T KOG0656|consen 230 AAAILSVSA 238 (335)
T ss_pred HHHHHHHHH
Confidence 999876654
No 8
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.74 E-value=8.5e-17 Score=156.13 Aligned_cols=159 Identities=17% Similarity=0.194 Sum_probs=142.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccCCcCccChHHHHHHHHHhhhccccCCCCHHHHHhhhcc
Q psy7372 75 EERVLVRHYQLQLRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKG 154 (352)
Q Consensus 75 eE~~l~~~y~~~I~~i~~~l~~~Lp~~V~aTAi~yf~RFyl~~S~~~~~p~~I~~tcLfLA~K~EE~~~~i~~~v~~l~~ 154 (352)
-|+.|.. +...|.++|..|+ ||+.|+.+|..+|++++..+.+.......+++||||+||+.++.|+++++|+.....
T Consensus 118 ~er~l~~-a~~~I~~~~~~L~--Lp~~v~e~A~~iyk~~~~~~~~rgrs~~~i~AAclYiACR~~~~prtl~eI~~~~~v 194 (310)
T PRK00423 118 AERNLAF-ALSELDRIASQLG--LPRSVREEAAVIYRKAVEKGLIRGRSIEGVVAAALYAACRRCKVPRTLDEIAEVSRV 194 (310)
T ss_pred HhHHHHH-HHHHHHHHHHHcC--CCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHcCCCcCHHHHHHHhCC
Confidence 3566644 5578999999999 999999999999999999999999999999999999999999999999999987753
Q ss_pred chhhhHHHHHHHHHHHHHHcCccccccCChHHHHHHHHHhhcccCCCCchhHHHHHHHHHHHHhccccccccCHHHHHHH
Q psy7372 155 DQQKASDIILNNELLLMQQLKYHLTVHNPYRPVEGFLIDIKTRSQLRDPDRLRPGIDEFLDKMFLTDACLLFSPSQIALA 234 (352)
Q Consensus 155 d~~~~~e~Il~~E~~lL~~L~F~L~v~~P~r~L~~~l~~l~~~~~l~~~~~l~~~A~~~l~ds~~Td~~L~y~Ps~IAlA 234 (352)
...+|...+..|++.|++++.+.+|+.++..|...|. + +..+.+.|+.+++++..+.+.-...|..||+|
T Consensus 195 ----~~k~i~~~~~~l~k~L~~~~~~~~p~~~i~r~~~~L~----L--~~~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAA 264 (310)
T PRK00423 195 ----SRKEIGRCYRFLLRELNLKLPPTDPIDYVPRFASELG----L--SGEVQKKAIEILQKAKEKGLTSGKGPTGLAAA 264 (310)
T ss_pred ----CHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcC----C--CHHHHHHHHHHHHHHHhcCcccCCCHHHHHHH
Confidence 3457999999999999999999999999999998764 2 45788999999999988888999999999999
Q ss_pred HHHHHHHhcccc
Q psy7372 235 AVLQSASKLQEN 246 (352)
Q Consensus 235 al~lA~~~~~~~ 246 (352)
|||+|+...|..
T Consensus 265 aIYlA~~~~g~~ 276 (310)
T PRK00423 265 AIYIASLLLGER 276 (310)
T ss_pred HHHHHHHHhCCC
Confidence 999999987654
No 9
>KOG0653|consensus
Probab=99.65 E-value=2.3e-15 Score=150.40 Aligned_cols=188 Identities=19% Similarity=0.203 Sum_probs=149.2
Q ss_pred HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccCCcCccChHHHHHHHHH-hhhccccCCCC-HHHHHhhhccc
Q psy7372 78 VLVRHYQLQLRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVY-LACKVEEFNLS-ISQFVSNIKGD 155 (352)
Q Consensus 78 ~l~~~y~~~I~~i~~~l~~~Lp~~V~aTAi~yf~RFyl~~S~~~~~p~~I~~tcLf-LA~K~EE~~~~-i~~~v~~l~~d 155 (352)
.+|..-++|+.++..+|+ |.++++..|+.+++||.....+..-+.++++++||| +|||.||...+ +++++-...
T Consensus 156 ~mR~iLvdwlvevh~~F~--L~~ETL~LaVnliDRfL~~~~v~~~~lqLvgvsalf~IA~K~EE~~~P~v~dlv~isd-- 231 (391)
T KOG0653|consen 156 KMRAILVDWLVEVHEKFG--LSPETLYLAVNLIDRFLSKVKVPLKKLQLVGVSALLSIACKYEEISLPSVEDLVLITD-- 231 (391)
T ss_pred HHHHHHHHHHHHhhhhcC--cCHHHHHHHHHHHHHHHHHhcccHHHhhHHhHHHHHHHHHhhhhccCCccceeEeeeC--
Confidence 688899999999999999 999999999999999999988888899999999977 99999997665 777766543
Q ss_pred hhhhHHHHHHHHHHHHHHcCccccccCChHHHHHHHHHhhcccCCCCchhHHHHHHHHHHHHhccccccccCHHHHHHHH
Q psy7372 156 QQKASDIILNNELLLMQQLKYHLTVHNPYRPVEGFLIDIKTRSQLRDPDRLRPGIDEFLDKMFLTDACLLFSPSQIALAA 235 (352)
Q Consensus 156 ~~~~~e~Il~~E~~lL~~L~F~L~v~~P~r~L~~~l~~l~~~~~l~~~~~l~~~A~~~l~ds~~Td~~L~y~Ps~IAlAa 235 (352)
...++++|+.||..||..|+|++.+++|+.||..|...... .......+...+..++...-.+.++|+.+|+|+
T Consensus 232 ~~~s~~~il~mE~~il~~L~f~l~~p~~~~FLrr~~ka~~~------d~~~~~~~k~~~El~l~d~~~~~~~~s~~aaa~ 305 (391)
T KOG0653|consen 232 GAYSREEILRMEKYILNVLEFDLSVPTPLSFLRRFLKAADY------DIKTRTLVKYLLELSLCDYSMLSIPPSSSAAAS 305 (391)
T ss_pred CccchHHHHHHHHHHHhccCeeecCCchHHHHHHHHHhhhc------chhHHHHHHHHHHHHHhhhHHhccCcHHHHHHH
Confidence 33678999999999999999999999999999999876531 123345667777777776678999999999999
Q ss_pred HHHHHHhcccchhhHHHHHhcCCCccccHHHHHHHHHHHHHHH
Q psy7372 236 VLQSASKLQENLDAYVTQTLLGQHANVRLVDLIEAVRKIRTLV 278 (352)
Q Consensus 236 l~lA~~~~~~~~~~y~~~~~~~~~~~~~l~~l~~~i~~i~~l~ 278 (352)
++++....+.+. .|....... .+..-..+.+..+.+..+.
T Consensus 306 ~~~~~~~~~~~~-~w~~~~~~~--sg~~~~~~~~~~~~~~~~~ 345 (391)
T KOG0653|consen 306 FTLALRMLSKGD-VWSPTLEHY--SGYSESYLFECARSLSALS 345 (391)
T ss_pred HHHHHHHhccCC-ccCCCCeec--cCCCcHHHHHHHHHHHHHH
Confidence 999998865543 355433322 1222235666666666644
No 10
>KOG0655|consensus
Probab=99.62 E-value=2.8e-15 Score=142.59 Aligned_cols=166 Identities=20% Similarity=0.236 Sum_probs=128.2
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccC-CcCccChHHHHHHHHHhhhccccC-CCCHHHHH
Q psy7372 72 SASEERVLVRHYQLQLRDFCKRFSPPMPKVVIGTAFHYLKRFYLNN-SVMDYHPKEILVTCVYLACKVEEF-NLSISQFV 149 (352)
Q Consensus 72 t~eeE~~l~~~y~~~I~~i~~~l~~~Lp~~V~aTAi~yf~RFyl~~-S~~~~~p~~I~~tcLfLA~K~EE~-~~~i~~~v 149 (352)
.|+-+..+|....+|++++|+.++ |-.++++.|+-||+||.... .+.+.+.++|+.||||+|+|+||. |.++-+|+
T Consensus 137 Hpdlqp~mRaILlDWlmEVCEvyk--LHRETFyLAvDy~DRyl~t~~~v~kt~lQLIGitsLFIAAK~EEIYpPKl~eFA 214 (408)
T KOG0655|consen 137 HPDLQPQMRAILLDWLMEVCEVYK--LHRETFYLAVDYFDRYLETQVEVSKTNLQLIGITSLFIAAKLEEIYPPKLIEFA 214 (408)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHH--HhhhHHHHHHHHHHHHHHHHHHhhhhhHHHhhHHHHHHHHHHhhccCcccccee
Confidence 445566788899999999999999 99999999999999998644 466789999999999999999996 67899998
Q ss_pred hhhccchhhhHHHHHHHHHHHHHHcCccccccCChHHHHHHHHHhhcc--cCC---CCchhHHHHHHHHHHHHhcccccc
Q psy7372 150 SNIKGDQQKASDIILNNELLLMQQLKYHLTVHNPYRPVEGFLIDIKTR--SQL---RDPDRLRPGIDEFLDKMFLTDACL 224 (352)
Q Consensus 150 ~~l~~d~~~~~e~Il~~E~~lL~~L~F~L~v~~P~r~L~~~l~~l~~~--~~l---~~~~~l~~~A~~~l~ds~~Td~~L 224 (352)
.+..+ ..+-++|+.||.+||+.|+|+|..-+--..|.-|++-.... +.+ +-+....-....+|+-+.+.--++
T Consensus 215 yvTDg--Acs~ddIltmE~iilkal~W~l~PiTii~WL~vylQv~~~n~~~k~l~Pq~~~~efiqiaqlLDlc~ldids~ 292 (408)
T KOG0655|consen 215 YVTDG--ACSEDDILTMELIILKALKWELSPITIISWLNVYLQVDALNDAPKVLLPQYSQEEFIQIAQLLDLCILDIDSL 292 (408)
T ss_pred eeccC--ccchHHHHHHHHHHHHHhcccccceehHHHHHHHHHHHhcCCCCceeccccchHHHHHHHHHHHHHHhccccc
Confidence 87643 45678999999999999999999888888888777644321 111 111111112233444444444489
Q ss_pred ccCHHHHHHHHHHHHHH
Q psy7372 225 LFSPSQIALAAVLQSAS 241 (352)
Q Consensus 225 ~y~Ps~IAlAal~lA~~ 241 (352)
.|+-+.||+||+++-..
T Consensus 293 ~fsYrilaAAal~h~~s 309 (408)
T KOG0655|consen 293 EFSYRILAAAALCHFTS 309 (408)
T ss_pred cchHHHHHHHHHHHHhH
Confidence 99999999999998664
No 11
>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=99.59 E-value=8.2e-15 Score=122.70 Aligned_cols=100 Identities=21% Similarity=0.299 Sum_probs=84.8
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccCCcCccChHHHHHHHHHhhhccccC-CCCHHHHHhhhcc
Q psy7372 76 ERVLVRHYQLQLRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEF-NLSISQFVSNIKG 154 (352)
Q Consensus 76 E~~l~~~y~~~I~~i~~~l~~~Lp~~V~aTAi~yf~RFyl~~S~~~~~p~~I~~tcLfLA~K~EE~-~~~i~~~v~~l~~ 154 (352)
....|....+||.++|..++ +++.+.++|+.||+||+.+.++...+++.+++||+++|||++|. +.++.+++....
T Consensus 27 ~~~~r~~~~~~i~~~~~~~~--l~~~~~~~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K~~e~~~~~~~~~~~~~~- 103 (127)
T PF00134_consen 27 TPEMRQIIIDWIIELCQRLK--LSPETLHLAIYLFDRFLSKRPVNRSKLQLIALACLFLASKMEEDNPPSISDLIRISD- 103 (127)
T ss_dssp HHHHHHHHHHHHHHHHHHTT---BHHHHHHHHHHHHHHHTTS-TTCCGHHHHHHHHHHHHHHHHTSS--HHHHHHHHTT-
T ss_pred CHHHHHHHHHHHHHHHHhcc--cchhHHHHHHHHHHHHHhhcccccchhhhhhhhHHHHhhhhhccccchHHHHHHHHc-
Confidence 34678888899999999999 99999999999999999999999999999999999999999998 778999988763
Q ss_pred chhhhHHHHHHHHHHHHHHcCcccc
Q psy7372 155 DQQKASDIILNNELLLMQQLKYHLT 179 (352)
Q Consensus 155 d~~~~~e~Il~~E~~lL~~L~F~L~ 179 (352)
...+.++|+++|..||+.|+|++.
T Consensus 104 -~~~~~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 104 -NTFTKKDILEMEREILSALNFDLN 127 (127)
T ss_dssp -TSSHHHHHHHHHHHHHHHTTT---
T ss_pred -CCCCHHHHHHHHHHHHHHCCCCcC
Confidence 235688999999999999999974
No 12
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=99.52 E-value=1.4e-13 Score=137.77 Aligned_cols=189 Identities=17% Similarity=0.122 Sum_probs=146.0
Q ss_pred HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccCCcCccChHHHHHHHHHhhhccccCCC-CHHHHHhhhccc
Q psy7372 77 RVLVRHYQLQLRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNL-SISQFVSNIKGD 155 (352)
Q Consensus 77 ~~l~~~y~~~I~~i~~~l~~~Lp~~V~aTAi~yf~RFyl~~S~~~~~p~~I~~tcLfLA~K~EE~~~-~i~~~v~~l~~d 155 (352)
..+|.-..+||.++...|+ +-+++..+|+.+++||...+.+.--..++++++|+|+|||+||.+. .+.+|+-...+
T Consensus 210 ~~mR~~Lv~wlvevH~~F~--llpeTL~lainiiDrfLs~~~v~l~k~QLvg~s~LfIa~K~EE~~~p~i~~l~~~t~g- 286 (440)
T COG5024 210 WSMRSILVDWLVEVHGKFG--LLPETLFLAINIIDRFLSSRVVSLEKYQLVGISALFIASKYEEVNCPSIKDLVYATDG- 286 (440)
T ss_pred HhHHHHHHHHHHHhccccc--ccchHHHHHHHHHHHHhccCcccHHHHHHHHHHHHHHHHhHhHhcCHHHHHHHHHHcc-
Confidence 3677888899999999999 9999999999999999999998888899999999999999999866 47888777643
Q ss_pred hhhhHHHHHHHHHHHHHHcCccccccCChHHHHHHHHHhhcccCCCCchhHHHHHHHHHHHHhccccccccCHHHHHHHH
Q psy7372 156 QQKASDIILNNELLLMQQLKYHLTVHNPYRPVEGFLIDIKTRSQLRDPDRLRPGIDEFLDKMFLTDACLLFSPSQIALAA 235 (352)
Q Consensus 156 ~~~~~e~Il~~E~~lL~~L~F~L~v~~P~r~L~~~l~~l~~~~~l~~~~~l~~~A~~~l~ds~~Td~~L~y~Ps~IAlAa 235 (352)
..+.++|+.+|..+|..|+|++..+.|+-||+.+...-. ..-..+..+..++.-+....-++.++||++|+||
T Consensus 287 -~~t~~~i~~aE~~ml~~l~f~is~P~P~sFLRriSka~d------yd~~srt~~k~~~e~s~~~~~f~~~~~S~~~aaa 359 (440)
T COG5024 287 -AFTRDDIIRAERYMLEVLDFNISWPSPMSFLRRISKASD------YDIFSRTPAKFSSEISPVDYKFIQISPSWCAAAA 359 (440)
T ss_pred -cccHHHHHHHHHHHhhhcccccCCCChHHHHHHHHhhcc------cchhhhhhHhhhCCchHhhhhhccCCchHHHHHH
Confidence 357899999999999999999999999999887764321 1112233455555555555557788899999999
Q ss_pred HHHHHHhcccchhhHHHHHhcCCCccccHHHHHHHHHHHHHHH
Q psy7372 236 VLQSASKLQENLDAYVTQTLLGQHANVRLVDLIEAVRKIRTLV 278 (352)
Q Consensus 236 l~lA~~~~~~~~~~y~~~~~~~~~~~~~l~~l~~~i~~i~~l~ 278 (352)
.|+|....+.+ .|-...... ..+.+-+++......+.+.+
T Consensus 360 ~~~s~~~~~~~--~w~~~l~~y-Sg~y~~~~l~~~~~~~~~~l 399 (440)
T COG5024 360 MYLSRKILSQN--QWDRTLIHY-SGNYTNPDLKPLNESNKENL 399 (440)
T ss_pred HHHHHhhhccC--CCCcccccc-CCCCCchhHHHHHHHHHHHh
Confidence 99999987654 243322221 22244446777777777665
No 13
>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=99.37 E-value=2.6e-12 Score=98.99 Aligned_cols=86 Identities=28% Similarity=0.337 Sum_probs=77.3
Q ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccCCcCccChHHHHHHHHHhhhccccCCCCHHHHHhhhccchhhhH
Q psy7372 81 RHYQLQLRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKGDQQKAS 160 (352)
Q Consensus 81 ~~y~~~I~~i~~~l~~~Lp~~V~aTAi~yf~RFyl~~S~~~~~p~~I~~tcLfLA~K~EE~~~~i~~~v~~l~~d~~~~~ 160 (352)
.....||.++|..++ +|..+..+|+.|++||+..+++..++|+.|++||+|+|||++|.+.++++++...... +.
T Consensus 3 ~~~~~~l~~~~~~~~--~~~~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~~~~~~~~~~~---~~ 77 (88)
T cd00043 3 PTPLDFLRRVAKALG--LSPETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEIPPWLKDLVHVTGYA---TE 77 (88)
T ss_pred chHHHHHHHHHHHcC--CCHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCCCCCHHHHhHHhCCC---CH
Confidence 456789999999999 9999999999999999999999999999999999999999999999999998876531 46
Q ss_pred HHHHHHHHHHH
Q psy7372 161 DIILNNELLLM 171 (352)
Q Consensus 161 e~Il~~E~~lL 171 (352)
++|..+|..++
T Consensus 78 ~~i~~~e~~il 88 (88)
T cd00043 78 EEILRMEKLLL 88 (88)
T ss_pred HHHHHHHHHhC
Confidence 78999998764
No 14
>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=99.27 E-value=1.4e-11 Score=94.05 Aligned_cols=83 Identities=28% Similarity=0.392 Sum_probs=73.7
Q ss_pred HHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccCCcCccChHHHHHHHHHhhhccccCCCCHHHHHhhhccchhhhHHHHH
Q psy7372 85 LQLRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKGDQQKASDIIL 164 (352)
Q Consensus 85 ~~I~~i~~~l~~~Lp~~V~aTAi~yf~RFyl~~S~~~~~p~~I~~tcLfLA~K~EE~~~~i~~~v~~l~~d~~~~~e~Il 164 (352)
+||.+++..++ +|+.+..+|..+++||+..+++..++|..|++||+|+|||.+|.+....++....+. .+.++|.
T Consensus 1 ~~l~~~~~~~~--~~~~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~~~~~~~~~~---~~~~~i~ 75 (83)
T smart00385 1 DFLRRVCKALN--LDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEIPPWTKELVHYTGY---FTEEEIL 75 (83)
T ss_pred CHHHHHHHHcC--CCHHHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcCCCCchhHhHhhCC---CCHHHHH
Confidence 37899999999 999999999999999999888888999999999999999999998888888776643 2567899
Q ss_pred HHHHHHHH
Q psy7372 165 NNELLLMQ 172 (352)
Q Consensus 165 ~~E~~lL~ 172 (352)
++|..|++
T Consensus 76 ~~~~~il~ 83 (83)
T smart00385 76 RMEKLLLE 83 (83)
T ss_pred HHHHHHhC
Confidence 99998873
No 15
>KOG0654|consensus
Probab=99.23 E-value=5e-11 Score=116.75 Aligned_cols=190 Identities=16% Similarity=0.161 Sum_probs=157.6
Q ss_pred HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccCCcCccChHHHHHHHHHhhhccccC-CCCHHHHHhhhccchh
Q psy7372 79 LVRHYQLQLRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEF-NLSISQFVSNIKGDQQ 157 (352)
Q Consensus 79 l~~~y~~~I~~i~~~l~~~Lp~~V~aTAi~yf~RFyl~~S~~~~~p~~I~~tcLfLA~K~EE~-~~~i~~~v~~l~~d~~ 157 (352)
+|..-+.|+.++++..+ +-.++++.+..+.+||.....+.....+++..+|.++|+|.||. +..+++|+..+. ..
T Consensus 136 mrgilvdwlvevsee~r--~~~e~l~ls~~~~drfl~~~~~~~~k~ql~g~s~m~I~sk~ee~~~~~~~ef~~itd--~t 211 (359)
T KOG0654|consen 136 MRGILVDWLVEVSEEYR--LTFETLYLSVNYRDRFLSYKEVNKQKLQLVGISAMLIASKYEEIKEPRVEEFCYITD--NT 211 (359)
T ss_pred hhhhhhhhhhHHHHHHH--hhhhheeecHHHHHHHhccCccHHHHHHHhCcccceeeccchhhcchHHHHHHhhhh--hh
Confidence 45666789999998888 88999999999999999999888888999999999999999987 456899988763 44
Q ss_pred hhHHHHHHHHHHHHHHcCccccccCChHHHHHHHHHhhcccCCCCchhHHHHHHHHHHHHhccccccccCHHHHHHHHHH
Q psy7372 158 KASDIILNNELLLMQQLKYHLTVHNPYRPVEGFLIDIKTRSQLRDPDRLRPGIDEFLDKMFLTDACLLFSPSQIALAAVL 237 (352)
Q Consensus 158 ~~~e~Il~~E~~lL~~L~F~L~v~~P~r~L~~~l~~l~~~~~l~~~~~l~~~A~~~l~ds~~Td~~L~y~Ps~IAlAal~ 237 (352)
....+++.+|..+|..|.|.+.+++...++..|+...++ ..-++...+..+.+-+++...++.|.||.||+||++
T Consensus 212 y~~~qv~~~~~~il~~l~~~~~~pt~~~~l~~~~~~~~~-----~~~~~e~~~~yl~elsll~~~~l~y~PSliAasAv~ 286 (359)
T KOG0654|consen 212 YTYWQVLRMEIDILNALTFELVRPTSKTFLRRFLRVAQT-----PELQVEPLANYLTELSLLDYIFLKYLPSLIAASAVF 286 (359)
T ss_pred hHHHHHHHHHHHHHHHhHHHHhCchHHHHHHHHHHhhcc-----hhHHHHHHHHHHHHhhhhhHHHhccChHHHHHHHHH
Confidence 567889999999999999999999999999999877653 123445567777777777667999999999999999
Q ss_pred HHHHhcccchhhHHHHHhcCCCccccHHHHHHHHHHHHHHHhCcCC
Q psy7372 238 QSASKLQENLDAYVTQTLLGQHANVRLVDLIEAVRKIRTLVSKPIE 283 (352)
Q Consensus 238 lA~~~~~~~~~~y~~~~~~~~~~~~~l~~l~~~i~~i~~l~~~~~~ 283 (352)
+|....+ ...|-+..... .+++.+++..++.++. ++ .+..
T Consensus 287 lA~~~~~--~~pW~~~L~~~--T~y~~edl~~~v~~L~-~~-l~~~ 326 (359)
T KOG0654|consen 287 LARLTLD--FHPWNQTLEDY--TGYKAEDLKPCVLDLH-LY-LNAS 326 (359)
T ss_pred HHHhhcc--CCCCchhhHHh--hcccHHHHHHHHHHHh-cc-cCCC
Confidence 9998765 67787755433 5688999999999998 65 4443
No 16
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=99.19 E-value=1e-09 Score=105.16 Aligned_cols=153 Identities=18% Similarity=0.242 Sum_probs=137.4
Q ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccCCcCccChHHHHHHHHHhhhccccCCCCHHHHHhhhccchhhhHH
Q psy7372 82 HYQLQLRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKGDQQKASD 161 (352)
Q Consensus 82 ~y~~~I~~i~~~l~~~Lp~~V~aTAi~yf~RFyl~~S~~~~~p~~I~~tcLfLA~K~EE~~~~i~~~v~~l~~d~~~~~e 161 (352)
+....|-.+|..++ +|..|.-+|+.+|++-+..+.+..-...-++++|+|.||+....|+++.+|+..++.+ +.
T Consensus 99 ~a~~~l~~~~~~l~--LP~~v~e~A~~iyr~a~~~~l~rGRsie~v~AA~iY~acR~~~~prtl~eIa~a~~V~----~k 172 (285)
T COG1405 99 TALEELERIASALG--LPESVRETAARIYRKAVDKGLLRGRSIESVAAACIYAACRINGVPRTLDEIAKALGVS----KK 172 (285)
T ss_pred HHHHHHHHHHHHhC--CCchHHHHHHHHHHHHhhcCCCcCCcHHHHHHHHHHHHHHHcCCCccHHHHHHHHCCC----HH
Confidence 45568999999999 9999999999999999999999999999999999999999999999999999887643 46
Q ss_pred HHHHHHHHHHHHcCccccccCChHHHHHHHHHhhcccCCCCchhHHHHHHHHHHHHhccccccccCHHHHHHHHHHHHHH
Q psy7372 162 IILNNELLLMQQLKYHLTVHNPYRPVEGFLIDIKTRSQLRDPDRLRPGIDEFLDKMFLTDACLLFSPSQIALAAVLQSAS 241 (352)
Q Consensus 162 ~Il~~E~~lL~~L~F~L~v~~P~r~L~~~l~~l~~~~~l~~~~~l~~~A~~~l~ds~~Td~~L~y~Ps~IAlAal~lA~~ 241 (352)
+|......+...|+=.+....|..|+..|..+|. + ++.+...|..++..+..--....-.|..||+||+|+|+.
T Consensus 173 ei~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~L~----l--~~~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as~ 246 (285)
T COG1405 173 EIGRTYRLLVRELKLKIPPVDPSDYIPRFASKLG----L--SDEVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASL 246 (285)
T ss_pred HHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcC----C--CHHHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHHH
Confidence 7999999999999999999999999999998875 3 367788999999998776677799999999999999999
Q ss_pred hcccc
Q psy7372 242 KLQEN 246 (352)
Q Consensus 242 ~~~~~ 246 (352)
..|..
T Consensus 247 l~~~~ 251 (285)
T COG1405 247 LLGER 251 (285)
T ss_pred HhCCc
Confidence 88754
No 17
>KOG1597|consensus
Probab=98.79 E-value=1.4e-07 Score=89.41 Aligned_cols=150 Identities=17% Similarity=0.211 Sum_probs=122.0
Q ss_pred HHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccCCcCccChHHHHHHHHHhhhccccCCCCHHHHHhhhccchhhhHHH
Q psy7372 83 YQLQLRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKGDQQKASDI 162 (352)
Q Consensus 83 y~~~I~~i~~~l~~~Lp~~V~aTAi~yf~RFyl~~S~~~~~p~~I~~tcLfLA~K~EE~~~~i~~~v~~l~~d~~~~~e~ 162 (352)
.-..|..+|++++ ||..+..+|-..|+++........-...-+++||||+||.-++.|+++.+|+.... ..+.+
T Consensus 107 a~~~I~~m~d~~~--Lp~~I~d~A~~ifk~v~~~k~lrGks~eai~AAclyiACRq~~~pRT~kEI~~~an----v~kKE 180 (308)
T KOG1597|consen 107 AFKEITAMCDRLS--LPATIKDRANEIFKLVEDSKLLRGKSVEALAAACLYIACRQEDVPRTFKEISAVAN----VSKKE 180 (308)
T ss_pred HHHHHHHHHHHhC--CchHHHHHHHHHHHHHHHhhhhcCccHHHHHHHHHHHHHHhcCCCchHHHHHHHHc----CCHHH
Confidence 3357999999999 99999999999999999888888888999999999999999999999999987764 23456
Q ss_pred HHHHHHHHHHHcCcccccc--CChHHHHHHHHHhhcccCCCCchhHHHHHHHHHHHHhccccccccCHHHHHHHHHHHHH
Q psy7372 163 ILNNELLLMQQLKYHLTVH--NPYRPVEGFLIDIKTRSQLRDPDRLRPGIDEFLDKMFLTDACLLFSPSQIALAAVLQSA 240 (352)
Q Consensus 163 Il~~E~~lL~~L~F~L~v~--~P~r~L~~~l~~l~~~~~l~~~~~l~~~A~~~l~ds~~Td~~L~y~Ps~IAlAal~lA~ 240 (352)
|-++=..|+++|+=+.... +--.++..|+..|. + +.++...|..+...+-.-|.+-.-+|-.||+|+||+++
T Consensus 181 Igr~~K~i~~~l~~s~~~~s~~t~~~m~RFCs~L~----L--~~~~q~aA~e~a~ka~~~~~~~gRsPiSIAAa~IYmis 254 (308)
T KOG1597|consen 181 IGRCVKLIGEALETSVDLISISTGDFMPRFCSNLG----L--PKSAQEAATEIAEKAEEMDIRAGRSPISIAAAAIYMIS 254 (308)
T ss_pred HHHHHHHHHHHHhccchhhhhhHHHHHHHHHHhcC----C--CHHHHHHHHHHHHHHHHhccccCCCchhHHHHHHHHHH
Confidence 8777788888877665443 35677888876654 3 45666777777777766677777999999999999999
Q ss_pred Hhcc
Q psy7372 241 SKLQ 244 (352)
Q Consensus 241 ~~~~ 244 (352)
...+
T Consensus 255 qls~ 258 (308)
T KOG1597|consen 255 QLSD 258 (308)
T ss_pred Hhcc
Confidence 7643
No 18
>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=98.39 E-value=1.2e-06 Score=66.69 Aligned_cols=65 Identities=18% Similarity=0.425 Sum_probs=57.5
Q ss_pred HHHHHHHhCCCCCHHHHHHHHHHHHHHhccCCcCccChHHHHHHHHHhhhccccCCCCHHHHHhhhc
Q psy7372 87 LRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIK 153 (352)
Q Consensus 87 I~~i~~~l~~~Lp~~V~aTAi~yf~RFyl~~S~~~~~p~~I~~tcLfLA~K~EE~~~~i~~~v~~l~ 153 (352)
|.++|..|+ ||..|..+|..++++-...+-...-.|..++++|+|+||+.++.++++++|...+.
T Consensus 1 I~r~~~~L~--L~~~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~~~~t~~eIa~~~~ 65 (71)
T PF00382_consen 1 IPRICSKLG--LPEDVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNGVPRTLKEIAEAAG 65 (71)
T ss_dssp HHHHHHHTT----HHHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTTSSSSHHHHHHHCT
T ss_pred ChHHHhHcC--CCHHHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcCCCcCHHHHHHHhC
Confidence 578999999 99999999999999999888888889999999999999999999999999987764
No 19
>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=98.31 E-value=9.8e-07 Score=72.30 Aligned_cols=89 Identities=25% Similarity=0.273 Sum_probs=62.6
Q ss_pred cCChHHHHHHHHHhhcccCCCCchhHHHHHHHHHHHHhccccccccCHHHHHHHHHHHHHHhcccchhhHHHHHhcCCCc
Q psy7372 181 HNPYRPVEGFLIDIKTRSQLRDPDRLRPGIDEFLDKMFLTDACLLFSPSQIALAAVLQSASKLQENLDAYVTQTLLGQHA 260 (352)
Q Consensus 181 ~~P~r~L~~~l~~l~~~~~l~~~~~l~~~A~~~l~ds~~Td~~L~y~Ps~IAlAal~lA~~~~~~~~~~y~~~~~~~~~~ 260 (352)
++|+.||..|+. +. +....+...|+.+++.++++.-++.|+||.||+||+++|....+. -+.|....... .
T Consensus 1 PTp~~Fl~~~~~-~~-----~~~~~~~~~a~~l~el~l~~~~fl~~~PS~iAaAai~lA~~~~~~-~~~~~~~l~~~--t 71 (118)
T PF02984_consen 1 PTPYDFLRRFLK-IS-----NADQEVRNLARYLLELSLLDYEFLQYPPSVIAAAAILLARKILGK-EPPWPESLEKL--T 71 (118)
T ss_dssp --HHHHHHHHHT-SS-----SHHHHHHHHHHHHHHHHHHSHHHTTS-HHHHHHHHHHHHHHHHHS-STCSHHHHHHH--H
T ss_pred CcHHHHHHHHHH-Hc-----CCcHHHHHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhCc-cccCCccchhh--c
Confidence 478999998842 21 113567889999999999999999999999999999999998653 12333322111 2
Q ss_pred cccHHHHHHHHHHHHHHH
Q psy7372 261 NVRLVDLIEAVRKIRTLV 278 (352)
Q Consensus 261 ~~~l~~l~~~i~~i~~l~ 278 (352)
+.+.+++.++++.|..++
T Consensus 72 ~~~~~~l~~c~~~i~~~~ 89 (118)
T PF02984_consen 72 GYDKEDLKECIELIQELL 89 (118)
T ss_dssp TS-HHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHH
Confidence 357788888888888887
No 20
>KOG4164|consensus
Probab=98.04 E-value=7.6e-06 Score=80.35 Aligned_cols=123 Identities=16% Similarity=0.320 Sum_probs=94.1
Q ss_pred HHHHHHhHHHHHHHhhhcCccccccCCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccCCcCccC
Q psy7372 44 ALREAANQNFILEHRAELTDEEASEHFLSASEERVLVRHYQLQLRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYH 123 (352)
Q Consensus 44 ~~R~~~n~~~~~~~~~~~~~~~~~~~~lt~eeE~~l~~~y~~~I~~i~~~l~~~Lp~~V~aTAi~yf~RFyl~~S~~~~~ 123 (352)
++....|+.|+++...- -||...-+.| -..+.+++..-+ +-..++|+|-+||-+.-+++-+.+-+
T Consensus 359 dlKkdmNe~FreKfP~I---------kLTLSKirSl----KREMr~l~~d~~--id~~TVa~AyVYFEKliLkglisK~N 423 (497)
T KOG4164|consen 359 DLKKDMNETFREKFPHI---------KLTLSKIRSL----KREMRELGEDCG--IDVVTVAMAYVYFEKLILKGLISKQN 423 (497)
T ss_pred HHHHHHhHHHHHhCCee---------EEeHHHHHHH----HHHHHHhhhccC--ccceeehhHHHHHHHHHHhhhhhhhh
Confidence 45678999999886411 2555443333 346777887777 88889999999999999999999999
Q ss_pred hHHHHHHHHHhhhccccCCC-CHHHHHhhhccchhhhHHHHHHHHHHHHHHcCcccccc
Q psy7372 124 PKEILVTCVYLACKVEEFNL-SISQFVSNIKGDQQKASDIILNNELLLMQQLKYHLTVH 181 (352)
Q Consensus 124 p~~I~~tcLfLA~K~EE~~~-~i~~~v~~l~~d~~~~~e~Il~~E~~lL~~L~F~L~v~ 181 (352)
.++.+-|||.||+|+.+... .+..++..+..-....+.+++..|+-||-.|.|.|.+.
T Consensus 424 RKlcAGAclLlaaKmnD~Kks~vKslIek~Ee~fR~nrrdLia~Ef~VlvaLefaL~~~ 482 (497)
T KOG4164|consen 424 RKLCAGACLLLAAKMNDLKKSTVKSLIEKLEEQFRLNRRDLIAFEFPVLVALEFALHLP 482 (497)
T ss_pred hhHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhcccHHhhhhhhhhHHHhhhhhccCC
Confidence 99999999999999997654 36666665421111346789999999999999999753
No 21
>KOG1598|consensus
Probab=97.96 E-value=0.0003 Score=71.96 Aligned_cols=156 Identities=16% Similarity=0.160 Sum_probs=120.0
Q ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccCCcCccChHHHHHHHHHhhhccccCCCCHHHHHhhhccchhhhH
Q psy7372 81 RHYQLQLRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKGDQQKAS 160 (352)
Q Consensus 81 ~~y~~~I~~i~~~l~~~Lp~~V~aTAi~yf~RFyl~~S~~~~~p~~I~~tcLfLA~K~EE~~~~i~~~v~~l~~d~~~~~ 160 (352)
.-....|-+++..|+ ++. ++-+|..||+--..+|-...-.-..|..+|+|++|-.|..+.-+=+|...+..+.
T Consensus 68 ~n~r~~i~~~~~~l~--l~~-~~~~a~~~~k~a~~~nftkGr~~~~vvasClY~vcR~e~t~hlliDfS~~Lqv~V---- 140 (521)
T KOG1598|consen 68 YNARRLIEELTERLN--LGN-KTEVAFNFFKLAPDRNFTKGRRSTEVVAACLYLVCRLEKTDHLLIDFSSYLQVSV---- 140 (521)
T ss_pred HHHHhHHHHHHHhcC--cch-HHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHhhCCceEEEEeccceEEeh----
Confidence 334568999999999 999 9999999999998888888888889999999999999988876666766654221
Q ss_pred HHHHHHHHHHHHHcCcc---ccccCChHHHHHHHHHhhcccCCCCchhHHHHHHHHHHHHhccccccccCHHHHHHHHHH
Q psy7372 161 DIILNNELLLMQQLKYH---LTVHNPYRPVEGFLIDIKTRSQLRDPDRLRPGIDEFLDKMFLTDACLLFSPSQIALAAVL 237 (352)
Q Consensus 161 e~Il~~E~~lL~~L~F~---L~v~~P~r~L~~~l~~l~~~~~l~~~~~l~~~A~~~l~ds~~Td~~L~y~Ps~IAlAal~ 237 (352)
-++-.+=+.|...|.-+ +....|.-++..|..-|.. .+..+.+...|..+++.+...=..-.-.|+.|+-|||+
T Consensus 141 y~LG~~~l~l~~~L~i~en~~plvDpsL~i~Rfa~~L~~---g~~~~~Vv~~a~~L~~rMkrdwm~tGRRPsglcGAaLl 217 (521)
T KOG1598|consen 141 YDLGSNFLEVTDSLSIGENVSPLVDPSLYIVRFSCRLLF---GDKTEDVAKTATRLAQRMKRDWMQTGRRPSGLCGAALL 217 (521)
T ss_pred hhhhHHHHHHHHHhccccccccccCcceeeechhHhhhc---CCchHHHHHHHHHHHHHHHHHHHHhCCCccchhHHHHH
Confidence 23455666777788777 6667888888888765532 12235677788887776544445568899999999999
Q ss_pred HHHHhcccc
Q psy7372 238 QSASKLQEN 246 (352)
Q Consensus 238 lA~~~~~~~ 246 (352)
+|++++|..
T Consensus 218 iAar~h~~~ 226 (521)
T KOG1598|consen 218 IAARMHGFR 226 (521)
T ss_pred HHHHHcCcc
Confidence 999998763
No 22
>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=97.66 E-value=0.0004 Score=60.54 Aligned_cols=88 Identities=17% Similarity=0.146 Sum_probs=62.6
Q ss_pred HHHHHHHHHhCCCCCHHHHHHHHHHHHHHhc---cC--CcCccChHHHHHHHHHhhhcc-ccCCCCHHHHHhhhccchhh
Q psy7372 85 LQLRDFCKRFSPPMPKVVIGTAFHYLKRFYL---NN--SVMDYHPKEILVTCVYLACKV-EEFNLSISQFVSNIKGDQQK 158 (352)
Q Consensus 85 ~~I~~i~~~l~~~Lp~~V~aTAi~yf~RFyl---~~--S~~~~~p~~I~~tcLfLA~K~-EE~~~~i~~~v~~l~~d~~~ 158 (352)
+++.++.+..+ ++..+.-.|.+|++|+.. .. .+....++-+.++|+.+|.|. ++...+-+.+.+..+ .
T Consensus 56 ~fl~ri~~~~~--~s~~~~i~aliYl~Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v~g----i 129 (149)
T PF08613_consen 56 DFLSRILKYTQ--CSPECLILALIYLDRLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDNTYSNKSWAKVGG----I 129 (149)
T ss_dssp HHHHHHHHHTT----HHHHHHHHHHHHHHHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS---HHHHHHHHT----S
T ss_pred HHHHHHHHHcC--CChHHHHHHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHhhcccccccHHHHHhhcC----C
Confidence 35666667777 999999999999999998 22 245678899999999999996 566666666665532 2
Q ss_pred hHHHHHHHHHHHHHHcCccc
Q psy7372 159 ASDIILNNELLLMQQLKYHL 178 (352)
Q Consensus 159 ~~e~Il~~E~~lL~~L~F~L 178 (352)
..+++-.+|...|..|+|+|
T Consensus 130 s~~eln~lE~~fL~~l~~~L 149 (149)
T PF08613_consen 130 SLKELNELEREFLKLLDYNL 149 (149)
T ss_dssp -HHHHHHHHHHHHHHTTT--
T ss_pred CHHHHHHHHHHHHHHCCCcC
Confidence 45689999999999999986
No 23
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=97.55 E-value=0.00051 Score=67.01 Aligned_cols=89 Identities=11% Similarity=0.082 Sum_probs=73.4
Q ss_pred HHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccCCcCccChHHHHHHHHHhhhccccCCCCHHHHHhhhccchhhhHHHH
Q psy7372 84 QLQLRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKGDQQKASDII 163 (352)
Q Consensus 84 ~~~I~~i~~~l~~~Lp~~V~aTAi~yf~RFyl~~S~~~~~p~~I~~tcLfLA~K~EE~~~~i~~~v~~l~~d~~~~~e~I 163 (352)
..+|.++|..|+ ||..|.-+|..++++..-..-....+|.-|++||||+||+..+.+++++++..+... ....|
T Consensus 220 ~~~i~r~~~~L~--L~~~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAAaIYlA~~~~g~~~t~keIa~v~~V----s~~tI 293 (310)
T PRK00423 220 IDYVPRFASELG--LSGEVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIASLLLGERRTQREVAEVAGV----TEVTV 293 (310)
T ss_pred HHHHHHHHHHcC--CCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCC----CHHHH
Confidence 468899999999 999999999999998877666678999999999999999999999999999887642 23456
Q ss_pred HHHHHHHHHHcCccc
Q psy7372 164 LNNELLLMQQLKYHL 178 (352)
Q Consensus 164 l~~E~~lL~~L~F~L 178 (352)
...-..|.+.|+..+
T Consensus 294 ~~~ykel~~~l~~~~ 308 (310)
T PRK00423 294 RNRYKELAEKLDIKI 308 (310)
T ss_pred HHHHHHHHHHhCccc
Confidence 666666677666543
No 24
>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=97.31 E-value=0.0014 Score=49.79 Aligned_cols=66 Identities=18% Similarity=0.136 Sum_probs=51.6
Q ss_pred cCChHHHHHHHHHhhcccCCCCchhHHHHHHHHHHHHhccccccccCHHHHHHHHHHHHHHhcccchhhHHHHH
Q psy7372 181 HNPYRPVEGFLIDIKTRSQLRDPDRLRPGIDEFLDKMFLTDACLLFSPSQIALAAVLQSASKLQENLDAYVTQT 254 (352)
Q Consensus 181 ~~P~r~L~~~l~~l~~~~~l~~~~~l~~~A~~~l~ds~~Td~~L~y~Ps~IAlAal~lA~~~~~~~~~~y~~~~ 254 (352)
.+|+.++..+...++ -+..+...|+.+++.++....+..+.|+.||+||+++|++..+. +.|..++
T Consensus 3 ~~~~~~l~~~~~~~~------~~~~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~--~~~~~~~ 68 (88)
T cd00043 3 PTPLDFLRRVAKALG------LSPETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEI--PPWLKDL 68 (88)
T ss_pred chHHHHHHHHHHHcC------CCHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCC--CCCHHHH
Confidence 567777877776653 24567789999999998878888999999999999999997655 4455443
No 25
>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=97.16 E-value=0.0022 Score=48.12 Aligned_cols=50 Identities=22% Similarity=0.200 Sum_probs=40.4
Q ss_pred chhHHHHHHHHHHHHhccccccccCHHHHHHHHHHHHHHhcccchhhHHHHH
Q psy7372 203 PDRLRPGIDEFLDKMFLTDACLLFSPSQIALAAVLQSASKLQENLDAYVTQT 254 (352)
Q Consensus 203 ~~~l~~~A~~~l~ds~~Td~~L~y~Ps~IAlAal~lA~~~~~~~~~~y~~~~ 254 (352)
+..+...|+.+++.++...-++.++|+.||+||+++|++..+.. .|..+.
T Consensus 13 ~~~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~~--~~~~~~ 62 (83)
T smart00385 13 DPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEIP--PWTKEL 62 (83)
T ss_pred CHHHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcCC--CCchhH
Confidence 45678899999999887667788999999999999999987653 354433
No 26
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=95.61 E-value=0.056 Score=52.25 Aligned_cols=85 Identities=14% Similarity=0.098 Sum_probs=69.4
Q ss_pred HHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccCCcCccChHHHHHHHHHhhhccccCCCCHHHHHhhhccchhhhHHHHH
Q psy7372 85 LQLRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKGDQQKASDIIL 164 (352)
Q Consensus 85 ~~I~~i~~~l~~~Lp~~V~aTAi~yf~RFyl~~S~~~~~p~~I~~tcLfLA~K~EE~~~~i~~~v~~l~~d~~~~~e~Il 164 (352)
++|.++|..|+ ||..|...|+-+.+..-..+....-+|--++++|+|+||.....+++-+++..+.... ...|.
T Consensus 196 ~yi~rf~s~L~--l~~~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as~l~~~~~tq~eva~v~~vt----evTIr 269 (285)
T COG1405 196 DYIPRFASKLG--LSDEVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASLLLGERRTQKEVAKVAGVT----EVTIR 269 (285)
T ss_pred HHHHHHHHHcC--CCHHHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHHHHhCCchHHHHHHHHhCCe----eeHHH
Confidence 47889999999 9999999999999999999998899999999999999999999999888887776421 12344
Q ss_pred HHHHHHHHHcC
Q psy7372 165 NNELLLMQQLK 175 (352)
Q Consensus 165 ~~E~~lL~~L~ 175 (352)
+--..|.+.++
T Consensus 270 nrykel~~~~~ 280 (285)
T COG1405 270 NRYKELADALD 280 (285)
T ss_pred HHHHHHHHhhc
Confidence 44445554444
No 27
>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=93.35 E-value=0.25 Score=37.26 Aligned_cols=44 Identities=20% Similarity=0.129 Sum_probs=36.5
Q ss_pred chhHHHHHHHHHHHHhccccccccCHHHHHHHHHHHHHHhcccc
Q psy7372 203 PDRLRPGIDEFLDKMFLTDACLLFSPSQIALAAVLQSASKLQEN 246 (352)
Q Consensus 203 ~~~l~~~A~~~l~ds~~Td~~L~y~Ps~IAlAal~lA~~~~~~~ 246 (352)
++.+.+.|..+........+.-.-.|..||+||+|+|++..|..
T Consensus 11 ~~~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~~~ 54 (71)
T PF00382_consen 11 PEDVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNGVP 54 (71)
T ss_dssp -HHHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTTSS
T ss_pred CHHHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcCCC
Confidence 45788999999988877777778899999999999999987654
No 28
>PF01857 RB_B: Retinoblastoma-associated protein B domain; InterPro: IPR002719 Retinoblastoma-like and retinoblastoma-associated proteins may have a function in cell cycle regulation. They form a complex with adenovirus E1A and SV40 large T antigen, and may bind and modulate the function of certain cellular proteins with which T and E1A compete for pocket binding. The proteins may act as tumor suppressors, and are potent inhibitors of E2F-mediated trans-activation. This domain has the cyclin fold []. The crystal structure of the Rb pocket bound to a nine-residue E7 peptide containing the LxCxE motif, shared by other Rb-binding viral and cellular proteins, shows that the LxCxE peptide binds a highly conserved groove on the B-box portion of the pocket; the A-box portion (see IPR002720 from INTERPRO) appears to be required for the stable folding of the B box. Also highly conserved is the extensive A-B interface, suggesting that it may be an additional protein-binding site. The A and B boxes each contain the cyclin-fold structural motif, with the LxCxE-binding site on the B-box cyclin fold being similar to a Cdk2-binding site of cyclin A and to a TBP-binding site of TFIIB []. The A and B boxes are found at the C-terminal end of the protein; the B-box is on C-terminal side of the A-box.; GO: 0051726 regulation of cell cycle, 0005634 nucleus; PDB: 1GUX_B 3POM_A 1GH6_B 1N4M_A 1O9K_H 4ELL_B 2R7G_C 4ELJ_A.
Probab=92.56 E-value=0.64 Score=40.04 Aligned_cols=71 Identities=18% Similarity=0.435 Sum_probs=51.5
Q ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccCC--cCccChHHHHHHHHHhhhccccCCCCHHHHHhhhc
Q psy7372 81 RHYQLQLRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNS--VMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIK 153 (352)
Q Consensus 81 ~~y~~~I~~i~~~l~~~Lp~~V~aTAi~yf~RFyl~~S--~~~~~p~~I~~tcLfLA~K~EE~~~~i~~~v~~l~ 153 (352)
......|.++|.+|+ +++.+..-..+.|..-...+. +.+-|.-.++++|+|.-||+....++-.+++..-+
T Consensus 12 ~la~~Rl~~LC~~L~--l~~~~~~~iwt~fe~~l~~~t~L~~dRHLDQiilCaiY~i~Kv~~~~~sF~~Ii~~Yr 84 (135)
T PF01857_consen 12 KLAAVRLQDLCERLD--LSSDLREKIWTCFEHSLTHHTELMKDRHLDQIILCAIYGICKVSKEELSFKDIIKAYR 84 (135)
T ss_dssp HHHHHHHHHHHHHHT--TSTTHHHHHHHHHHHHHHHSGGGGTTS-HHHHHHHHHHHHHHHTT-S--HHHHHHHHT
T ss_pred HHHHHHHHHHHHHcC--CcHHHHHHHHHHHHHHHHhhHHHHhcchHHHHHHHHHHHHHHhhcCCCCHHHHHHHHH
Confidence 344578899999999 998887666666666554332 45668889999999999999988888888887543
No 29
>KOG1597|consensus
Probab=92.16 E-value=0.47 Score=45.78 Aligned_cols=68 Identities=12% Similarity=0.162 Sum_probs=57.7
Q ss_pred HHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccCCcCccChHHHHHHHHHhhhccccCCCCHHHHHhhh
Q psy7372 83 YQLQLRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNI 152 (352)
Q Consensus 83 y~~~I~~i~~~l~~~Lp~~V~aTAi~yf~RFyl~~S~~~~~p~~I~~tcLfLA~K~EE~~~~i~~~v~~l 152 (352)
-.++|.+||..|+ ||.++...|...-++.-...-+..-.|..|+++++|++|-..+.+.+..++..+.
T Consensus 203 t~~~m~RFCs~L~--L~~~~q~aA~e~a~ka~~~~~~~gRsPiSIAAa~IYmisqls~~kkt~keI~~vt 270 (308)
T KOG1597|consen 203 TGDFMPRFCSNLG--LPKSAQEAATEIAEKAEEMDIRAGRSPISIAAAAIYMISQLSDEKKTQKEIGEVT 270 (308)
T ss_pred HHHHHHHHHHhcC--CCHHHHHHHHHHHHHHHHhccccCCCchhHHHHHHHHHHHhccCcccHHHHHHHh
Confidence 4578999999999 9999998888888776655555557899999999999999999999988887654
No 30
>KOG0835|consensus
Probab=87.54 E-value=0.92 Score=44.44 Aligned_cols=58 Identities=19% Similarity=0.469 Sum_probs=43.2
Q ss_pred HHHHHHHHHhCCCCCHHH--HHHHHHHHHHHhccCCcCccChHHHHHHHHHhhhccccCCCC
Q psy7372 85 LQLRDFCKRFSPPMPKVV--IGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLS 144 (352)
Q Consensus 85 ~~I~~i~~~l~~~Lp~~V--~aTAi~yf~RFyl~~S~~~~~p~~I~~tcLfLA~K~EE~~~~ 144 (352)
..|+-...-|+ +|+.- .-+|-+|+.--.-..-++-|.|..||.+|+|||+..+|.|.+
T Consensus 143 klii~YLqtL~--~~~~~~l~Q~~wNfmNDslRT~v~vry~pe~iACaciyLaAR~~eIpLp 202 (367)
T KOG0835|consen 143 KLIIMYLQTLQ--LPPNLKLLQAAWNFMNDSLRTDVFVRYSPESIACACIYLAARNLEIPLP 202 (367)
T ss_pred HHHHHHHHHhc--CCCchhHHHHHHHhhhhccccceeeecCHHHHHHHHHHHHHhhhcCCCC
Confidence 34555556677 66655 566767766555566678899999999999999999996654
No 31
>KOG1674|consensus
Probab=86.68 E-value=2.6 Score=39.19 Aligned_cols=81 Identities=20% Similarity=0.274 Sum_probs=56.4
Q ss_pred CCHHHHHHHHHHHHHHhccCC---------cCccC-hHHHHHHHHHhhhccccCCCCHHHHHhhhccchhhhHHHHHHHH
Q psy7372 98 MPKVVIGTAFHYLKRFYLNNS---------VMDYH-PKEILVTCVYLACKVEEFNLSISQFVSNIKGDQQKASDIILNNE 167 (352)
Q Consensus 98 Lp~~V~aTAi~yf~RFyl~~S---------~~~~~-p~~I~~tcLfLA~K~EE~~~~i~~~v~~l~~d~~~~~e~Il~~E 167 (352)
..+.+.-+|.+||+||--..+ +..++ ..-.++||+-+|||..+..---......+.+ -..+++-.+|
T Consensus 91 ~s~~~lv~al~Yldr~~~~~~~~~~~~~~~i~s~n~vhR~lit~v~vs~kf~~d~~y~n~~~a~vgg---l~~~eln~lE 167 (218)
T KOG1674|consen 91 CSPECLVLALVYLDRFVKQPQARSVKPQSLINSLNKVHRLLITTVTVSTKFLDDVYYSNAYYAKVGG---LTTDELNKLE 167 (218)
T ss_pred CCchhhhhhhhhhhhhhhhhcccccCcccccccchhHHHHHHHHHHHHHhhccchhhhHHHHHHhCC---CChHhhhhhh
Confidence 789999999999999988521 12334 4448999999999987543222222222211 1345677999
Q ss_pred HHHHHHcCcccccc
Q psy7372 168 LLLMQQLKYHLTVH 181 (352)
Q Consensus 168 ~~lL~~L~F~L~v~ 181 (352)
+.++..++|.+.|.
T Consensus 168 ~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 168 LDLLFLLDFRLIIS 181 (218)
T ss_pred HHHHhhCCeEEEec
Confidence 99999999999985
No 32
>KOG0834|consensus
Probab=84.19 E-value=0.51 Score=46.43 Aligned_cols=61 Identities=20% Similarity=0.406 Sum_probs=46.0
Q ss_pred HHHHHHHHhCCC--CCHHHHHHHHHHHHHHhccCCcCccChHHHHHHHHHhhhccccCCCCHH
Q psy7372 86 QLRDFCKRFSPP--MPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSIS 146 (352)
Q Consensus 86 ~I~~i~~~l~~~--Lp~~V~aTAi~yf~RFyl~~S~~~~~p~~I~~tcLfLA~K~EE~~~~i~ 146 (352)
.+.++++.++.- .-+.+.-+|.+|....+...-...|.|..|+++||+||+|+-+..+++.
T Consensus 154 ~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~y~p~~IAva~i~lA~~~~~~~~~~~ 216 (323)
T KOG0834|consen 154 YLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQYSPHSIAVACIHLAAKLLGVELPSD 216 (323)
T ss_pred HHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEeecCcEEEeehhhHHHHHcCCCCCCC
Confidence 455555665511 1124778999999999988778899999999999999999887765543
No 33
>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=81.78 E-value=4.3 Score=32.55 Aligned_cols=42 Identities=24% Similarity=0.252 Sum_probs=32.9
Q ss_pred CHHHHHHHHHHHHHHhccCCcCccChHHHHHHHHHhhhcccc
Q psy7372 99 PKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEE 140 (352)
Q Consensus 99 p~~V~aTAi~yf~RFyl~~S~~~~~p~~I~~tcLfLA~K~EE 140 (352)
.+.+...|..++.-......+.+|.|-.|++||+++|.+.-+
T Consensus 17 ~~~~~~~a~~l~el~l~~~~fl~~~PS~iAaAai~lA~~~~~ 58 (118)
T PF02984_consen 17 DQEVRNLARYLLELSLLDYEFLQYPPSVIAAAAILLARKILG 58 (118)
T ss_dssp HHHHHHHHHHHHHHHHHSHHHTTS-HHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhC
Confidence 455667777777766667778899999999999999999854
No 34
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=79.22 E-value=5.2 Score=39.12 Aligned_cols=42 Identities=19% Similarity=0.353 Sum_probs=35.3
Q ss_pred CHHHHHHHHHHHHHHhccCCcCccChHHHHHHHHHhhhcccc
Q psy7372 99 PKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEE 140 (352)
Q Consensus 99 p~~V~aTAi~yf~RFyl~~S~~~~~p~~I~~tcLfLA~K~EE 140 (352)
+..+...|..|+...+..--+..|.|..||+||||+|++.-.
T Consensus 180 ~~~l~q~a~~~lndsl~Td~~L~y~Ps~IAlAAI~lA~~~~~ 221 (305)
T TIGR00569 180 PEYLRKHADKFLNRTLLTDAYLLYTPSQIALAAILHTASRAG 221 (305)
T ss_pred hHHHHHHHHHHHHHHHcCCceecCCHHHHHHHHHHHHHHHhC
Confidence 345667888899988888778889999999999999998543
No 35
>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=78.37 E-value=34 Score=27.69 Aligned_cols=42 Identities=12% Similarity=0.025 Sum_probs=31.8
Q ss_pred hhHHHHHHHHHHHHhccccccccCHHHHHHHHHHHHHHhccc
Q psy7372 204 DRLRPGIDEFLDKMFLTDACLLFSPSQIALAAVLQSASKLQE 245 (352)
Q Consensus 204 ~~l~~~A~~~l~ds~~Td~~L~y~Ps~IAlAal~lA~~~~~~ 245 (352)
......|..+++..+.....-...+..||+||+++|++....
T Consensus 49 ~~~~~~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K~~e~ 90 (127)
T PF00134_consen 49 PETLHLAIYLFDRFLSKRPVNRSKLQLIALACLFLASKMEED 90 (127)
T ss_dssp HHHHHHHHHHHHHHHTTS-TTCCGHHHHHHHHHHHHHHHHTS
T ss_pred hhHHHHHHHHHHHHHhhcccccchhhhhhhhHHHHhhhhhcc
Confidence 345567788887766555677888999999999999987544
No 36
>KOG1675|consensus
Probab=50.86 E-value=25 Score=34.48 Aligned_cols=75 Identities=13% Similarity=0.194 Sum_probs=50.9
Q ss_pred HHHHHHHHH--hccCCcCccChHHHHHHHHHhhhccccC-CCCHHHHHhhhccchhhhHHHHHHHHHHHHHHcCcccccc
Q psy7372 105 TAFHYLKRF--YLNNSVMDYHPKEILVTCVYLACKVEEF-NLSISQFVSNIKGDQQKASDIILNNELLLMQQLKYHLTVH 181 (352)
Q Consensus 105 TAi~yf~RF--yl~~S~~~~~p~~I~~tcLfLA~K~EE~-~~~i~~~v~~l~~d~~~~~e~Il~~E~~lL~~L~F~L~v~ 181 (352)
-..+|+.|- |....+..++...+....+.+|+|+=.. -..=-+.+..++ ..+.+++-++|+..|+.|+|++.|+
T Consensus 213 itL~~~erl~~~~e~~~~p~~w~r~~~g~il~sskv~~dqs~wnvdycqIlK---d~tveDmNe~ERqfLelLqfNinvp 289 (343)
T KOG1675|consen 213 ITLVYAERLLWLAERDPCPRNWSRAVLGEILLSSKVYDDQSVWNVDYCEILK---DQSVDDMNALERQFLELLQFNINVP 289 (343)
T ss_pred HHHHhhHhhhhHhhcCCCcchhhhhhhhhheehhhhhhhhhcccHHHHHHHh---hccHhhHHHHHHHHHHHHhhccCcc
Confidence 345677765 3344455777888888899999997432 222233444443 1356889999999999999999875
Q ss_pred C
Q psy7372 182 N 182 (352)
Q Consensus 182 ~ 182 (352)
.
T Consensus 290 ~ 290 (343)
T KOG1675|consen 290 S 290 (343)
T ss_pred H
Confidence 4
No 37
>KOG0794|consensus
Probab=50.55 E-value=21 Score=33.71 Aligned_cols=24 Identities=33% Similarity=0.908 Sum_probs=20.9
Q ss_pred ccChHHHHHHHHHhhhccccCCCC
Q psy7372 121 DYHPKEILVTCVYLACKVEEFNLS 144 (352)
Q Consensus 121 ~~~p~~I~~tcLfLA~K~EE~~~~ 144 (352)
-|+|+.|+.||||+||=..|..++
T Consensus 190 l~PPh~IalAcl~Ia~~~~~k~~~ 213 (264)
T KOG0794|consen 190 LYPPHQIALACLYIACVIDEKDIP 213 (264)
T ss_pred ecCHHHHHHHHHHHHHhhcCCChH
Confidence 389999999999999988877664
No 38
>KOG2496|consensus
Probab=45.82 E-value=38 Score=33.12 Aligned_cols=50 Identities=18% Similarity=0.385 Sum_probs=41.2
Q ss_pred chhHHHHHHHHHHHHhccccccccCHHHHHHHHHHHHHHhc--ccchhhHHH
Q psy7372 203 PDRLRPGIDEFLDKMFLTDACLLFSPSQIALAAVLQSASKL--QENLDAYVT 252 (352)
Q Consensus 203 ~~~l~~~A~~~l~ds~~Td~~L~y~Ps~IAlAal~lA~~~~--~~~~~~y~~ 252 (352)
|..+..+|..|....++......|.|-.|.++|+++|++.. .+.+++|..
T Consensus 75 p~~Vv~TA~~fFkRffL~nsvme~~pk~I~~tc~flA~Kieef~ISieqFvk 126 (325)
T KOG2496|consen 75 PTSVVSTAIEFFKRFFLENSVMEYSPKIIMATCFFLACKIEEFYISIEQFVK 126 (325)
T ss_pred chHHHHHHHHHHHHHHHhcchhhcChHHHHHHHHHHHhhhHhheecHHHHHh
Confidence 56788899999999999999999999999999999999853 334555544
No 39
>KOG1598|consensus
Probab=43.42 E-value=24 Score=36.85 Aligned_cols=54 Identities=15% Similarity=0.196 Sum_probs=40.0
Q ss_pred HHHHHHHHHHHHHHhccCCcCccChHHHHHHHHHhhhccccCCCCHHHHHhhhc
Q psy7372 100 KVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIK 153 (352)
Q Consensus 100 ~~V~aTAi~yf~RFyl~~S~~~~~p~~I~~tcLfLA~K~EE~~~~i~~~v~~l~ 153 (352)
..|+.||..+..|----+-...-.|--|+-|||++||-+-++++++.+|++++.
T Consensus 184 ~~Vv~~a~~L~~rMkrdwm~tGRRPsglcGAaLliAar~h~~~rsi~dIv~vvh 237 (521)
T KOG1598|consen 184 EDVAKTATRLAQRMKRDWMQTGRRPSGLCGAALLIAARMHGFRRTIGDIAKVVH 237 (521)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCccchhHHHHHHHHHHcCccccHHHHHHHHH
Confidence 348888887776532111112335778999999999999999999999998754
No 40
>KOG1010|consensus
Probab=39.74 E-value=76 Score=35.23 Aligned_cols=75 Identities=23% Similarity=0.442 Sum_probs=57.2
Q ss_pred HHHHHHH---HHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccCC--cCccChHHHHHHHHHhhhccccCCCCHHHHHhh
Q psy7372 77 RVLVRHY---QLQLRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNS--VMDYHPKEILVTCVYLACKVEEFNLSISQFVSN 151 (352)
Q Consensus 77 ~~l~~~y---~~~I~~i~~~l~~~Lp~~V~aTAi~yf~RFyl~~S--~~~~~p~~I~~tcLfLA~K~EE~~~~i~~~v~~ 151 (352)
..+++.| ...|+.+|.+|. +.++....--++|..-+...+ +++-|...++++|+|+=+|+.+...+-.+|+..
T Consensus 671 IF~rKvY~LAavRL~~Lc~rL~--l~~e~r~~IWtlFehsl~~et~Lm~dRHLDQillCaiy~i~KV~~~~ltF~eIm~~ 748 (920)
T KOG1010|consen 671 IFLRKVYHLAAVRLNDLCERLS--LSDELREQIWTLFEHSLTNETELMRDRHLDQILLCAIYGIAKVKKEDLTFSEIMRA 748 (920)
T ss_pred HHHHHHHHHHHHHHHHHHHHhh--hhhHHHHHHHHHHHHHHhccHHHHHhhhHHHHHHHHHHhheehhcccchHHHHHHH
Confidence 3445444 467899999999 888877777777765443333 356788889999999999999999999999876
Q ss_pred hc
Q psy7372 152 IK 153 (352)
Q Consensus 152 l~ 153 (352)
-+
T Consensus 749 YR 750 (920)
T KOG1010|consen 749 YR 750 (920)
T ss_pred Hh
Confidence 54
No 41
>COG1422 Predicted membrane protein [Function unknown]
Probab=34.04 E-value=2.5e+02 Score=25.92 Aligned_cols=82 Identities=20% Similarity=0.236 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHHhccccccccCHHHHHHHHHHHHHHhcccchhhHHHHHhcCCCccccHHHHHHHHHHHHHHHhCcCCCC
Q psy7372 206 LRPGIDEFLDKMFLTDACLLFSPSQIALAAVLQSASKLQENLDAYVTQTLLGQHANVRLVDLIEAVRKIRTLVSKPIESP 285 (352)
Q Consensus 206 l~~~A~~~l~ds~~Td~~L~y~Ps~IAlAal~lA~~~~~~~~~~y~~~~~~~~~~~~~l~~l~~~i~~i~~l~~~~~~~~ 285 (352)
+.+.....+|..+.--+.+.+|--.|-++|+..+.-. +.++..+ .|.+.++++.+.+++.++-.++..+.-
T Consensus 25 ~~~~i~~~ln~~f~P~i~~~~p~lvilV~avi~gl~~------~i~~~~l---iD~ekm~~~qk~m~efq~e~~eA~~~~ 95 (201)
T COG1422 25 IRDGIGGALNVVFGPLLSPLPPHLVILVAAVITGLYI------TILQKLL---IDQEKMKELQKMMKEFQKEFREAQESG 95 (201)
T ss_pred HHHHHHHHHHHHHhhhccccccHHHHHHHHHHHHHHH------HHHHHHh---ccHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 4455566666665443444444445566666655532 2333332 245667777777666665543334444
Q ss_pred CHHhHHHHHHH
Q psy7372 286 SREMFKQLEKR 296 (352)
Q Consensus 286 ~~~~v~~i~~K 296 (352)
+.+.++.+++|
T Consensus 96 d~~~lkkLq~~ 106 (201)
T COG1422 96 DMKKLKKLQEK 106 (201)
T ss_pred CHHHHHHHHHH
Confidence 55555555443
No 42
>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=31.48 E-value=1.7e+02 Score=25.12 Aligned_cols=79 Identities=15% Similarity=0.201 Sum_probs=48.4
Q ss_pred HHHHHHHHHHHHHHhccCCcCccChHHHHHHHHHhhhccccCCC-CHHHHHhhhccch-hhhHHHHHHHHHHHHHHcCcc
Q psy7372 100 KVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNL-SISQFVSNIKGDQ-QKASDIILNNELLLMQQLKYH 177 (352)
Q Consensus 100 ~~V~aTAi~yf~RFyl~~S~~~~~p~~I~~tcLfLA~K~EE~~~-~i~~~v~~l~~d~-~~~~e~Il~~E~~lL~~L~F~ 177 (352)
.-.+|..++||.|--+.. ..|++-. -..|||||+-+||... +-.++..-+-|.. ....-..+..=..+...+||.
T Consensus 30 KYLLAmV~~YF~Ragl~~--~~Y~ri~-FFlALYLAndmEED~~~~K~~If~f~~G~~w~~~~~~F~klr~~~~~~m~~R 106 (131)
T PF11357_consen 30 KYLLAMVIAYFSRAGLFS--WQYQRIH-FFLALYLANDMEEDDEEPKYEIFPFLYGKNWRSQIPQFHKLRDQFWRRMDWR 106 (131)
T ss_pred HHHHHHHHHHHHhcccch--hhcchHH-HHHHHHHhhHHHhccchHHHHHHHHHHCcchHHHhHHHHHHHHHHHHHcCCc
Confidence 347799999999976532 2344433 4678999999999754 3333333221111 111223566667788888888
Q ss_pred cccc
Q psy7372 178 LTVH 181 (352)
Q Consensus 178 L~v~ 181 (352)
..|.
T Consensus 107 a~Vs 110 (131)
T PF11357_consen 107 AWVS 110 (131)
T ss_pred eeeC
Confidence 7764
No 43
>COG0484 DnaJ DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]
Probab=24.50 E-value=2e+02 Score=29.07 Aligned_cols=60 Identities=23% Similarity=0.255 Sum_probs=41.1
Q ss_pred CCCCHHhHHHHHHHHHHhcCCCCCCCcHHHHHHHhhccCCcchHHHHhhhhHHHHHHHHHhhhcCCCC
Q psy7372 283 ESPSREMFKQLEKRLEKCRNQANNPDSHIYKERMLESLNDDDESAARRYSQLSQKENAILEHMKGISK 350 (352)
Q Consensus 283 ~~~~~~~v~~i~~KL~~c~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 350 (352)
...+.++||...+||.+=.-|++||+.+....|.|+- .+.|--++--+..+.=|+||...
T Consensus 14 k~As~~EIKkAYRkLA~kyHPD~n~g~~~AeeKFKEI--------~eAYEVLsD~eKRa~YD~fG~~~ 73 (371)
T COG0484 14 KDASEEEIKKAYRKLAKKYHPDRNPGDKEAEEKFKEI--------NEAYEVLSDPEKRAAYDQFGHAG 73 (371)
T ss_pred CCCCHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHH--------HHHHHHhCCHHHHHHhhccCccc
Confidence 3568999999999999999999999776666677663 33444343333233356787643
No 44
>PF07739 TipAS: TipAS antibiotic-recognition domain; InterPro: IPR012925 TipAL is a bacterial transcriptional regulator of the MerR family. The tipA gene can be expressed as a long form, TipAL, and a short form, TipAS, which constitutes the C-terminal part of TipAL. TipAS forms the antibiotic-recognition domain []. This domain, which has an alpha-helical globin-like fold, is also found at the C terminus of other MerR family transcription factors, including Mta, a central regulator of multidrug resistance in Bacillus subtilis [], and SkgA from Caulobacter crescentus []. ; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent; PDB: 1NY9_A 3HH0_A 3QAO_A.
Probab=24.49 E-value=2e+02 Score=22.89 Aligned_cols=62 Identities=15% Similarity=0.101 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHHHHhCcCCCCCHHhHHHHHHHHHHhcCCCCCCCcHHHHHHHhhccCCcchHHH
Q psy7372 265 VDLIEAVRKIRTLVSKPIESPSREMFKQLEKRLEKCRNQANNPDSHIYKERMLESLNDDDESAA 328 (352)
Q Consensus 265 ~~l~~~i~~i~~l~~~~~~~~~~~~v~~i~~KL~~c~~p~~~~~~~~~~~~~~~~~~~~~~~~~ 328 (352)
....+++..+..++ ....+|+.+++..+-++....-+ ...+.+...-.+..+.|.+|.....
T Consensus 35 ~~~~~l~~~l~~~~-~~g~~p~s~evq~l~~~~~~~~~-~~~~~~~~~~~~l~~~y~~~~~~~~ 96 (118)
T PF07739_consen 35 KEWDELFAELAALM-EEGVDPDSPEVQELAERWMELIN-QFTGGDPELLRGLAQMYVEDPRFAA 96 (118)
T ss_dssp HHHHHHHHHHHHHH-HHT--TT-HHHHHHHHHHHHHHH-HSS---HHHHHHHHHHTTSTHHHHH
T ss_pred HHHHHHHHHHHHHH-HcCCCcCCHHHHHHHHHHHHHHH-HHhCCCHHHHHHHHHHHHcCHHHHh
Confidence 34556666777777 66678999999999999877777 4555444455678888887765554
No 45
>KOG0656|consensus
Probab=21.82 E-value=4.8e+02 Score=25.96 Aligned_cols=85 Identities=13% Similarity=0.100 Sum_probs=53.3
Q ss_pred HHHHHHHHHHHHHHcCccccc---cCCh-HH-HHHHHHHhhcccCCCCchhHHHHHHHHHHHHhccccccccC---HHHH
Q psy7372 160 SDIILNNELLLMQQLKYHLTV---HNPY-RP-VEGFLIDIKTRSQLRDPDRLRPGIDEFLDKMFLTDACLLFS---PSQI 231 (352)
Q Consensus 160 ~e~Il~~E~~lL~~L~F~L~v---~~P~-r~-L~~~l~~l~~~~~l~~~~~l~~~A~~~l~ds~~Td~~L~y~---Ps~I 231 (352)
....+..|..-....+..+.+ .+|+ |. ..+++.+.....+. .....-.|.++++..+-.--+-.+. -..|
T Consensus 49 i~~ll~kEe~~~p~~~~~~~~~~~~~~~~R~~A~~WIl~V~~~~~~--~~~~~~LA~NYlDRFls~~~l~k~k~W~lQLl 126 (335)
T KOG0656|consen 49 LANLLEKEEQHNPSLDYFLCVQKLILSSMRKQALDWILKVCEEYNF--EPLVFLLAMNYLDRFLSSQKLPKDKPWMLQLL 126 (335)
T ss_pred HHHHHHHHHHhCCCCchhhhcccccccHHHHHHHHHHHHHHHHhCC--chHHHHHHHHHHHHhhcccccCCCchHHHHHH
Confidence 345677788777777744433 4555 33 34555555432122 2345568888888865444455666 5678
Q ss_pred HHHHHHHHHHhcccc
Q psy7372 232 ALAAVLQSASKLQEN 246 (352)
Q Consensus 232 AlAal~lA~~~~~~~ 246 (352)
|+||+.+|+++....
T Consensus 127 AvaCLsLAsKmeE~~ 141 (335)
T KOG0656|consen 127 AVACLSLASKMEETD 141 (335)
T ss_pred HHHHHHHHHhhcCcC
Confidence 999999999986544
No 46
>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=20.46 E-value=2.7e+02 Score=27.28 Aligned_cols=42 Identities=12% Similarity=0.180 Sum_probs=32.6
Q ss_pred chhHHHHHHHHHHHHhccccccccCHHHHHHHHHHHHHHhcc
Q psy7372 203 PDRLRPGIDEFLDKMFLTDACLLFSPSQIALAAVLQSASKLQ 244 (352)
Q Consensus 203 ~~~l~~~A~~~l~ds~~Td~~L~y~Ps~IAlAal~lA~~~~~ 244 (352)
+..+..+|.-+....++-.-.-.++|-.||.+||++|++...
T Consensus 62 p~~~laTAi~~f~Rf~Lk~sv~e~~~~~vv~tcv~LA~K~ed 103 (297)
T COG5333 62 PQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVED 103 (297)
T ss_pred CcchHHHHHHHHHHHHhhcccccccHHHHHHhheeeeeeccc
Confidence 445667777777776655557789999999999999998644
Done!