Query psy11273
Match_columns 730
No_of_seqs 239 out of 1582
Neff 4.4
Searched_HMMs 46136
Date Fri Aug 16 22:39:47 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11273.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/11273hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0834|consensus 100.0 7.3E-45 1.6E-49 385.3 22.9 240 10-254 7-251 (323)
2 KOG0794|consensus 100.0 2.1E-39 4.6E-44 326.1 13.2 246 1-259 1-249 (264)
3 TIGR00569 ccl1 cyclin ccl1. Un 100.0 3.2E-36 6.9E-41 318.5 22.4 228 5-253 1-260 (305)
4 KOG0835|consensus 100.0 2.2E-35 4.8E-40 308.7 20.2 224 21-250 3-231 (367)
5 COG5333 CCL1 Cdk activating ki 99.9 1.1E-27 2.3E-32 250.6 12.6 174 32-216 36-211 (297)
6 PRK00423 tfb transcription ini 99.9 1E-20 2.2E-25 200.9 20.9 182 42-248 123-304 (310)
7 KOG2496|consensus 99.9 6.1E-22 1.3E-26 206.7 8.0 193 5-213 2-224 (325)
8 KOG0656|consensus 99.8 2.8E-20 6.1E-25 198.7 15.7 160 36-211 73-240 (335)
9 KOG0653|consensus 99.8 2.9E-18 6.3E-23 187.4 14.9 184 39-246 156-343 (391)
10 KOG0655|consensus 99.7 2.8E-17 6E-22 173.5 13.2 157 35-209 139-309 (408)
11 COG5024 Cyclin [Cell division 99.7 9.9E-17 2.1E-21 176.9 15.3 189 38-251 210-402 (440)
12 COG1405 SUA7 Transcription ini 99.7 4E-15 8.6E-20 157.1 18.3 153 43-214 99-251 (285)
13 KOG1598|consensus 99.6 3.8E-16 8.2E-21 173.6 10.3 193 39-275 65-264 (521)
14 KOG1597|consensus 99.6 1.6E-14 3.4E-19 151.3 16.1 178 42-244 105-284 (308)
15 PF00134 Cyclin_N: Cyclin, N-t 99.6 4.4E-15 9.5E-20 135.1 10.3 102 35-152 25-127 (127)
16 KOG0654|consensus 99.5 6.9E-14 1.5E-18 151.2 11.1 198 38-261 134-339 (359)
17 cd00043 CYCLIN Cyclin box fold 99.3 5.9E-12 1.3E-16 105.0 8.9 87 41-144 2-88 (88)
18 smart00385 CYCLIN domain prese 99.2 9E-11 1.9E-15 97.1 7.6 83 46-145 1-83 (83)
19 PF02984 Cyclin_C: Cyclin, C-t 98.8 1.6E-08 3.4E-13 90.5 7.0 99 154-260 1-105 (118)
20 PF00382 TFIIB: Transcription 98.5 2.3E-07 4.9E-12 78.7 7.4 66 48-113 1-66 (71)
21 smart00385 CYCLIN domain prese 98.1 8.1E-06 1.7E-10 67.4 7.6 81 158-245 1-82 (83)
22 cd00043 CYCLIN Cyclin box fold 98.0 2.1E-05 4.6E-10 65.5 8.2 85 153-244 2-87 (88)
23 PRK00423 tfb transcription ini 97.8 9.5E-05 2.1E-09 79.5 10.2 70 44-113 219-288 (310)
24 KOG4164|consensus 97.7 7.4E-05 1.6E-09 82.0 8.2 98 43-154 384-482 (497)
25 PF08613 Cyclin: Cyclin; Inte 97.7 0.00025 5.5E-09 68.5 10.4 91 43-151 53-149 (149)
26 PF00382 TFIIB: Transcription 97.4 0.00045 9.8E-09 58.6 6.4 55 160-215 1-55 (71)
27 COG1405 SUA7 Transcription ini 96.2 0.017 3.7E-07 62.1 8.9 71 43-113 193-263 (285)
28 KOG1597|consensus 95.3 0.061 1.3E-06 58.0 8.3 71 43-113 202-272 (308)
29 PF00134 Cyclin_N: Cyclin, N-t 94.9 0.063 1.4E-06 48.9 6.0 88 158-249 36-123 (127)
30 PF01857 RB_B: Retinoblastoma- 92.0 0.87 1.9E-05 44.2 8.8 69 43-111 13-83 (135)
31 PF10278 Med19: Mediator of RN 90.2 0.13 2.8E-06 52.1 1.2 34 490-523 19-52 (178)
32 KOG0835|consensus 88.8 0.59 1.3E-05 51.4 5.0 58 45-102 142-201 (367)
33 PF02984 Cyclin_C: Cyclin, C-t 88.7 0.5 1.1E-05 42.2 3.8 56 44-99 3-58 (118)
34 KOG1674|consensus 88.2 1.2 2.6E-05 46.3 6.7 93 45-154 79-181 (218)
35 TIGR00569 ccl1 cyclin ccl1. Un 88.0 0.96 2.1E-05 49.4 6.1 56 158-214 61-118 (305)
36 KOG1598|consensus 87.5 0.69 1.5E-05 53.5 4.8 56 60-115 185-240 (521)
37 PF10500 SR-25: Nuclear RNA-sp 81.7 1 2.2E-05 47.2 2.6 10 699-708 186-195 (225)
38 KOG2138|consensus 76.2 1.1 2.4E-05 53.3 0.9 13 135-147 295-307 (883)
39 KOG0834|consensus 75.7 4.5 9.7E-05 44.7 5.4 56 157-213 43-98 (323)
40 PF10278 Med19: Mediator of RN 75.0 1.3 2.8E-05 45.1 1.0 39 485-523 18-62 (178)
41 PF08208 RNA_polI_A34: DNA-dir 69.4 1.5 3.3E-05 44.4 0.0 12 569-580 109-120 (198)
42 COG5333 CCL1 Cdk activating ki 64.7 6.4 0.00014 43.1 3.6 55 157-212 49-103 (297)
43 KOG4557|consensus 64.0 2.1E+02 0.0045 30.7 15.3 174 47-252 2-185 (262)
44 KOG1675|consensus 63.4 8.7 0.00019 42.4 4.2 94 46-155 195-290 (343)
45 PF01857 RB_B: Retinoblastoma- 62.3 36 0.00078 33.2 7.8 55 158-212 16-71 (135)
46 KOG2138|consensus 60.6 2.2 4.8E-05 50.9 -0.8 6 2-7 53-58 (883)
47 KOG0656|consensus 58.7 33 0.00071 38.4 7.7 83 134-217 50-144 (335)
48 KOG1924|consensus 55.4 10 0.00022 46.3 3.3 34 42-75 118-152 (1102)
49 KOG0794|consensus 54.4 16 0.00036 39.0 4.3 55 158-213 46-100 (264)
50 KOG4557|consensus 53.5 65 0.0014 34.3 8.3 79 16-99 60-151 (262)
51 KOG4043|consensus 48.8 8.2 0.00018 39.1 1.1 12 472-483 27-38 (214)
52 KOG3598|consensus 48.4 8.3 0.00018 49.6 1.2 45 615-659 1794-1838(2220)
53 KOG2572|consensus 48.0 8 0.00017 44.0 0.9 31 235-265 250-283 (498)
54 KOG2573|consensus 47.4 5 0.00011 45.5 -0.7 112 141-266 173-298 (498)
55 PF08208 RNA_polI_A34: DNA-dir 45.4 7 0.00015 39.7 0.0 9 503-511 33-41 (198)
56 KOG2573|consensus 43.8 6.2 0.00013 44.8 -0.7 34 64-97 33-66 (498)
57 KOG4043|consensus 40.8 13 0.00028 37.7 1.0 7 543-549 97-103 (214)
58 KOG2812|consensus 40.7 13 0.00028 41.7 1.1 10 357-366 85-94 (426)
59 KOG2496|consensus 39.8 48 0.001 36.8 5.2 53 160-213 63-117 (325)
60 KOG2572|consensus 39.0 9.4 0.0002 43.4 -0.2 7 103-109 71-77 (498)
61 PF08613 Cyclin: Cyclin; Inte 36.4 1.2E+02 0.0026 29.5 7.0 90 154-249 52-146 (149)
62 KOG1924|consensus 36.0 30 0.00065 42.5 3.2 11 562-572 632-642 (1102)
63 PF11357 Spy1: Cell cycle regu 35.6 1.4E+02 0.003 29.4 7.1 84 54-154 24-110 (131)
64 KOG0653|consensus 35.1 90 0.002 35.3 6.7 86 160-249 165-251 (391)
65 KOG1010|consensus 34.4 73 0.0016 39.6 6.0 69 44-112 680-750 (920)
66 KOG0566|consensus 32.8 9.4E+02 0.02 31.0 14.8 30 451-482 1039-1068(1080)
67 KOG2675|consensus 30.3 87 0.0019 36.3 5.5 20 559-578 318-337 (480)
68 KOG3794|consensus 29.0 24 0.00051 40.2 0.8 8 311-318 74-81 (453)
69 KOG3410|consensus 28.6 23 0.0005 34.2 0.6 25 609-633 14-38 (120)
70 KOG3925|consensus 25.6 51 0.0011 37.2 2.6 19 659-677 63-81 (371)
71 PF13591 MerR_2: MerR HTH fami 24.5 1.8E+02 0.0039 25.8 5.4 43 12-74 32-74 (84)
72 KOG0655|consensus 24.1 2.2E+02 0.0048 32.3 7.0 47 197-246 189-235 (408)
73 COG5024 Cyclin [Cell division 22.5 81 0.0018 36.6 3.5 77 170-250 230-306 (440)
74 KOG0526|consensus 21.3 51 0.0011 39.0 1.6 12 551-562 400-411 (615)
No 1
>KOG0834|consensus
Probab=100.00 E-value=7.3e-45 Score=385.28 Aligned_cols=240 Identities=45% Similarity=0.763 Sum_probs=223.8
Q ss_pred CCCCCcccCHHHHh-cCCCccCCCCHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccchhhHHHH
Q psy11273 10 HSPDRWYFTKEQLE-NTPSRKCGYDAEKELSCRQQAANLIQDMGQRLQVTQLCINTAIVYMHRFYVFHSFTQFHRNSIAT 88 (730)
Q Consensus 10 ~~~s~WLFT~EQLe-~TPSrrdGIs~e~El~lR~~avd~I~eVg~~LkLPq~TlaTAivyFhRFysrkSi~~~d~qLVAA 88 (730)
..-..|+|++||++ ++||+++|++.+.|...|+.++.||+++|.+|++++.|++||++||||||+.+++..++++.||+
T Consensus 7 ~~~~~w~~s~e~~~~~tpSr~~g~~~~~E~~~r~~~~~fI~elg~~L~~~~~ti~tA~~~~hRFy~~~s~~~~~~~~vA~ 86 (323)
T KOG0834|consen 7 GETSRWYFSKEQLEENTPSRRDGIDLKKELRLRQEGAKFIQELGVRLKMPQKTIATAIVIFHRFYMFHSFKKFDPYTVAA 86 (323)
T ss_pred ccccccccCHHHHccCChhhccCCchhHHHHHHHHHHHHHHHHHHHcCCCccchhhhhhhhhhhhhhcccccCcHHHHHH
Confidence 34579999999998 89999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhhcCCCCCHHHHHHHHHHhhccCCCCCCCCchHHHHHHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHhc
Q psy11273 89 AALFLAAKVEEQPRKLEHVIRVAQLCLFKNQPPLDPRSEAYQEQAQEIVVNENVLLQTLGFDVGIEHPHTYVVKCCHLVR 168 (730)
Q Consensus 89 ACLFLAcKvEEtprkLrDII~Va~~~l~r~~~~lD~~se~y~~~reeIL~mEr~ILqaL~FDL~V~~P~~FL~rflk~L~ 168 (730)
+|||||||+||++++++||+.+++.++++.. .+..+.|+++++.|+.+|+.||++|+|||+|.|||.||.+|+..++
T Consensus 87 sclfLAgKvEetp~kl~dIi~~s~~~~~~~~---~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~l~ 163 (323)
T KOG0834|consen 87 SCLFLAGKVEETPRKLEDIIKVSYRYLNPKD---LELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKKLK 163 (323)
T ss_pred HHHHHHhhcccCcccHHHHHHHHHHHcCccc---ccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHHhh
Confidence 9999999999999999999999999887643 3556789999999999999999999999999999999999999988
Q ss_pred CCH----HHHHHHHHHHHccccccccccCCcHHHHHHHHHHHHHHHcCCCCCCCCCCCcccccccCCCCHHHHHHHHHHH
Q psy11273 169 ASK----DLAQTSYFMASNSLHLTTMCLQYRSTVVACFCIHLACKWANWEIPQSNEGRKWFWYIDKEVTQEQLEQLTEEF 244 (730)
Q Consensus 169 ~sk----eL~qlA~~ILnDSL~lT~LcL~y~PS~IAAAAIyLAakllgi~iP~~~eg~~Ww~~fd~~VT~EqLeeIi~EI 244 (730)
... .++++||.|++|++ .+.+||+|.|..||+|||+||+.+.|+.+|...+. .||..|+.+++.++|++++.++
T Consensus 164 ~~~~~~~~~a~~Aw~~~nD~~-~t~~cL~y~p~~IAva~i~lA~~~~~~~~~~~~~~-~w~~~~d~~vt~e~l~~i~~~~ 241 (323)
T KOG0834|consen 164 ADENLKQPLAQAAWNFVNDSL-RTTLCLQYSPHSIAVACIHLAAKLLGVELPSDTDK-RWWREFDETVTNELLDDICHEF 241 (323)
T ss_pred hhhhccccHHHHHHHHhchhh-eeeeeEeecCcEEEeehhhHHHHHcCCCCCCCccc-chhhhhcccCCHHHHHHHHHHH
Confidence 754 49999999999987 57799999999999999999999999988876655 8999999999999999999999
Q ss_pred HHHHhcCChh
Q psy11273 245 LAIFDKCPSK 254 (730)
Q Consensus 245 L~LYe~~ps~ 254 (730)
+++|+.+...
T Consensus 242 l~~y~~~~~~ 251 (323)
T KOG0834|consen 242 LDLYEQTPQR 251 (323)
T ss_pred HHHHhhcccc
Confidence 9999987644
No 2
>KOG0794|consensus
Probab=100.00 E-value=2.1e-39 Score=326.12 Aligned_cols=246 Identities=26% Similarity=0.429 Sum_probs=209.3
Q ss_pred CCCCCCCCCCCCCCcccCHHHHhcCC-CccCCCCHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccc
Q psy11273 1 MSTNTTQGSHSPDRWYFTKEQLENTP-SRKCGYDAEKELSCRQQAANLIQDMGQRLQVTQLCINTAIVYMHRFYVFHSFT 79 (730)
Q Consensus 1 Ma~nFw~SS~~~s~WLFT~EQLe~TP-SrrdGIs~e~El~lR~~avd~I~eVg~~LkLPq~TlaTAivyFhRFysrkSi~ 79 (730)
||+|||+|||. .+|+|++++|...+ --..|++.++...++....++|+.+|++|+|+|.+++||++||+|||.++|++
T Consensus 1 MA~NFW~SSh~-~qwl~dk~el~k~r~~D~r~l~~d~~~~l~i~~~n~I~~lg~~lklRQ~ViATAivY~rRfy~r~S~k 79 (264)
T KOG0794|consen 1 MAGNFWTSSHY-QQWLLDKTELLKERQLDLRGLSEDEYSKLKIFMANVIQKLGQHLKLRQRVIATAIVYFRRFYLRKSLK 79 (264)
T ss_pred CCcchhhhhhh-hhHhcCHHHHhhhccchhhcccHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 99999999997 99999999997532 23457777777888999999999999999999999999999999999999999
Q ss_pred cchhhHHHHHHHHHHhhhcCCC-CCHHHHHHHHHHhhccCCCCCCCCchHHHHHHHHHHHHHHHHHHHcCCccccCChHH
Q psy11273 80 QFHRNSIATAALFLAAKVEEQP-RKLEHVIRVAQLCLFKNQPPLDPRSEAYQEQAQEIVVNENVLLQTLGFDVGIEHPHT 158 (730)
Q Consensus 80 ~~d~qLVAAACLFLAcKvEEtp-rkLrDII~Va~~~l~r~~~~lD~~se~y~~~reeIL~mEr~ILqaL~FDL~V~~P~~ 158 (730)
++++.++|.||||||||+||++ ..++-+++.+..+..+-. ...+.+.+....|+++|+.||+.|++-|.|.|||+
T Consensus 80 ~~~p~lla~TClyLAcKvEE~~i~~~r~l~~~a~~L~~~f~----~~~e~~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYr 155 (264)
T KOG0794|consen 80 EIEPRLLAPTCLYLACKVEECPIVHIRLLVNEAKVLKTRFS----YWPEKFPYERKDILEMEFYLLEALDCYLIVHHPYR 155 (264)
T ss_pred ccCHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHhhhcc----cchhhcCCCcCcchhhhhhHHhhhceeEEEecCCc
Confidence 9999999999999999999998 566767766655422211 11234445567899999999999999999999999
Q ss_pred HHHHHHHHhcC-CHHHHHHHHHHHHccccccccccCCcHHHHHHHHHHHHHHHcCCCCCCCCCCCcccccccCCCCHHHH
Q psy11273 159 YVVKCCHLVRA-SKDLAQTSYFMASNSLHLTTMCLQYRSTVVACFCIHLACKWANWEIPQSNEGRKWFWYIDKEVTQEQL 237 (730)
Q Consensus 159 FL~rflk~L~~-skeL~qlA~~ILnDSL~lT~LcL~y~PS~IAAAAIyLAakllgi~iP~~~eg~~Ww~~fd~~VT~EqL 237 (730)
-|..+++..+. ++++.+.||.++||++ ++++||.|+|..||+|||++||...|-+++ ..|+. ...++.+.|
T Consensus 156 sL~q~~qd~gi~d~~~l~~~W~ivNDSy-r~Dl~Ll~PPh~IalAcl~Ia~~~~~k~~~-----~~w~~--el~vD~ekV 227 (264)
T KOG0794|consen 156 SLLQFVQDMGINDQKLLQLAWSIVNDSY-RMDLCLLYPPHQIALACLYIACVIDEKDIP-----KAWFA--ELSVDMEKV 227 (264)
T ss_pred cHHHHHHHhcccchhhhhhhHhhhcchh-hcceeeecCHHHHHHHHHHHHHhhcCCChH-----HHHHH--HHhccHHHH
Confidence 99999999887 6679999999999986 799999999999999999999999987654 35763 456789999
Q ss_pred HHHHHHHHHHHhcCChhHHHHh
Q psy11273 238 EQLTEEFLAIFDKCPSKLKKRI 259 (730)
Q Consensus 238 eeIi~EIL~LYe~~ps~Lrkrl 259 (730)
.+|+++++++|+.+...-.+++
T Consensus 228 ~~~v~~I~~lYe~wk~~~E~~v 249 (264)
T KOG0794|consen 228 KDIVQEILKLYELWKIFDEKKV 249 (264)
T ss_pred HHHHHHHHHHHHHHhhhhHHHH
Confidence 9999999999998765544443
No 3
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=100.00 E-value=3.2e-36 Score=318.48 Aligned_cols=228 Identities=21% Similarity=0.284 Sum_probs=188.4
Q ss_pred CCCCCCCCCCcccC-HHHHhcCC-------------------CccCCCCHHHHHHHHHHHHHHHHHHHHHcC--CCHHHH
Q psy11273 5 TTQGSHSPDRWYFT-KEQLENTP-------------------SRKCGYDAEKELSCRQQAANLIQDMGQRLQ--VTQLCI 62 (730)
Q Consensus 5 Fw~SS~~~s~WLFT-~EQLe~TP-------------------SrrdGIs~e~El~lR~~avd~I~eVg~~Lk--LPq~Tl 62 (730)
||+|||. ..|.|+ +++|...+ ....+++.++|..+|.+++.+|+++|.+|+ ||+.|+
T Consensus 1 y~~StQ~-r~W~F~~~~~L~~~R~~~N~~~~~~~~~~~~~~~~~~~~Lt~eeE~~l~~~y~~~i~~~~~~lkp~Lpq~vi 79 (305)
T TIGR00569 1 YRNSSQK-RHWTFTSEEQLQEKRADANAKFREAHEEEEKVLEAKPIFLTPEEELDLVKYYEKRLLDFCSAFKPTMPTSVV 79 (305)
T ss_pred CCCCccc-ccCcCCCHHHHHHHHHHHHHHHHHHHhhhccccccccCCCCHHHHHHHHHHHHHHHHHHHHHhcCCCCchHH
Confidence 8999997 999999 88886432 123579999999999999999999999999 999999
Q ss_pred HHHHHHHHHHhhcCccccchhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHhhccCCCCCCCCchHHHHHHHHHHHHHHH
Q psy11273 63 NTAIVYMHRFYVFHSFTQFHRNSIATAALFLAAKVEEQPRKLEHVIRVAQLCLFKNQPPLDPRSEAYQEQAQEIVVNENV 142 (730)
Q Consensus 63 aTAivyFhRFysrkSi~~~d~qLVAAACLFLAcKvEEtprkLrDII~Va~~~l~r~~~~lD~~se~y~~~reeIL~mEr~ 142 (730)
+||++||||||+++|+..+++++|++||||||||+||+++++++++..... .+..++++|+.+|+.
T Consensus 80 aTAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE~~~si~~fv~~~~~--------------~~~~~~~~Il~~E~~ 145 (305)
T TIGR00569 80 GTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLKE--------------TPLKALEQVLEYELL 145 (305)
T ss_pred HHHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhccccCcCHHHHHhhccC--------------CchhhHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999988763211 122457899999999
Q ss_pred HHHHcCCccccCChHHHHHHHHHHhc-------CCHHHHHHHHHHHHccccccccccCCcHHHHHHHHHHHHHHHcCCCC
Q psy11273 143 LLQTLGFDVGIEHPHTYVVKCCHLVR-------ASKDLAQTSYFMASNSLHLTTMCLQYRSTVVACFCIHLACKWANWEI 215 (730)
Q Consensus 143 ILqaL~FDL~V~~P~~FL~rflk~L~-------~skeL~qlA~~ILnDSL~lT~LcL~y~PS~IAAAAIyLAakllgi~i 215 (730)
||++|+|+|.+.|||.+|..|+..+. ....+.+.||.+++|++ +|++||.|+|++||+||||+|++.+|+++
T Consensus 146 lL~~L~F~L~V~hPyr~L~~~l~dl~~~l~~~~~~~~l~q~a~~~lndsl-~Td~~L~y~Ps~IAlAAI~lA~~~~~~~l 224 (305)
T TIGR00569 146 LIQQLNFHLIVHNPYRPLEGFLIDIKTRLPGLENPEYLRKHADKFLNRTL-LTDAYLLYTPSQIALAAILHTASRAGLNM 224 (305)
T ss_pred HHHHCCCcEEeeCccHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHH-cCCceecCCHHHHHHHHHHHHHHHhCCCC
Confidence 99999999999999999999986543 23568999999999976 79999999999999999999999999988
Q ss_pred CCCCCCCcccccccCCCCHHH---HHHHHHHHHHHHhcCCh
Q psy11273 216 PQSNEGRKWFWYIDKEVTQEQ---LEQLTEEFLAIFDKCPS 253 (730)
Q Consensus 216 P~~~eg~~Ww~~fd~~VT~Eq---LeeIi~EIL~LYe~~ps 253 (730)
|... | +.++..-+.+. |.+.++++..+....+.
T Consensus 225 ~~~~----~-e~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~ 260 (305)
T TIGR00569 225 ESYL----T-EQLSVPGNREELPQLIDIMRELRILVKKYEE 260 (305)
T ss_pred cccc----h-hhhcccccHHHHHHHHHHHHHHHHHHHcCCC
Confidence 7532 3 45544223343 44444555555444433
No 4
>KOG0835|consensus
Probab=100.00 E-value=2.2e-35 Score=308.69 Aligned_cols=224 Identities=26% Similarity=0.476 Sum_probs=201.9
Q ss_pred HHhcCCCccCCCCHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccchhhHHHHHHHHHHhhhcCC
Q psy11273 21 QLENTPSRKCGYDAEKELSCRQQAANLIQDMGQRLQVTQLCINTAIVYMHRFYVFHSFTQFHRNSIATAALFLAAKVEEQ 100 (730)
Q Consensus 21 QLe~TPSrrdGIs~e~El~lR~~avd~I~eVg~~LkLPq~TlaTAivyFhRFysrkSi~~~d~qLVAAACLFLAcKvEEt 100 (730)
.|..+|+..||++.+.|..+|.-+|.||++.|..|+|++.+.+|++++|+|||...++..+++.+|++|||+||+|+||.
T Consensus 3 ~i~~~~s~qd~l~~e~e~el~~LG~e~Iqea~ILL~L~q~a~atgqVLFqRf~~~ks~v~~~~e~vv~ACv~LASKiEE~ 82 (367)
T KOG0835|consen 3 KIDSTPSLQDGLSLETEEELRILGCELIQEAGILLNLPQVAMATGQVLFQRFCYSKSFVRHDFEIVVMACVLLASKIEEE 82 (367)
T ss_pred cccCchhhhcccccchHHHHHHHhHHHHHhhhHhhcCcHHHHHHHHHHHHHHHhccccccccHHHHHHHHHHHHhhhccc
Confidence 45678899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHhhcc---CCCCCCCCchHHHHHHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHhcCC--HHHHH
Q psy11273 101 PRKLEHVIRVAQLCLFK---NQPPLDPRSEAYQEQAQEIVVNENVLLQTLGFDVGIEHPHTYVVKCCHLVRAS--KDLAQ 175 (730)
Q Consensus 101 prkLrDII~Va~~~l~r---~~~~lD~~se~y~~~reeIL~mEr~ILqaL~FDL~V~~P~~FL~rflk~L~~s--keL~q 175 (730)
|++++||++|++.+-.. .....+.....|...+..++.+|+.||++|||+++|.|||.++..|++.|+.. ..+.|
T Consensus 83 Prr~rdVinVFh~L~~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~~~~~~~l~Q 162 (367)
T KOG0835|consen 83 PRRIRDVINVFHYLEQRRESEAAEHLILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQLPPNLKLLQ 162 (367)
T ss_pred cccHhHHHHHHHHHHHHHhccCcchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhcCCCchhHHH
Confidence 99999999998764332 12233344567778889999999999999999999999999999999999874 45799
Q ss_pred HHHHHHHccccccccccCCcHHHHHHHHHHHHHHHcCCCCCCCCCCCcccccccCCCCHHHHHHHHHHHHHHHhc
Q psy11273 176 TSYFMASNSLHLTTMCLQYRSTVVACFCIHLACKWANWEIPQSNEGRKWFWYIDKEVTQEQLEQLTEEFLAIFDK 250 (730)
Q Consensus 176 lA~~ILnDSL~lT~LcL~y~PS~IAAAAIyLAakllgi~iP~~~eg~~Ww~~fd~~VT~EqLeeIi~EIL~LYe~ 250 (730)
.+|+|+||++ .|++|+.|+|..|||||||||++.+++.+|..+ .||.+|+ .+.++|+++|-.++.+|..
T Consensus 163 ~~wNfmNDsl-RT~v~vry~pe~iACaciyLaAR~~eIpLp~~P---~Wf~~Fd--~~k~eid~ic~~l~~lY~~ 231 (367)
T KOG0835|consen 163 AAWNFMNDSL-RTDVFVRYSPESIACACIYLAARNLEIPLPFQP---HWFKAFD--TTKREIDEICYRLIPLYKR 231 (367)
T ss_pred HHHHhhhhcc-ccceeeecCHHHHHHHHHHHHHhhhcCCCCCCc---cHHHHcC--CcHHHHHHHHHHHHHHHHh
Confidence 9999999987 799999999999999999999999998877543 7998886 5789999999999999986
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=99.95 E-value=1.1e-27 Score=250.59 Aligned_cols=174 Identities=29% Similarity=0.420 Sum_probs=153.1
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccchhhHHHHHHHHHHhhhcCCCCCHHHHHHHH
Q psy11273 32 YDAEKELSCRQQAANLIQDMGQRLQVTQLCINTAIVYMHRFYVFHSFTQFHRNSIATAALFLAAKVEEQPRKLEHVIRVA 111 (730)
Q Consensus 32 Is~e~El~lR~~avd~I~eVg~~LkLPq~TlaTAivyFhRFysrkSi~~~d~qLVAAACLFLAcKvEEtprkLrDII~Va 111 (730)
+..+.|..+|.+++.||+.+|.+|+||+.+++||+.||+||+.++++++++++.|++||||||||+||+++-+.-....+
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~~~~~ 115 (297)
T COG5333 36 LTLEKELNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVEDTPRDISIESFEA 115 (297)
T ss_pred cchhhhhhHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhhcccccccHHHHHHhheeeeeecccccchhhHHHHHh
Confidence 67799999999999999999999999999999999999999999999999999999999999999999865544333222
Q ss_pred HHhhccCCCCCCCCchHHHHHHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHhcCC--HHHHHHHHHHHHccccccc
Q psy11273 112 QLCLFKNQPPLDPRSEAYQEQAQEIVVNENVLLQTLGFDVGIEHPHTYVVKCCHLVRAS--KDLAQTSYFMASNSLHLTT 189 (730)
Q Consensus 112 ~~~l~r~~~~lD~~se~y~~~reeIL~mEr~ILqaL~FDL~V~~P~~FL~rflk~L~~s--keL~qlA~~ILnDSL~lT~ 189 (730)
+. ..++..+.+++.|+.+|+.||++|+||+.|+|||.++..|+..+... .++.+.||.+++|++ .++
T Consensus 116 ~~----------~~se~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~~q~~~~~~~~~~aw~~inDa~-~t~ 184 (297)
T COG5333 116 RD----------LWSEEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDKYKLLQIAWKIINDAL-RTD 184 (297)
T ss_pred hc----------cccccccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHHHHhccHHHHHHHHHHHHHhhh-hce
Confidence 21 12345566789999999999999999999999999999999987653 369999999999986 799
Q ss_pred cccCCcHHHHHHHHHHHHHHHcCCCCC
Q psy11273 190 MCLQYRSTVVACFCIHLACKWANWEIP 216 (730)
Q Consensus 190 LcL~y~PS~IAAAAIyLAakllgi~iP 216 (730)
+|+.|+|+.||+|||++|+..+|.+++
T Consensus 185 ~~llypphiIA~a~l~ia~~~~~~~~~ 211 (297)
T COG5333 185 LCLLYPPHIIALAALLIACEVLGMPII 211 (297)
T ss_pred eeeecChHHHHHHHHHHHHHhcCCccc
Confidence 999999999999999999999886543
No 6
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.86 E-value=1e-20 Score=200.89 Aligned_cols=182 Identities=16% Similarity=0.132 Sum_probs=156.3
Q ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccchhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHhhccCCCC
Q psy11273 42 QQAANLIQDMGQRLQVTQLCINTAIVYMHRFYVFHSFTQFHRNSIATAALFLAAKVEEQPRKLEHVIRVAQLCLFKNQPP 121 (730)
Q Consensus 42 ~~avd~I~eVg~~LkLPq~TlaTAivyFhRFysrkSi~~~d~qLVAAACLFLAcKvEEtprkLrDII~Va~~~l~r~~~~ 121 (730)
..++..|.++|..|+||..+..+|..||++++..+.+++.....+++||||+|||.++.|+.++||..+++.
T Consensus 123 ~~a~~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~~~rgrs~~~i~AAclYiACR~~~~prtl~eI~~~~~v-------- 194 (310)
T PRK00423 123 AFALSELDRIASQLGLPRSVREEAAVIYRKAVEKGLIRGRSIEGVVAAALYAACRRCKVPRTLDEIAEVSRV-------- 194 (310)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHcCCCcCHHHHHHHhCC--------
Confidence 568899999999999999999999999999999999999999999999999999999999999999887643
Q ss_pred CCCCchHHHHHHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHhcCCHHHHHHHHHHHHccccccccccCCcHHHHHH
Q psy11273 122 LDPRSEAYQEQAQEIVVNENVLLQTLGFDVGIEHPHTYVVKCCHLVRASKDLAQTSYFMASNSLHLTTMCLQYRSTVVAC 201 (730)
Q Consensus 122 lD~~se~y~~~reeIL~mEr~ILqaL~FDL~V~~P~~FL~rflk~L~~skeL~qlA~~ILnDSL~lT~LcL~y~PS~IAA 201 (730)
.+.+|...++.|++.|++++...+|++||.+|+..|+++.++.+.|+.++.++. ..+++.+..|..||+
T Consensus 195 ----------~~k~i~~~~~~l~k~L~~~~~~~~p~~~i~r~~~~L~L~~~v~~~A~~i~~~a~-~~~l~~Gr~P~sIAA 263 (310)
T PRK00423 195 ----------SRKEIGRCYRFLLRELNLKLPPTDPIDYVPRFASELGLSGEVQKKAIEILQKAK-EKGLTSGKGPTGLAA 263 (310)
T ss_pred ----------CHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHH-hcCcccCCCHHHHHH
Confidence 134788889999999999999999999999999999999999999999997764 567888999999999
Q ss_pred HHHHHHHHHcCCCCCCCCCCCcccccccCCCCHHHHHHHHHHHHHHH
Q psy11273 202 FCIHLACKWANWEIPQSNEGRKWFWYIDKEVTQEQLEQLTEEFLAIF 248 (730)
Q Consensus 202 AAIyLAakllgi~iP~~~eg~~Ww~~fd~~VT~EqLeeIi~EIL~LY 248 (730)
||||+|++++|...++. +-. -..+|+...|.....+|+..+
T Consensus 264 AaIYlA~~~~g~~~t~k----eIa--~v~~Vs~~tI~~~ykel~~~l 304 (310)
T PRK00423 264 AAIYIASLLLGERRTQR----EVA--EVAGVTEVTVRNRYKELAEKL 304 (310)
T ss_pred HHHHHHHHHhCCCCCHH----HHH--HHcCCCHHHHHHHHHHHHHHh
Confidence 99999999998664321 111 123566666666666665543
No 7
>KOG2496|consensus
Probab=99.85 E-value=6.1e-22 Score=206.71 Aligned_cols=193 Identities=21% Similarity=0.291 Sum_probs=149.0
Q ss_pred CCCCCCCCCCcccCHHHHhcCCC----c------cCC---------CCHHHHHHHHHHHHHHHHHHHHHc--CCCHHHHH
Q psy11273 5 TTQGSHSPDRWYFTKEQLENTPS----R------KCG---------YDAEKELSCRQQAANLIQDMGQRL--QVTQLCIN 63 (730)
Q Consensus 5 Fw~SS~~~s~WLFT~EQLe~TPS----r------rdG---------Is~e~El~lR~~avd~I~eVg~~L--kLPq~Tla 63 (730)
|.+|||. +.|.||++||...+- + .+| +..+.|..+..+...-+.+.|..+ .||..|++
T Consensus 2 y~~Ssq~-r~W~fte~qL~e~r~~~N~k~i~~~ee~~~~~~~~e~~v~~~ee~tl~k~~E~~l~~f~~k~~p~lp~~Vv~ 80 (325)
T KOG2496|consen 2 YRTSSQY-RKWIFTEEQLAERRVDANQKAIQMLEEEAHNLDENEVFVLEAEELTLTKEEELSLVNFYSKFKPNLPTSVVS 80 (325)
T ss_pred CCcchhh-hcccccHHHHHHHHHHHHHHHHHHHHHhccCCCccchhccccccccccHHHHHHHHHHHHHhcCCCchHHHH
Confidence 7899997 999999999965321 1 011 223344455556666677777776 48999999
Q ss_pred HHHHHHHHHhhcCccccchhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHhhccCCCCCCCCchHHHHHHHHHHHHHHHH
Q psy11273 64 TAIVYMHRFYVFHSFTQFHRNSIATAALFLAAKVEEQPRKLEHVIRVAQLCLFKNQPPLDPRSEAYQEQAQEIVVNENVL 143 (730)
Q Consensus 64 TAivyFhRFysrkSi~~~d~qLVAAACLFLAcKvEEtprkLrDII~Va~~~l~r~~~~lD~~se~y~~~reeIL~mEr~I 143 (730)
||+.||+|||..++++++++..|++||+|||||++|..+.+.+|+.-.. . .-+...+.|+..|..+
T Consensus 81 TA~~fFkRffL~nsvme~~pk~I~~tc~flA~Kieef~ISieqFvkn~~---~-----------~~~k~~e~vLk~E~~l 146 (325)
T KOG2496|consen 81 TAIEFFKRFFLENSVMEYSPKIIMATCFFLACKIEEFYISIEQFVKNMN---G-----------RKWKTHEIVLKYEFLL 146 (325)
T ss_pred HHHHHHHHHHHhcchhhcChHHHHHHHHHHHhhhHhheecHHHHHhhcc---C-----------cccccHHHHHhchHHH
Confidence 9999999999999999999999999999999999999999999976432 1 0123567899999999
Q ss_pred HHHcCCccccCChHHHHHHHHHHhcC------CHH-HHHHH--HHHHHccccccccccCCcHHHHHHHHHHHHHHHcCC
Q psy11273 144 LQTLGFDVGIEHPHTYVVKCCHLVRA------SKD-LAQTS--YFMASNSLHLTTMCLQYRSTVVACFCIHLACKWANW 213 (730)
Q Consensus 144 LqaL~FDL~V~~P~~FL~rflk~L~~------ske-L~qlA--~~ILnDSL~lT~LcL~y~PS~IAAAAIyLAakllgi 213 (730)
|+.|+|+|.+++||+-|..|+..+.. +.+ +.+.. ..+++..+ ++++++.|+|++||+|||..|+-..|.
T Consensus 147 lqsL~f~L~vh~PyRPleGFl~D~kt~l~~~~n~d~~~~~~d~~~fl~~~l-ltDa~lLytPsQIALaAil~a~~~~~~ 224 (325)
T KOG2496|consen 147 LQSLKFSLTVHNPYRPLEGFLLDMKTRLPALENPDILRKHDDSKKFLDRAL-LTDAYLLYTPSQIALAAILHAAGRTGE 224 (325)
T ss_pred HHhhhhhheecCCCCchHHHHHHHHHHHHhccCHHHHhhhhhHHHHHHHHH-HhccceecChHHHHHHHHHHHhccccc
Confidence 99999999999999999999865432 222 22222 36666665 699999999999999999766655553
No 8
>KOG0656|consensus
Probab=99.84 E-value=2.8e-20 Score=198.68 Aligned_cols=160 Identities=19% Similarity=0.195 Sum_probs=131.2
Q ss_pred HHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccch---hhHHHHHHHHHHhhhcCCCC-CHHHHHHHH
Q psy11273 36 KELSCRQQAANLIQDMGQRLQVTQLCINTAIVYMHRFYVFHSFTQFH---RNSIATAALFLAAKVEEQPR-KLEHVIRVA 111 (730)
Q Consensus 36 ~El~lR~~avd~I~eVg~~LkLPq~TlaTAivyFhRFysrkSi~~~d---~qLVAAACLFLAcKvEEtpr-kLrDII~Va 111 (730)
.-..+|.++++||.++|..+++...|..+|++|||||+..+.+.+.+ .|++|+|||+||+|+||+.+ .+-|+....
T Consensus 73 ~~~~~R~~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~ 152 (335)
T KOG0656|consen 73 ILSSMRKQALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVACLSLASKMEETDVPLLADLQVEY 152 (335)
T ss_pred cccHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCCchHHHHHHHHHHHHHHHhhcCcCCchhhhhhhcc
Confidence 33456999999999999999999999999999999999999999888 99999999999999999753 333443211
Q ss_pred HHhhccCCCCCCCCchHHHHHHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHhcCC----HHHHHHHHHHHHccccc
Q psy11273 112 QLCLFKNQPPLDPRSEAYQEQAQEIVVNENVLLQTLGFDVGIEHPHTYVVKCCHLVRAS----KDLAQTSYFMASNSLHL 187 (730)
Q Consensus 112 ~~~l~r~~~~lD~~se~y~~~reeIL~mEr~ILqaL~FDL~V~~P~~FL~rflk~L~~s----keL~qlA~~ILnDSL~l 187 (730)
.+|....+.|.+||..||.+|+|+++..+|+.|+..|+.+++.. ..+...|..++.... .
T Consensus 153 ---------------~~~~feaktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~ki~~~~~~~~~~~~~~s~~ll~~~-~ 216 (335)
T KOG0656|consen 153 ---------------TDNVFEAKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSKISQKDHNKHLFLKHASLFLLSVI-T 216 (335)
T ss_pred ---------------ccccccHHHHHHHHHHHHhhccccccCCCchHHHHHHHHHcCcccchHHHHHHHHHHHHHHHh-h
Confidence 13445678999999999999999999999999999999998762 345566666654432 3
Q ss_pred cccccCCcHHHHHHHHHHHHHHHc
Q psy11273 188 TTMCLQYRSTVVACFCIHLACKWA 211 (730)
Q Consensus 188 T~LcL~y~PS~IAAAAIyLAakll 211 (730)
..-++.|.|++||+|++.++....
T Consensus 217 d~~Fl~y~pSviAaa~~~~v~~~~ 240 (335)
T KOG0656|consen 217 DIKFLEYPPSVIAAAAILSVSASV 240 (335)
T ss_pred hhhhhcCChHHHHHHHHHHHHHhh
Confidence 455899999999999997776654
No 9
>KOG0653|consensus
Probab=99.77 E-value=2.9e-18 Score=187.43 Aligned_cols=184 Identities=15% Similarity=0.175 Sum_probs=152.1
Q ss_pred HHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccchhhHHHHHHHH-HHhhhcCCCCC-HHHHHHHHHHhhc
Q psy11273 39 SCRQQAANLIQDMGQRLQVTQLCINTAIVYMHRFYVFHSFTQFHRNSIATAALF-LAAKVEEQPRK-LEHVIRVAQLCLF 116 (730)
Q Consensus 39 ~lR~~avd~I~eVg~~LkLPq~TlaTAivyFhRFysrkSi~~~d~qLVAAACLF-LAcKvEEtprk-LrDII~Va~~~l~ 116 (730)
.+|...++||.+++..|+|..+|+++|++++|||+....+...++++|+++||| ||||+||.... +.|++.+++.
T Consensus 156 ~mR~iLvdwlvevh~~F~L~~ETL~LaVnliDRfL~~~~v~~~~lqLvgvsalf~IA~K~EE~~~P~v~dlv~isd~--- 232 (391)
T KOG0653|consen 156 KMRAILVDWLVEVHEKFGLSPETLYLAVNLIDRFLSKVKVPLKKLQLVGVSALLSIACKYEEISLPSVEDLVLITDG--- 232 (391)
T ss_pred HHHHHHHHHHHHhhhhcCcCHHHHHHHHHHHHHHHHHhcccHHHhhHHhHHHHHHHHHhhhhccCCccceeEeeeCC---
Confidence 689999999999999999999999999999999999988999999999999977 99999995433 5666544332
Q ss_pred cCCCCCCCCchHHHHHHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHhcCCHHHHHHHHHHHHccccccccccCCcH
Q psy11273 117 KNQPPLDPRSEAYQEQAQEIVVNENVLLQTLGFDVGIEHPHTYVVKCCHLVRASKDLAQTSYFMASNSLHLTTMCLQYRS 196 (730)
Q Consensus 117 r~~~~lD~~se~y~~~reeIL~mEr~ILqaL~FDL~V~~P~~FL~rflk~L~~skeL~qlA~~ILnDSL~lT~LcL~y~P 196 (730)
.+++++|+.||..||.+|+|++.+++|+.||.+|.+....+.....++.+++...+ ++.-++.+.|
T Consensus 233 -------------~~s~~~il~mE~~il~~L~f~l~~p~~~~FLrr~~ka~~~d~~~~~~~k~~~El~l-~d~~~~~~~~ 298 (391)
T KOG0653|consen 233 -------------AYSREEILRMEKYILNVLEFDLSVPTPLSFLRRFLKAADYDIKTRTLVKYLLELSL-CDYSMLSIPP 298 (391)
T ss_pred -------------ccchHHHHHHHHHHHhccCeeecCCchHHHHHHHHHhhhcchhHHHHHHHHHHHHH-hhhHHhccCc
Confidence 24678999999999999999999999999999999998877777778888876655 4566789999
Q ss_pred HHHHHHHHHHHHHHcCCCCCCCCCCCccccc--ccCCCCHHHHHHHHHHHHH
Q psy11273 197 TVVACFCIHLACKWANWEIPQSNEGRKWFWY--IDKEVTQEQLEQLTEEFLA 246 (730)
Q Consensus 197 S~IAAAAIyLAakllgi~iP~~~eg~~Ww~~--fd~~VT~EqLeeIi~EIL~ 246 (730)
+.+|+|+.++|..+.+.. ..|... +..+.....+..|...+..
T Consensus 299 s~~aaa~~~~~~~~~~~~-------~~w~~~~~~~sg~~~~~~~~~~~~~~~ 343 (391)
T KOG0653|consen 299 SSSAAASFTLALRMLSKG-------DVWSPTLEHYSGYSESYLFECARSLSA 343 (391)
T ss_pred HHHHHHHHHHHHHHhccC-------CccCCCCeeccCCCcHHHHHHHHHHHH
Confidence 999999999999998643 136432 4555555566666666666
No 10
>KOG0655|consensus
Probab=99.72 E-value=2.8e-17 Score=173.52 Aligned_cols=157 Identities=15% Similarity=0.222 Sum_probs=127.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhc-CccccchhhHHHHHHHHHHhhhcC-CCCCHHHHHHHHH
Q psy11273 35 EKELSCRQQAANLIQDMGQRLQVTQLCINTAIVYMHRFYVF-HSFTQFHRNSIATAALFLAAKVEE-QPRKLEHVIRVAQ 112 (730)
Q Consensus 35 e~El~lR~~avd~I~eVg~~LkLPq~TlaTAivyFhRFysr-kSi~~~d~qLVAAACLFLAcKvEE-tprkLrDII~Va~ 112 (730)
..+.++|+.+.+|+.++|.-++|..+|+++|+-||+||+.. ..+.+..+|+||+||||+|+|+|| .|.++.++..|+.
T Consensus 139 dlqp~mRaILlDWlmEVCEvykLHRETFyLAvDy~DRyl~t~~~v~kt~lQLIGitsLFIAAK~EEIYpPKl~eFAyvTD 218 (408)
T KOG0655|consen 139 DLQPQMRAILLDWLMEVCEVYKLHRETFYLAVDYFDRYLETQVEVSKTNLQLIGITSLFIAAKLEEIYPPKLIEFAYVTD 218 (408)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhhhhHHHhhHHHHHHHHHHhhccCccccceeeecc
Confidence 34557999999999999999999999999999999999965 566788999999999999999999 5778887766543
Q ss_pred HhhccCCCCCCCCchHHHHHHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHhcCC------------HHHHHHHHHH
Q psy11273 113 LCLFKNQPPLDPRSEAYQEQAQEIVVNENVLLQTLGFDVGIEHPHTYVVKCCHLVRAS------------KDLAQTSYFM 180 (730)
Q Consensus 113 ~~l~r~~~~lD~~se~y~~~reeIL~mEr~ILqaL~FDL~V~~P~~FL~rflk~L~~s------------keL~qlA~~I 180 (730)
..+ +-++|+.||..||++|+|+|...+-..+|.-|++....+ .++.|.|.-+
T Consensus 219 gAc----------------s~ddIltmE~iilkal~W~l~PiTii~WL~vylQv~~~n~~~k~l~Pq~~~~efiqiaqlL 282 (408)
T KOG0655|consen 219 GAC----------------SEDDILTMELIILKALKWELSPITIISWLNVYLQVDALNDAPKVLLPQYSQEEFIQIAQLL 282 (408)
T ss_pred Ccc----------------chHHHHHHHHHHHHHhcccccceehHHHHHHHHHHHhcCCCCceeccccchHHHHHHHHHH
Confidence 221 246899999999999999999999999999999875432 3456666433
Q ss_pred HHccccccccccCCcHHHHHHHHHHHHHH
Q psy11273 181 ASNSLHLTTMCLQYRSTVVACFCIHLACK 209 (730)
Q Consensus 181 LnDSL~lT~LcL~y~PS~IAAAAIyLAak 209 (730)
|.+.+.--++.|+...||||||+.-..
T Consensus 283 --Dlc~ldids~~fsYrilaAAal~h~~s 309 (408)
T KOG0655|consen 283 --DLCILDIDSLEFSYRILAAAALCHFTS 309 (408)
T ss_pred --HHHHhccccccchHHHHHHHHHHHHhH
Confidence 322234457899999999999986543
No 11
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=99.71 E-value=9.9e-17 Score=176.92 Aligned_cols=189 Identities=16% Similarity=0.173 Sum_probs=152.7
Q ss_pred HHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccchhhHHHHHHHHHHhhhcCCCC-CHHHHHHHHHHhhc
Q psy11273 38 LSCRQQAANLIQDMGQRLQVTQLCINTAIVYMHRFYVFHSFTQFHRNSIATAALFLAAKVEEQPR-KLEHVIRVAQLCLF 116 (730)
Q Consensus 38 l~lR~~avd~I~eVg~~LkLPq~TlaTAivyFhRFysrkSi~~~d~qLVAAACLFLAcKvEEtpr-kLrDII~Va~~~l~ 116 (730)
..+|..+++||.++...|+|-.+|+++|+++++||+....+.-..+++||++|||||||+||... .+.+++.++...
T Consensus 210 ~~mR~~Lv~wlvevH~~F~llpeTL~lainiiDrfLs~~~v~l~k~QLvg~s~LfIa~K~EE~~~p~i~~l~~~t~g~-- 287 (440)
T COG5024 210 WSMRSILVDWLVEVHGKFGLLPETLFLAINIIDRFLSSRVVSLEKYQLVGISALFIASKYEEVNCPSIKDLVYATDGA-- 287 (440)
T ss_pred HhHHHHHHHHHHHhcccccccchHHHHHHHHHHHHhccCcccHHHHHHHHHHHHHHHHhHhHhcCHHHHHHHHHHccc--
Confidence 36899999999999999999999999999999999999999999999999999999999999644 455555544332
Q ss_pred cCCCCCCCCchHHHHHHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHhcCCHHHHHHHHHHHHccccccccccCCcH
Q psy11273 117 KNQPPLDPRSEAYQEQAQEIVVNENVLLQTLGFDVGIEHPHTYVVKCCHLVRASKDLAQTSYFMASNSLHLTTMCLQYRS 196 (730)
Q Consensus 117 r~~~~lD~~se~y~~~reeIL~mEr~ILqaL~FDL~V~~P~~FL~rflk~L~~skeL~qlA~~ILnDSL~lT~LcL~y~P 196 (730)
+.+++|+.+|+.+|..|+|++..+.|+-||+++....+.+-.....+.+++.-+. ...-++.+.|
T Consensus 288 --------------~t~~~i~~aE~~ml~~l~f~is~P~P~sFLRriSka~dyd~~srt~~k~~~e~s~-~~~~f~~~~~ 352 (440)
T COG5024 288 --------------FTRDDIIRAERYMLEVLDFNISWPSPMSFLRRISKASDYDIFSRTPAKFSSEISP-VDYKFIQISP 352 (440)
T ss_pred --------------ccHHHHHHHHHHHhhhcccccCCCChHHHHHHHHhhcccchhhhhhHhhhCCchH-hhhhhccCCc
Confidence 2478999999999999999999999999988887776665555556666654333 3455678889
Q ss_pred HHHHHHHHHHHHHHcCCCCCCCCCCCccccc--ccCC-CCHHHHHHHHHHHHHHHhcC
Q psy11273 197 TVVACFCIHLACKWANWEIPQSNEGRKWFWY--IDKE-VTQEQLEQLTEEFLAIFDKC 251 (730)
Q Consensus 197 S~IAAAAIyLAakllgi~iP~~~eg~~Ww~~--fd~~-VT~EqLeeIi~EIL~LYe~~ 251 (730)
+.+|+||.|+|..+++.. +|-.. ...+ ++.+++..++..+++.....
T Consensus 353 S~~~aaa~~~s~~~~~~~--------~w~~~l~~ySg~y~~~~l~~~~~~~~~~l~~~ 402 (440)
T COG5024 353 SWCAAAAMYLSRKILSQN--------QWDRTLIHYSGNYTNPDLKPLNESNKENLQNP 402 (440)
T ss_pred hHHHHHHHHHHHhhhccC--------CCCccccccCCCCCchhHHHHHHHHHHHhccc
Confidence 999999999999999742 25432 2333 77788888888888777643
No 12
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=99.65 E-value=4e-15 Score=157.10 Aligned_cols=153 Identities=14% Similarity=0.180 Sum_probs=140.7
Q ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccchhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHhhccCCCCC
Q psy11273 43 QAANLIQDMGQRLQVTQLCINTAIVYMHRFYVFHSFTQFHRNSIATAALFLAAKVEEQPRKLEHVIRVAQLCLFKNQPPL 122 (730)
Q Consensus 43 ~avd~I~eVg~~LkLPq~TlaTAivyFhRFysrkSi~~~d~qLVAAACLFLAcKvEEtprkLrDII~Va~~~l~r~~~~l 122 (730)
.+...|..+|..|+||..+..+|+.+|.+.+....+++...+-+++||||+||+.++.|+.+.+|..+..+
T Consensus 99 ~a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~rGRsie~v~AA~iY~acR~~~~prtl~eIa~a~~V--------- 169 (285)
T COG1405 99 TALEELERIASALGLPESVRETAARIYRKAVDKGLLRGRSIESVAAACIYAACRINGVPRTLDEIAKALGV--------- 169 (285)
T ss_pred HHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcCCcHHHHHHHHHHHHHHHcCCCccHHHHHHHHCC---------
Confidence 67889999999999999999999999999999999999999999999999999999999999999987653
Q ss_pred CCCchHHHHHHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHhcCCHHHHHHHHHHHHccccccccccCCcHHHHHHH
Q psy11273 123 DPRSEAYQEQAQEIVVNENVLLQTLGFDVGIEHPHTYVVKCCHLVRASKDLAQTSYFMASNSLHLTTMCLQYRSTVVACF 202 (730)
Q Consensus 123 D~~se~y~~~reeIL~mEr~ILqaL~FDL~V~~P~~FL~rflk~L~~skeL~qlA~~ILnDSL~lT~LcL~y~PS~IAAA 202 (730)
.+.+|..+.+.+.+.|+-.+....|..|+.+|+..|+++.++...|..++..+ ....+..+..|..||+|
T Consensus 170 ---------~~kei~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~L~l~~~v~~~a~ei~~~~-~~~g~~~Gk~P~glAaa 239 (285)
T COG1405 170 ---------SKKEIGRTYRLLVRELKLKIPPVDPSDYIPRFASKLGLSDEVRRKAIEIVKKA-KRAGLTAGKSPAGLAAA 239 (285)
T ss_pred ---------CHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHH-HHhCcccCCCchhHHHH
Confidence 13578888999999999999999999999999999999999999999998665 45677789999999999
Q ss_pred HHHHHHHHcCCC
Q psy11273 203 CIHLACKWANWE 214 (730)
Q Consensus 203 AIyLAakllgi~ 214 (730)
|||+|+.++|+.
T Consensus 240 aiy~as~l~~~~ 251 (285)
T COG1405 240 AIYLASLLLGER 251 (285)
T ss_pred HHHHHHHHhCCc
Confidence 999999999844
No 13
>KOG1598|consensus
Probab=99.64 E-value=3.8e-16 Score=173.58 Aligned_cols=193 Identities=17% Similarity=0.225 Sum_probs=160.6
Q ss_pred HHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccchhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHhhccC
Q psy11273 39 SCRQQAANLIQDMGQRLQVTQLCINTAIVYMHRFYVFHSFTQFHRNSIATAALFLAAKVEEQPRKLEHVIRVAQLCLFKN 118 (730)
Q Consensus 39 ~lR~~avd~I~eVg~~LkLPq~TlaTAivyFhRFysrkSi~~~d~qLVAAACLFLAcKvEEtprkLrDII~Va~~~l~r~ 118 (730)
..-..+-..|.+++..|+|+. ++.+|++||.....++..+++...+|.++|||++|+.|.+...+-|+..+..+.++
T Consensus 65 ~t~~n~r~~i~~~~~~l~l~~-~~~~a~~~~k~a~~~nftkGr~~~~vvasClY~vcR~e~t~hlliDfS~~Lqv~Vy-- 141 (521)
T KOG1598|consen 65 KTIYNARRLIEELTERLNLGN-KTEVAFNFFKLAPDRNFTKGRRSTEVVAACLYLVCRLEKTDHLLIDFSSYLQVSVY-- 141 (521)
T ss_pred HHHHHHHhHHHHHHHhcCcch-HHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHhhCCceEEEEeccceEEehh--
Confidence 334456679999999999999 99999999999999999999999999999999999999999888887765432222
Q ss_pred CCCCCCCchHHHHHHHHHHHHHHHHHHHcCCc---cccCChHHHHHHHHHHhcC---CHHHHHHHHHHHHcccccccccc
Q psy11273 119 QPPLDPRSEAYQEQAQEIVVNENVLLQTLGFD---VGIEHPHTYVVKCCHLVRA---SKDLAQTSYFMASNSLHLTTMCL 192 (730)
Q Consensus 119 ~~~lD~~se~y~~~reeIL~mEr~ILqaL~FD---L~V~~P~~FL~rflk~L~~---skeL~qlA~~ILnDSL~lT~LcL 192 (730)
++-.+=+.|...|..+ +...+|.-|+.+|...|.+ +++++.+|.+++.- +.++|+..
T Consensus 142 ----------------~LG~~~l~l~~~L~i~en~~plvDpsL~i~Rfa~~L~~g~~~~~Vv~~a~~L~~r-Mkrdwm~t 204 (521)
T KOG1598|consen 142 ----------------DLGSNFLEVTDSLSIGENVSPLVDPSLYIVRFSCRLLFGDKTEDVAKTATRLAQR-MKRDWMQT 204 (521)
T ss_pred ----------------hhhHHHHHHHHHhccccccccccCcceeeechhHhhhcCCchHHHHHHHHHHHHH-HHHHHHHh
Confidence 1112223566777777 7778999999999988754 46799999999854 56899999
Q ss_pred CCcHHHHHHHHHHHHHHHcCCCCCCCCCCCcccccccCCCCHHHHHHHHHHHHHHHhcCChhHHHHhhcccCCCCCcccc
Q psy11273 193 QYRSTVVACFCIHLACKWANWEIPQSNEGRKWFWYIDKEVTQEQLEQLTEEFLAIFDKCPSKLKKRICSISSNQNSTLMA 272 (730)
Q Consensus 193 ~y~PS~IAAAAIyLAakllgi~iP~~~eg~~Ww~~fd~~VT~EqLeeIi~EIL~LYe~~ps~Lrkrl~e~s~tqs~slts 272 (730)
+..|+.|+.|||++||+++|+.. + +.+|..+...|..++++||.+|+.|.+.++++
T Consensus 205 GRRPsglcGAaLliAar~h~~~r-----------------s-------i~dIv~vvhV~e~Tl~kRl~Ef~~T~s~~Lti 260 (521)
T KOG1598|consen 205 GRRPSGLCGAALLIAARMHGFRR-----------------T-------IGDIAKVVHVCESTLSKRLKEFSDTLSGDLTI 260 (521)
T ss_pred CCCccchhHHHHHHHHHHcCccc-----------------c-------HHHHHHHHHHhHHHHHHHHHHHhccccccccH
Confidence 99999999999999999998531 2 45677788899999999999999999999999
Q ss_pred -ccc
Q psy11273 273 -AFD 275 (730)
Q Consensus 273 -eF~ 275 (730)
+|.
T Consensus 261 ~ef~ 264 (521)
T KOG1598|consen 261 DELA 264 (521)
T ss_pred HHHH
Confidence 887
No 14
>KOG1597|consensus
Probab=99.60 E-value=1.6e-14 Score=151.29 Aligned_cols=178 Identities=15% Similarity=0.148 Sum_probs=144.8
Q ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccchhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHhhccCCCC
Q psy11273 42 QQAANLIQDMGQRLQVTQLCINTAIVYMHRFYVFHSFTQFHRNSIATAALFLAAKVEEQPRKLEHVIRVAQLCLFKNQPP 121 (730)
Q Consensus 42 ~~avd~I~eVg~~LkLPq~TlaTAivyFhRFysrkSi~~~d~qLVAAACLFLAcKvEEtprkLrDII~Va~~~l~r~~~~ 121 (730)
..++..|..+|+.++|+..+..+|..+|++|...+..++.....+++||||+||+-++.||.+++|..++++
T Consensus 105 ~~a~~~I~~m~d~~~Lp~~I~d~A~~ifk~v~~~k~lrGks~eai~AAclyiACRq~~~pRT~kEI~~~anv-------- 176 (308)
T KOG1597|consen 105 KAAFKEITAMCDRLSLPATIKDRANEIFKLVEDSKLLRGKSVEALAAACLYIACRQEDVPRTFKEISAVANV-------- 176 (308)
T ss_pred HHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhhhhcCccHHHHHHHHHHHHHHhcCCCchHHHHHHHHcC--------
Confidence 367899999999999999999999999999999999999999999999999999999999999999998873
Q ss_pred CCCCchHHHHHHHHHHHHHHHHHHHcCCccccC--ChHHHHHHHHHHhcCCHHHHHHHHHHHHccccccccccCCcHHHH
Q psy11273 122 LDPRSEAYQEQAQEIVVNENVLLQTLGFDVGIE--HPHTYVVKCCHLVRASKDLAQTSYFMASNSLHLTTMCLQYRSTVV 199 (730)
Q Consensus 122 lD~~se~y~~~reeIL~mEr~ILqaL~FDL~V~--~P~~FL~rflk~L~~skeL~qlA~~ILnDSL~lT~LcL~y~PS~I 199 (730)
.+.+|-++=..|++.|+-++... +.-+|+.|||..|+++++++..|..++.-+- .-+++-+.+|-.|
T Consensus 177 ----------~kKEIgr~~K~i~~~l~~s~~~~s~~t~~~m~RFCs~L~L~~~~q~aA~e~a~ka~-~~~~~~gRsPiSI 245 (308)
T KOG1597|consen 177 ----------SKKEIGRCVKLIGEALETSVDLISISTGDFMPRFCSNLGLPKSAQEAATEIAEKAE-EMDIRAGRSPISI 245 (308)
T ss_pred ----------CHHHHHHHHHHHHHHHhccchhhhhhHHHHHHHHHHhcCCCHHHHHHHHHHHHHHH-HhccccCCCchhH
Confidence 13455556667888887766554 4889999999999999999999998885532 2345567999999
Q ss_pred HHHHHHHHHHHcCCCCCCCCCCCcccccccCCCCHHHHHHHHHHH
Q psy11273 200 ACFCIHLACKWANWEIPQSNEGRKWFWYIDKEVTQEQLEQLTEEF 244 (730)
Q Consensus 200 AAAAIyLAakllgi~iP~~~eg~~Ww~~fd~~VT~EqLeeIi~EI 244 (730)
|||+|||++.+.+...++.. .- .-.+|++..|+..+.+|
T Consensus 246 AAa~IYmisqls~~kkt~ke----I~--~vtgVaE~TIr~sYK~L 284 (308)
T KOG1597|consen 246 AAAAIYMISQLSDEKKTQKE----IG--EVTGVAEVTIRNSYKDL 284 (308)
T ss_pred HHHHHHHHHHhccCcccHHH----HH--HHhhhhHHHHHHHHHHH
Confidence 99999999999875544321 10 23456777777666555
No 15
>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=99.60 E-value=4.4e-15 Score=135.08 Aligned_cols=102 Identities=29% Similarity=0.421 Sum_probs=84.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccchhhHHHHHHHHHHhhhcCC-CCCHHHHHHHHHH
Q psy11273 35 EKELSCRQQAANLIQDMGQRLQVTQLCINTAIVYMHRFYVFHSFTQFHRNSIATAALFLAAKVEEQ-PRKLEHVIRVAQL 113 (730)
Q Consensus 35 e~El~lR~~avd~I~eVg~~LkLPq~TlaTAivyFhRFysrkSi~~~d~qLVAAACLFLAcKvEEt-prkLrDII~Va~~ 113 (730)
+.....|..+++||.+++..++++..|+++|+.|||||+....+...+++++++||||||||++|. +..+.+++.++..
T Consensus 25 ~~~~~~r~~~~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K~~e~~~~~~~~~~~~~~~ 104 (127)
T PF00134_consen 25 EITPEMRQIIIDWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNRSKLQLIALACLFLASKMEEDNPPSISDLIRISDN 104 (127)
T ss_dssp SHHHHHHHHHHHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTCCGHHHHHHHHHHHHHHHHTSS--HHHHHHHHTTT
T ss_pred hcCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHhhcccccchhhhhhhhHHHHhhhhhccccchHHHHHHHHcC
Confidence 344578999999999999999999999999999999999999999999999999999999999997 5567777665421
Q ss_pred hhccCCCCCCCCchHHHHHHHHHHHHHHHHHHHcCCccc
Q psy11273 114 CLFKNQPPLDPRSEAYQEQAQEIVVNENVLLQTLGFDVG 152 (730)
Q Consensus 114 ~l~r~~~~lD~~se~y~~~reeIL~mEr~ILqaL~FDL~ 152 (730)
.+..++|+.||+.||++|+|+++
T Consensus 105 ----------------~~~~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 105 ----------------TFTKKDILEMEREILSALNFDLN 127 (127)
T ss_dssp ----------------SSHHHHHHHHHHHHHHHTTT---
T ss_pred ----------------CCCHHHHHHHHHHHHHHCCCCcC
Confidence 12478999999999999999985
No 16
>KOG0654|consensus
Probab=99.50 E-value=6.9e-14 Score=151.21 Aligned_cols=198 Identities=14% Similarity=0.209 Sum_probs=163.7
Q ss_pred HHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccchhhHHHHHHHHHHhhhcCC-CCCHHHHHHHHHHhhc
Q psy11273 38 LSCRQQAANLIQDMGQRLQVTQLCINTAIVYMHRFYVFHSFTQFHRNSIATAALFLAAKVEEQ-PRKLEHVIRVAQLCLF 116 (730)
Q Consensus 38 l~lR~~avd~I~eVg~~LkLPq~TlaTAivyFhRFysrkSi~~~d~qLVAAACLFLAcKvEEt-prkLrDII~Va~~~l~ 116 (730)
..+|..+++|..++++.+++..++++.+.++.+||+....+.....++++.+|.++|+|+||. +..+.+++..+.+
T Consensus 134 ~smrgilvdwlvevsee~r~~~e~l~ls~~~~drfl~~~~~~~~k~ql~g~s~m~I~sk~ee~~~~~~~ef~~itd~--- 210 (359)
T KOG0654|consen 134 PSMRGILVDWLVEVSEEYRLTFETLYLSVNYRDRFLSYKEVNKQKLQLVGISAMLIASKYEEIKEPRVEEFCYITDN--- 210 (359)
T ss_pred cchhhhhhhhhhHHHHHHHhhhhheeecHHHHHHHhccCccHHHHHHHhCcccceeeccchhhcchHHHHHHhhhhh---
Confidence 358999999999999999999999999999999999999999999999999999999999995 4567777665543
Q ss_pred cCCCCCCCCchHHHHHHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHhc-CCHHHHHHHHHHHHccccccccccCCc
Q psy11273 117 KNQPPLDPRSEAYQEQAQEIVVNENVLLQTLGFDVGIEHPHTYVVKCCHLVR-ASKDLAQTSYFMASNSLHLTTMCLQYR 195 (730)
Q Consensus 117 r~~~~lD~~se~y~~~reeIL~mEr~ILqaL~FDL~V~~P~~FL~rflk~L~-~skeL~qlA~~ILnDSL~lT~LcL~y~ 195 (730)
.+...+++.||..+|..|.|++..++...|+.+|+.... ...++..+|.++..-+++ ...++.|.
T Consensus 211 -------------ty~~~qv~~~~~~il~~l~~~~~~pt~~~~l~~~~~~~~~~~~~~e~~~~yl~elsll-~~~~l~y~ 276 (359)
T KOG0654|consen 211 -------------TYTYWQVLRMEIDILNALTFELVRPTSKTFLRRFLRVAQTPELQVEPLANYLTELSLL-DYIFLKYL 276 (359)
T ss_pred -------------hhHHHHHHHHHHHHHHHhHHHHhCchHHHHHHHHHHhhcchhHHHHHHHHHHHHhhhh-hHHHhccC
Confidence 235678999999999999999999999999999987654 456677888888766654 45599999
Q ss_pred HHHHHHHHHHHHHHHcCCCCCCCCCCCccccc--ccCCCCHHHHHHHHHHHHHHHhcC----ChhHHHHhhc
Q psy11273 196 STVVACFCIHLACKWANWEIPQSNEGRKWFWY--IDKEVTQEQLEQLTEEFLAIFDKC----PSKLKKRICS 261 (730)
Q Consensus 196 PS~IAAAAIyLAakllgi~iP~~~eg~~Ww~~--fd~~VT~EqLeeIi~EIL~LYe~~----ps~Lrkrl~e 261 (730)
||.||+||+++|...++ ..+|-.. -+.+++.+++..|+..|. +|-.. -..+|++|.+
T Consensus 277 PSliAasAv~lA~~~~~--------~~pW~~~L~~~T~y~~edl~~~v~~L~-~~l~~~~~~l~air~ky~~ 339 (359)
T KOG0654|consen 277 PSLIAASAVFLARLTLD--------FHPWNQTLEDYTGYKAEDLKPCVLDLH-LYLNASGTDLPAIREKYKQ 339 (359)
T ss_pred hHHHHHHHHHHHHhhcc--------CCCCchhhHHhhcccHHHHHHHHHHHh-cccCCCCCchHHHHHHhhh
Confidence 99999999999999886 3457544 367899999999999998 66532 2334555543
No 17
>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=99.33 E-value=5.9e-12 Score=104.98 Aligned_cols=87 Identities=29% Similarity=0.411 Sum_probs=77.2
Q ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccchhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHhhccCCC
Q psy11273 41 RQQAANLIQDMGQRLQVTQLCINTAIVYMHRFYVFHSFTQFHRNSIATAALFLAAKVEEQPRKLEHVIRVAQLCLFKNQP 120 (730)
Q Consensus 41 R~~avd~I~eVg~~LkLPq~TlaTAivyFhRFysrkSi~~~d~qLVAAACLFLAcKvEEtprkLrDII~Va~~~l~r~~~ 120 (730)
|..+++||.+++..++++..+..+|+.|++||+..+.+.+++++++|+||||||||+++.+..++++..++...
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~~~~~~~~~~~------ 75 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEIPPWLKDLVHVTGYA------ 75 (88)
T ss_pred cchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCCCCCHHHHhHHhCCC------
Confidence 45789999999999999999999999999999999999999999999999999999999988999887765321
Q ss_pred CCCCCchHHHHHHHHHHHHHHHHH
Q psy11273 121 PLDPRSEAYQEQAQEIVVNENVLL 144 (730)
Q Consensus 121 ~lD~~se~y~~~reeIL~mEr~IL 144 (730)
..++|..+|..||
T Consensus 76 -----------~~~~i~~~e~~il 88 (88)
T cd00043 76 -----------TEEEILRMEKLLL 88 (88)
T ss_pred -----------CHHHHHHHHHHhC
Confidence 3567888888764
No 18
>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=99.16 E-value=9e-11 Score=97.06 Aligned_cols=83 Identities=28% Similarity=0.412 Sum_probs=71.6
Q ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccchhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHhhccCCCCCCCC
Q psy11273 46 NLIQDMGQRLQVTQLCINTAIVYMHRFYVFHSFTQFHRNSIATAALFLAAKVEEQPRKLEHVIRVAQLCLFKNQPPLDPR 125 (730)
Q Consensus 46 d~I~eVg~~LkLPq~TlaTAivyFhRFysrkSi~~~d~qLVAAACLFLAcKvEEtprkLrDII~Va~~~l~r~~~~lD~~ 125 (730)
+||.+++..++++..+..+|..|++||+....+.++.++.+|+||||||||+++......++..++..
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~~~~~~~~~~------------ 68 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEIPPWTKELVHYTGY------------ 68 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcCCCCchhHhHhhCC------------
Confidence 48999999999999999999999999999777778999999999999999999988777777665422
Q ss_pred chHHHHHHHHHHHHHHHHHH
Q psy11273 126 SEAYQEQAQEIVVNENVLLQ 145 (730)
Q Consensus 126 se~y~~~reeIL~mEr~ILq 145 (730)
+..++|..+|+.||.
T Consensus 69 -----~~~~~i~~~~~~il~ 83 (83)
T smart00385 69 -----FTEEEILRMEKLLLE 83 (83)
T ss_pred -----CCHHHHHHHHHHHhC
Confidence 135689999998873
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=98.76 E-value=1.6e-08 Score=90.50 Aligned_cols=99 Identities=21% Similarity=0.287 Sum_probs=73.4
Q ss_pred CChHHHHHHHHHHhcCCHHHHHHHHHHHHccccccccccCCcHHHHHHHHHHHHHHHcCCCCCCCCCCCccccc--ccCC
Q psy11273 154 EHPHTYVVKCCHLVRASKDLAQTSYFMASNSLHLTTMCLQYRSTVVACFCIHLACKWANWEIPQSNEGRKWFWY--IDKE 231 (730)
Q Consensus 154 ~~P~~FL~rflk~L~~skeL~qlA~~ILnDSL~lT~LcL~y~PS~IAAAAIyLAakllgi~iP~~~eg~~Ww~~--fd~~ 231 (730)
++|+.||.+|++..+.+.++..+|++++..++ .+.-++.|+|+.||+|||++|...++.. ..|... ...+
T Consensus 1 PTp~~Fl~~~~~~~~~~~~~~~~a~~l~el~l-~~~~fl~~~PS~iAaAai~lA~~~~~~~-------~~~~~~l~~~t~ 72 (118)
T PF02984_consen 1 PTPYDFLRRFLKISNADQEVRNLARYLLELSL-LDYEFLQYPPSVIAAAAILLARKILGKE-------PPWPESLEKLTG 72 (118)
T ss_dssp --HHHHHHHHHTSSSHHHHHHHHHHHHHHHHH-HSHHHTTS-HHHHHHHHHHHHHHHHHSS-------TCSHHHHHHHHT
T ss_pred CcHHHHHHHHHHHcCCcHHHHHHHHHHHHHHH-hhccccCCCHHHHHHHHHHHHHHHhCcc-------ccCCccchhhcC
Confidence 57999999997765567789999999997766 4667999999999999999999998732 145432 2346
Q ss_pred CCHHHHHHHHHHHHHHHhcCC----hhHHHHhh
Q psy11273 232 VTQEQLEQLTEEFLAIFDKCP----SKLKKRIC 260 (730)
Q Consensus 232 VT~EqLeeIi~EIL~LYe~~p----s~Lrkrl~ 260 (730)
++.++|.+|+..|.+++.... ..+++++.
T Consensus 73 ~~~~~l~~c~~~i~~~~~~~~~~~~~ai~~Kys 105 (118)
T PF02984_consen 73 YDKEDLKECIELIQELLSKASNSKLQAIRKKYS 105 (118)
T ss_dssp S-HHHHHHHHHHHHHHHHHCCGSSCTHHHHHTT
T ss_pred CCHHHHHHHHHHHHHHHHhcCCccchHHHHHhC
Confidence 899999999999999997433 33444544
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=98.54 E-value=2.3e-07 Score=78.67 Aligned_cols=66 Identities=20% Similarity=0.243 Sum_probs=59.0
Q ss_pred HHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccchhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHH
Q psy11273 48 IQDMGQRLQVTQLCINTAIVYMHRFYVFHSFTQFHRNSIATAALFLAAKVEEQPRKLEHVIRVAQL 113 (730)
Q Consensus 48 I~eVg~~LkLPq~TlaTAivyFhRFysrkSi~~~d~qLVAAACLFLAcKvEEtprkLrDII~Va~~ 113 (730)
|.++|..|+|+..+..+|..+|++........+..+..+++||||+||+.++.++.++||..++++
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~~~~t~~eIa~~~~V 66 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNGVPRTLKEIAEAAGV 66 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTTSSSSHHHHHHHCTS
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcCCCcCHHHHHHHhCC
Confidence 578999999999999999999999999999999999999999999999999999999999887543
No 21
>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=98.15 E-value=8.1e-06 Score=67.42 Aligned_cols=81 Identities=15% Similarity=0.245 Sum_probs=62.2
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHccccccccccCCcHHHHHHHHHHHHHHHcCCCCCCCCCCCcccccccCCC-CHHH
Q psy11273 158 TYVVKCCHLVRASKDLAQTSYFMASNSLHLTTMCLQYRSTVVACFCIHLACKWANWEIPQSNEGRKWFWYIDKEV-TQEQ 236 (730)
Q Consensus 158 ~FL~rflk~L~~skeL~qlA~~ILnDSL~lT~LcL~y~PS~IAAAAIyLAakllgi~iP~~~eg~~Ww~~fd~~V-T~Eq 236 (730)
+||.+++..++.+.++..+|++++...+ ...-++.++|+.||+||||+|+++.+...+. ..|... .++ +.++
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l-~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~----~~~~~~--~~~~~~~~ 73 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFL-SDYKFLKYSPSLIAAAALYLAAKTEEIPPWT----KELVHY--TGYFTEEE 73 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHH-HHhhcccCCHHHHHHHHHHHHHHHhcCCCCc----hhHhHh--hCCCCHHH
Confidence 4788999999999999999999996654 3456778999999999999999999865221 223222 234 7888
Q ss_pred HHHHHHHHH
Q psy11273 237 LEQLTEEFL 245 (730)
Q Consensus 237 LeeIi~EIL 245 (730)
|.++..+|+
T Consensus 74 i~~~~~~il 82 (83)
T smart00385 74 ILRMEKLLL 82 (83)
T ss_pred HHHHHHHHh
Confidence 888877765
No 22
>cd00043 CYCLIN Cyclin box fold. Protein binding domain functioning in cell-cycle and transcription control. Present in cyclins, TFIIB and Retinoblastoma (RB).The cyclins consist of 8 classes of cell cycle regulators that regulate cyclin dependent kinases (CDKs). TFIIB is a transcription factor that binds the TATA box. Cyclins, TFIIB and RB contain 2 copies of the domain.
Probab=98.04 E-value=2.1e-05 Score=65.46 Aligned_cols=85 Identities=14% Similarity=0.113 Sum_probs=63.2
Q ss_pred cCChHHHHHHHHHHhcCCHHHHHHHHHHHHccccccccccCCcHHHHHHHHHHHHHHHcCCCCCCCCCCCcccccccCCC
Q psy11273 153 IEHPHTYVVKCCHLVRASKDLAQTSYFMASNSLHLTTMCLQYRSTVVACFCIHLACKWANWEIPQSNEGRKWFWYIDKEV 232 (730)
Q Consensus 153 V~~P~~FL~rflk~L~~skeL~qlA~~ILnDSL~lT~LcL~y~PS~IAAAAIyLAakllgi~iP~~~eg~~Ww~~fd~~V 232 (730)
..++..||.+++..++.+.++..+|+.++...+ ....+..+.|+.||+|||++|+++.+.... ..+|... .+.
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~-~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~----~~~~~~~--~~~ 74 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPETLTLAVNLLDRFL-LDYSVLGRSPSLVAAAALYLAAKVEEIPPW----LKDLVHV--TGY 74 (88)
T ss_pred cchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHH-HhcccccCChHHHHHHHHHHHHHHcCCCCC----HHHHhHH--hCC
Confidence 357899999999999999999999999986654 456677999999999999999999876211 1122222 234
Q ss_pred -CHHHHHHHHHHH
Q psy11273 233 -TQEQLEQLTEEF 244 (730)
Q Consensus 233 -T~EqLeeIi~EI 244 (730)
+.++|..+..++
T Consensus 75 ~~~~~i~~~e~~i 87 (88)
T cd00043 75 ATEEEILRMEKLL 87 (88)
T ss_pred CCHHHHHHHHHHh
Confidence 666666665444
No 23
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=97.81 E-value=9.5e-05 Score=79.52 Aligned_cols=70 Identities=16% Similarity=0.168 Sum_probs=64.8
Q ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccchhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHH
Q psy11273 44 AANLIQDMGQRLQVTQLCINTAIVYMHRFYVFHSFTQFHRNSIATAALFLAAKVEEQPRKLEHVIRVAQL 113 (730)
Q Consensus 44 avd~I~eVg~~LkLPq~TlaTAivyFhRFysrkSi~~~d~qLVAAACLFLAcKvEEtprkLrDII~Va~~ 113 (730)
..+||.++|..|+|+..+..+|..++++........+..+.-||+|||||||+..+.++.+++|..++.+
T Consensus 219 p~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAAaIYlA~~~~g~~~t~keIa~v~~V 288 (310)
T PRK00423 219 PIDYVPRFASELGLSGEVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIASLLLGERRTQREVAEVAGV 288 (310)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCC
Confidence 4699999999999999999999999999988888899999999999999999999999999999887654
No 24
>KOG4164|consensus
Probab=97.75 E-value=7.4e-05 Score=82.02 Aligned_cols=98 Identities=18% Similarity=0.341 Sum_probs=80.9
Q ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccchhhHHHHHHHHHHhhhcCCCC-CHHHHHHHHHHhhccCCCC
Q psy11273 43 QAANLIQDMGQRLQVTQLCINTAIVYMHRFYVFHSFTQFHRNSIATAALFLAAKVEEQPR-KLEHVIRVAQLCLFKNQPP 121 (730)
Q Consensus 43 ~avd~I~eVg~~LkLPq~TlaTAivyFhRFysrkSi~~~d~qLVAAACLFLAcKvEEtpr-kLrDII~Va~~~l~r~~~~ 121 (730)
-+-..|.+++...++...|+++|.+||.....+..+.+.+..++|-|||+||+|+.+... .++.+|.-+
T Consensus 384 SlKREMr~l~~d~~id~~TVa~AyVYFEKliLkglisK~NRKlcAGAclLlaaKmnD~Kks~vKslIek~---------- 453 (497)
T KOG4164|consen 384 SLKREMRELGEDCGIDVVTVAMAYVYFEKLILKGLISKQNRKLCAGACLLLAAKMNDLKKSTVKSLIEKL---------- 453 (497)
T ss_pred HHHHHHHHhhhccCccceeehhHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHhhhhhhHHHHHHHHHH----------
Confidence 345678899999999999999999999999999999999999999999999999997422 244444322
Q ss_pred CCCCchHHHHHHHHHHHHHHHHHHHcCCccccC
Q psy11273 122 LDPRSEAYQEQAQEIVVNENVLLQTLGFDVGIE 154 (730)
Q Consensus 122 lD~~se~y~~~reeIL~mEr~ILqaL~FDL~V~ 154 (730)
.+.|...+.+++..|+-||-+|.|.|+++
T Consensus 454 ----Ee~fR~nrrdLia~Ef~VlvaLefaL~~~ 482 (497)
T KOG4164|consen 454 ----EEQFRLNRRDLIAFEFPVLVALEFALHLP 482 (497)
T ss_pred ----HHHhcccHHhhhhhhhhHHHhhhhhccCC
Confidence 23566678899999999999999999764
No 25
>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=97.71 E-value=0.00025 Score=68.50 Aligned_cols=91 Identities=16% Similarity=0.266 Sum_probs=64.3
Q ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhh---c--CccccchhhHHHHHHHHHHhhhcCC-CCCHHHHHHHHHHhhc
Q psy11273 43 QAANLIQDMGQRLQVTQLCINTAIVYMHRFYV---F--HSFTQFHRNSIATAALFLAAKVEEQ-PRKLEHVIRVAQLCLF 116 (730)
Q Consensus 43 ~avd~I~eVg~~LkLPq~TlaTAivyFhRFys---r--kSi~~~d~qLVAAACLFLAcKvEEt-prkLrDII~Va~~~l~ 116 (730)
...+|+.++....+++..|+-.|++|++|+.. . ..+.....+-+.++||.||.|+-+. ...-+....++..
T Consensus 53 ~i~~fl~ri~~~~~~s~~~~i~aliYl~Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v~gi--- 129 (149)
T PF08613_consen 53 SIRDFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDNTYSNKSWAKVGGI--- 129 (149)
T ss_dssp -HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS---HHHHHHHHTS---
T ss_pred cHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHhhcccccccHHHHHhhcCC---
Confidence 36678999999999999999999999999998 2 2344667889999999999998653 3333434333321
Q ss_pred cCCCCCCCCchHHHHHHHHHHHHHHHHHHHcCCcc
Q psy11273 117 KNQPPLDPRSEAYQEQAQEIVVNENVLLQTLGFDV 151 (730)
Q Consensus 117 r~~~~lD~~se~y~~~reeIL~mEr~ILqaL~FDL 151 (730)
...++-.||+.+|..|+|+|
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 35689999999999999986
No 26
>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=97.38 E-value=0.00045 Score=58.58 Aligned_cols=55 Identities=15% Similarity=0.240 Sum_probs=44.4
Q ss_pred HHHHHHHhcCCHHHHHHHHHHHHccccccccccCCcHHHHHHHHHHHHHHHcCCCC
Q psy11273 160 VVKCCHLVRASKDLAQTSYFMASNSLHLTTMCLQYRSTVVACFCIHLACKWANWEI 215 (730)
Q Consensus 160 L~rflk~L~~skeL~qlA~~ILnDSL~lT~LcL~y~PS~IAAAAIyLAakllgi~i 215 (730)
|.+|+..|+++..+...|..++.... ..++.-+.+|..||+||||+||+..|...
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~-~~~~~~Gr~~~~iaAA~iY~acr~~~~~~ 55 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQ-ERGLLKGRSPESIAAACIYLACRLNGVPR 55 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHH-HTTTSTTS-HHHHHHHHHHHHHHHTTSSS
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHH-HcCCcccCCHHHHHHHHHHHHHHHcCCCc
Confidence 56899999999999999999986643 46677789999999999999999998654
No 27
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=96.25 E-value=0.017 Score=62.14 Aligned_cols=71 Identities=18% Similarity=0.211 Sum_probs=65.4
Q ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccchhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHH
Q psy11273 43 QAANLIQDMGQRLQVTQLCINTAIVYMHRFYVFHSFTQFHRNSIATAALFLAAKVEEQPRKLEHVIRVAQL 113 (730)
Q Consensus 43 ~avd~I~eVg~~LkLPq~TlaTAivyFhRFysrkSi~~~d~qLVAAACLFLAcKvEEtprkLrDII~Va~~ 113 (730)
...+||.++|..|+|+.++...|..+++.........+..+.-+|+|||||||...+..+.-+++..++++
T Consensus 193 ~p~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as~l~~~~~tq~eva~v~~v 263 (285)
T COG1405 193 DPSDYIPRFASKLGLSDEVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASLLLGERRTQKEVAKVAGV 263 (285)
T ss_pred CHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHHHHhCCchHHHHHHHHhCC
Confidence 35789999999999999999999999999999999999999999999999999999988888888877654
No 28
>KOG1597|consensus
Probab=95.31 E-value=0.061 Score=58.00 Aligned_cols=71 Identities=11% Similarity=0.167 Sum_probs=65.3
Q ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccchhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHH
Q psy11273 43 QAANLIQDMGQRLQVTQLCINTAIVYMHRFYVFHSFTQFHRNSIATAALFLAAKVEEQPRKLEHVIRVAQL 113 (730)
Q Consensus 43 ~avd~I~eVg~~LkLPq~TlaTAivyFhRFysrkSi~~~d~qLVAAACLFLAcKvEEtprkLrDII~Va~~ 113 (730)
...+||.++|..|+|+..+...|..+-+++-......++.+.-||||++|++|-+.+..+.+++|..++.+
T Consensus 202 ~t~~~m~RFCs~L~L~~~~q~aA~e~a~ka~~~~~~~gRsPiSIAAa~IYmisqls~~kkt~keI~~vtgV 272 (308)
T KOG1597|consen 202 STGDFMPRFCSNLGLPKSAQEAATEIAEKAEEMDIRAGRSPISIAAAAIYMISQLSDEKKTQKEIGEVTGV 272 (308)
T ss_pred hHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccccCCCchhHHHHHHHHHHHhccCcccHHHHHHHhhh
Confidence 36789999999999999999999999999999888899999999999999999999988899998877654
No 29
>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=94.85 E-value=0.063 Score=48.93 Aligned_cols=88 Identities=14% Similarity=0.295 Sum_probs=58.9
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHccccccccccCCcHHHHHHHHHHHHHHHcCCCCCCCCCCCcccccccCCCCHHHH
Q psy11273 158 TYVVKCCHLVRASKDLAQTSYFMASNSLHLTTMCLQYRSTVVACFCIHLACKWANWEIPQSNEGRKWFWYIDKEVTQEQL 237 (730)
Q Consensus 158 ~FL~rflk~L~~skeL~qlA~~ILnDSL~lT~LcL~y~PS~IAAAAIyLAakllgi~iP~~~eg~~Ww~~fd~~VT~EqL 237 (730)
+|+..++..++.+..+...|..++.. ++....+.......||+||+++|+++.....+.. ..|....+..++.++|
T Consensus 36 ~~i~~~~~~~~l~~~~~~~A~~~~dr-~~~~~~~~~~~~~li~~~cl~lA~K~~e~~~~~~---~~~~~~~~~~~~~~~i 111 (127)
T PF00134_consen 36 DWIIELCQRLKLSPETLHLAIYLFDR-FLSKRPVNRSKLQLIALACLFLASKMEEDNPPSI---SDLIRISDNTFTKKDI 111 (127)
T ss_dssp HHHHHHHHHTT-BHHHHHHHHHHHHH-HHTTS-TTCCGHHHHHHHHHHHHHHHHTSS--HH---HHHHHHTTTSSHHHHH
T ss_pred HHHHHHHHhcccchhHHHHHHHHHHH-HHhhcccccchhhhhhhhHHHHhhhhhccccchH---HHHHHHHcCCCCHHHH
Confidence 45666667777777888888888744 3333456778899999999999999987533321 2343334445778888
Q ss_pred HHHHHHHHHHHh
Q psy11273 238 EQLTEEFLAIFD 249 (730)
Q Consensus 238 eeIi~EIL~LYe 249 (730)
.++-..++...+
T Consensus 112 ~~~E~~iL~~L~ 123 (127)
T PF00134_consen 112 LEMEREILSALN 123 (127)
T ss_dssp HHHHHHHHHHTT
T ss_pred HHHHHHHHHHCC
Confidence 888877777654
No 30
>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=91.99 E-value=0.87 Score=44.23 Aligned_cols=69 Identities=17% Similarity=0.217 Sum_probs=54.3
Q ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhc--CccccchhhHHHHHHHHHHhhhcCCCCCHHHHHHHH
Q psy11273 43 QAANLIQDMGQRLQVTQLCINTAIVYMHRFYVF--HSFTQFHRNSIATAALFLAAKVEEQPRKLEHVIRVA 111 (730)
Q Consensus 43 ~avd~I~eVg~~LkLPq~TlaTAivyFhRFysr--kSi~~~d~qLVAAACLFLAcKvEEtprkLrDII~Va 111 (730)
.+..-|.++|.+|+|+..+.......|+..+.. ..+.++++.-+.+.|+|..||+.....++++|+..+
T Consensus 13 la~~Rl~~LC~~L~l~~~~~~~iwt~fe~~l~~~t~L~~dRHLDQiilCaiY~i~Kv~~~~~sF~~Ii~~Y 83 (135)
T PF01857_consen 13 LAAVRLQDLCERLDLSSDLREKIWTCFEHSLTHHTELMKDRHLDQIILCAIYGICKVSKEELSFKDIIKAY 83 (135)
T ss_dssp HHHHHHHHHHHHHTTSTTHHHHHHHHHHHHHHHSGGGGTTS-HHHHHHHHHHHHHHHTT-S--HHHHHHHH
T ss_pred HHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhHHHHhcchHHHHHHHHHHHHHHhhcCCCCHHHHHHHH
Confidence 355668899999999988777777777777653 457789999999999999999999889999998865
No 31
>PF10278 Med19: Mediator of RNA pol II transcription subunit 19 ; InterPro: IPR019403 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Med19 represents a family of conserved proteins which are members of the multi-protein co-activator Mediator complex []. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=90.15 E-value=0.13 Score=52.09 Aligned_cols=34 Identities=32% Similarity=0.240 Sum_probs=13.5
Q ss_pred hhhhhhhhhhhhhhhccccccccCCCCCCCCccc
Q psy11273 490 TNVIKEVTYSKQMEKSSILNHKESSISHPPHLSM 523 (730)
Q Consensus 490 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 523 (730)
+|+|.+....--+++-+--+-+|+--+--|||.-
T Consensus 19 ~nL~~~y~L~~~y~kf~~kklke~lSsFLp~lpG 52 (178)
T PF10278_consen 19 TNLITHYGLEHSYNKFCGKKLKESLSSFLPHLPG 52 (178)
T ss_pred hhHHHHcCcHHHHHHHhCCcchhhHHHHccCCCC
Confidence 4666544322222222222234443344455543
No 32
>KOG0835|consensus
Probab=88.82 E-value=0.59 Score=51.44 Aligned_cols=58 Identities=29% Similarity=0.323 Sum_probs=45.1
Q ss_pred HHHHHHHHHHcCCCHHH--HHHHHHHHHHHhhcCccccchhhHHHHHHHHHHhhhcCCCC
Q psy11273 45 ANLIQDMGQRLQVTQLC--INTAIVYMHRFYVFHSFTQFHRNSIATAALFLAAKVEEQPR 102 (730)
Q Consensus 45 vd~I~eVg~~LkLPq~T--laTAivyFhRFysrkSi~~~d~qLVAAACLFLAcKvEEtpr 102 (730)
..+|......|++++.- +..|-+|+.--+-..-+..+.+..|||||+|||++.+|.|.
T Consensus 142 hklii~YLqtL~~~~~~~l~Q~~wNfmNDslRT~v~vry~pe~iACaciyLaAR~~eIpL 201 (367)
T KOG0835|consen 142 HKLIIMYLQTLQLPPNLKLLQAAWNFMNDSLRTDVFVRYSPESIACACIYLAARNLEIPL 201 (367)
T ss_pred HHHHHHHHHHhcCCCchhHHHHHHHhhhhccccceeeecCHHHHHHHHHHHHHhhhcCCC
Confidence 35667777778887653 66677777666666677889999999999999999999654
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=88.67 E-value=0.5 Score=42.16 Aligned_cols=56 Identities=21% Similarity=0.182 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCccccchhhHHHHHHHHHHhhhcC
Q psy11273 44 AANLIQDMGQRLQVTQLCINTAIVYMHRFYVFHSFTQFHRNSIATAALFLAAKVEE 99 (730)
Q Consensus 44 avd~I~eVg~~LkLPq~TlaTAivyFhRFysrkSi~~~d~qLVAAACLFLAcKvEE 99 (730)
..+||..+....+....+...|..+++..+....+-++.+-.||+||+++|.+.-+
T Consensus 3 p~~Fl~~~~~~~~~~~~~~~~a~~l~el~l~~~~fl~~~PS~iAaAai~lA~~~~~ 58 (118)
T PF02984_consen 3 PYDFLRRFLKISNADQEVRNLARYLLELSLLDYEFLQYPPSVIAAAAILLARKILG 58 (118)
T ss_dssp HHHHHHHHHTSSSHHHHHHHHHHHHHHHHHHSHHHTTS-HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhC
Confidence 35677777555555667888999999988888888999999999999999999855
No 34
>KOG1674|consensus
Probab=88.24 E-value=1.2 Score=46.31 Aligned_cols=93 Identities=16% Similarity=0.173 Sum_probs=65.0
Q ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCc---------cccch-hhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHh
Q psy11273 45 ANLIQDMGQRLQVTQLCINTAIVYMHRFYVFHS---------FTQFH-RNSIATAALFLAAKVEEQPRKLEHVIRVAQLC 114 (730)
Q Consensus 45 vd~I~eVg~~LkLPq~TlaTAivyFhRFysrkS---------i~~~d-~qLVAAACLFLAcKvEEtprkLrDII~Va~~~ 114 (730)
.+++.++-...+....++-+|.+||+||..... +.-.. ..-..++|+.+|||+.+.--- .+..+..
T Consensus 79 ~~yleri~k~~~~s~~~lv~al~Yldr~~~~~~~~~~~~~~~i~s~n~vhR~lit~v~vs~kf~~d~~y----~n~~~a~ 154 (218)
T KOG1674|consen 79 RQYLERIFKYSKCSPECLVLALVYLDRFVKQPQARSVKPQSLINSLNKVHRLLITTVTVSTKFLDDVYY----SNAYYAK 154 (218)
T ss_pred HHHHHHHHHHhcCCchhhhhhhhhhhhhhhhhcccccCcccccccchhHHHHHHHHHHHHHhhccchhh----hHHHHHH
Confidence 467888888999999999999999999998621 11223 445789999999999863100 1111110
Q ss_pred hccCCCCCCCCchHHHHHHHHHHHHHHHHHHHcCCccccC
Q psy11273 115 LFKNQPPLDPRSEAYQEQAQEIVVNENVLLQTLGFDVGIE 154 (730)
Q Consensus 115 l~r~~~~lD~~se~y~~~reeIL~mEr~ILqaL~FDL~V~ 154 (730)
...+ ..+++-.+|..+|..++|.+.+.
T Consensus 155 ----vggl---------~~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 155 ----VGGL---------TTDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred ----hCCC---------ChHhhhhhhHHHHhhCCeEEEec
Confidence 0111 24567799999999999999886
No 35
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=87.98 E-value=0.96 Score=49.35 Aligned_cols=56 Identities=16% Similarity=0.419 Sum_probs=43.5
Q ss_pred HHHHHHHHHhc--CCHHHHHHHHHHHHccccccccccCCcHHHHHHHHHHHHHHHcCCC
Q psy11273 158 TYVVKCCHLVR--ASKDLAQTSYFMASNSLHLTTMCLQYRSTVVACFCIHLACKWANWE 214 (730)
Q Consensus 158 ~FL~rflk~L~--~skeL~qlA~~ILnDSL~lT~LcL~y~PS~IAAAAIyLAakllgi~ 214 (730)
.+|..++..++ ..+.+..+|..++... +...-...|.|..||+|||||||+.-...
T Consensus 61 ~~i~~~~~~lkp~Lpq~viaTAivyf~RF-y~~~Sv~~~~p~~Ia~tclfLA~KvEE~~ 118 (305)
T TIGR00569 61 KRLLDFCSAFKPTMPTSVVGTAIMYFKRF-YLNNSVMEYHPKIIMLTCVFLACKVEEFN 118 (305)
T ss_pred HHHHHHHHHhcCCCCchHHHHHHHHHhHH-hccCchhhcCHHHHHHHHHHHHHhccccC
Confidence 35667777788 8888888888777443 44555678999999999999999987543
No 36
>KOG1598|consensus
Probab=87.54 E-value=0.69 Score=53.54 Aligned_cols=56 Identities=21% Similarity=0.236 Sum_probs=46.1
Q ss_pred HHHHHHHHHHHHHhhcCccccchhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHhh
Q psy11273 60 LCINTAIVYMHRFYVFHSFTQFHRNSIATAALFLAAKVEEQPRKLEHVIRVAQLCL 115 (730)
Q Consensus 60 ~TlaTAivyFhRFysrkSi~~~d~qLVAAACLFLAcKvEEtprkLrDII~Va~~~l 115 (730)
.|+.+|..+..|.-----..++.+.-++-|||++||.+.+..+++.||+.+.++|.
T Consensus 185 ~Vv~~a~~L~~rMkrdwm~tGRRPsglcGAaLliAar~h~~~rsi~dIv~vvhV~e 240 (521)
T KOG1598|consen 185 DVAKTATRLAQRMKRDWMQTGRRPSGLCGAALLIAARMHGFRRTIGDIAKVVHVCE 240 (521)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCccchhHHHHHHHHHHcCccccHHHHHHHHHHhH
Confidence 47777777777764433456788889999999999999999999999999998874
No 37
>PF10500 SR-25: Nuclear RNA-splicing-associated protein; InterPro: IPR019532 SR-25, otherwise known as ADP-ribosylation factor-like factor 6-interacting protein 4, is expressed in virtually all tissue types. At the N terminus there is a repeat of serine-arginine (SR repeat), and towards the middle of the protein there are clusters of both serines and of basic amino acids. The presence of many nuclear localisation signals strongly implies that this is a nuclear protein that may contribute to RNA splicing []. SR-25 is also implicated, along with heat-shock-protein-27, as a mediator in the Rac1 (GTPase ras-related C3 botulinum toxin substrate 1; also see IPR019093 from INTERPRO) signalling pathway [].
Probab=81.73 E-value=1 Score=47.18 Aligned_cols=10 Identities=20% Similarity=0.358 Sum_probs=5.3
Q ss_pred eeechhhhcc
Q psy11273 699 IRISKDFLSK 708 (730)
Q Consensus 699 ~~~~~~~~~~ 708 (730)
|+=.-|||++
T Consensus 186 IkGdGEilEE 195 (225)
T PF10500_consen 186 IKGDGEILEE 195 (225)
T ss_pred ecccchHHHH
Confidence 4545566644
No 38
>KOG2138|consensus
Probab=76.25 E-value=1.1 Score=53.33 Aligned_cols=13 Identities=15% Similarity=0.256 Sum_probs=5.6
Q ss_pred HHHHHHHHHHHHc
Q psy11273 135 EIVVNENVLLQTL 147 (730)
Q Consensus 135 eIL~mEr~ILqaL 147 (730)
+....++.||-.+
T Consensus 295 ~~~~k~~kvldgF 307 (883)
T KOG2138|consen 295 QQHVKQRKVLDGF 307 (883)
T ss_pred HHhhhhhcccccc
Confidence 3334444454433
No 39
>KOG0834|consensus
Probab=75.71 E-value=4.5 Score=44.74 Aligned_cols=56 Identities=13% Similarity=0.165 Sum_probs=36.4
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHccccccccccCCcHHHHHHHHHHHHHHHcCC
Q psy11273 157 HTYVVKCCHLVRASKDLAQTSYFMASNSLHLTTMCLQYRSTVVACFCIHLACKWANW 213 (730)
Q Consensus 157 ~~FL~rflk~L~~skeL~qlA~~ILnDSL~lT~LcL~y~PS~IAAAAIyLAakllgi 213 (730)
..||..+...|+..+.-..+|..+... +++-.-+-.|.+..||+||||||++.-+.
T Consensus 43 ~~fI~elg~~L~~~~~ti~tA~~~~hR-Fy~~~s~~~~~~~~vA~sclfLAgKvEet 98 (323)
T KOG0834|consen 43 AKFIQELGVRLKMPQKTIATAIVIFHR-FYMFHSFKKFDPYTVAASCLFLAGKVEET 98 (323)
T ss_pred HHHHHHHHHHcCCCccchhhhhhhhhh-hhhhcccccCcHHHHHHHHHHHHhhcccC
Confidence 356777777777655444444444322 22233345789999999999999997653
No 40
>PF10278 Med19: Mediator of RNA pol II transcription subunit 19 ; InterPro: IPR019403 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Med19 represents a family of conserved proteins which are members of the multi-protein co-activator Mediator complex []. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=75.03 E-value=1.3 Score=45.06 Aligned_cols=39 Identities=28% Similarity=0.272 Sum_probs=23.8
Q ss_pred Cchhhhhhhhhhhhhhhhh------hccccccccCCCCCCCCccc
Q psy11273 485 HSDVITNVIKEVTYSKQME------KSSILNHKESSISHPPHLSM 523 (730)
Q Consensus 485 ~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~ 523 (730)
-.|+|+..=-|-.|.+--. -|+.|-|--..|..+.+.-.
T Consensus 18 ~~nL~~~y~L~~~y~kf~~kklke~lSsFLp~lpG~~~~~~~~d~ 62 (178)
T PF10278_consen 18 ATNLITHYGLEHSYNKFCGKKLKESLSSFLPHLPGNIDLPGSQDN 62 (178)
T ss_pred chhHHHHcCcHHHHHHHhCCcchhhHHHHccCCCCcccCCCCcCc
Confidence 3567776655555654221 26778887777777776433
No 41
>PF08208 RNA_polI_A34: DNA-directed RNA polymerase I subunit RPA34.5; InterPro: IPR013240 This is a family of proteins conserved from yeasts to human. Subunit A34.5 of RNA polymerase I is a non-essential subunit which is thought to help Pol I overcome topological constraints imposed on ribosomal DNA during the process of transcription [].; PDB: 3NFG_N.
Probab=69.41 E-value=1.5 Score=44.41 Aligned_cols=12 Identities=33% Similarity=0.539 Sum_probs=0.0
Q ss_pred CccccccccCCc
Q psy11273 569 SSEGLKAKLEPE 580 (730)
Q Consensus 569 ~~~~~~~~~~~~ 580 (730)
.-+||+...-|-
T Consensus 109 qp~gLk~Rf~P~ 120 (198)
T PF08208_consen 109 QPKGLKMRFFPF 120 (198)
T ss_dssp ------------
T ss_pred CCCCcceeeecC
Confidence 457888887763
No 42
>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=64.71 E-value=6.4 Score=43.06 Aligned_cols=55 Identities=18% Similarity=0.293 Sum_probs=42.6
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHccccccccccCCcHHHHHHHHHHHHHHHcC
Q psy11273 157 HTYVVKCCHLVRASKDLAQTSYFMASNSLHLTTMCLQYRSTVVACFCIHLACKWAN 212 (730)
Q Consensus 157 ~~FL~rflk~L~~skeL~qlA~~ILnDSL~lT~LcL~y~PS~IAAAAIyLAakllg 212 (730)
+.+|..++..|+....+..+|..+....+ .-.-.-.+.+..||.+||||||+.-+
T Consensus 49 ~k~i~~l~~~L~lp~~~laTAi~~f~Rf~-Lk~sv~e~~~~~vv~tcv~LA~K~ed 103 (297)
T COG5333 49 LKLIMDLCTRLNLPQTVLATAILFFSRFY-LKNSVEEISLYSVVTTCVYLACKVED 103 (297)
T ss_pred HHHHHHHHHhcCCCcchHHHHHHHHHHHH-hhcccccccHHHHHHhheeeeeeccc
Confidence 35677888888998888888877764433 22335689999999999999999876
No 43
>KOG4557|consensus
Probab=63.98 E-value=2.1e+02 Score=30.67 Aligned_cols=174 Identities=16% Similarity=0.188 Sum_probs=90.7
Q ss_pred HHHHHHHHcCCC--HHHHHHHHHHHHHHhhc--CccccchhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHhhccCCCCC
Q psy11273 47 LIQDMGQRLQVT--QLCINTAIVYMHRFYVF--HSFTQFHRNSIATAALFLAAKVEEQPRKLEHVIRVAQLCLFKNQPPL 122 (730)
Q Consensus 47 ~I~eVg~~LkLP--q~TlaTAivyFhRFysr--kSi~~~d~qLVAAACLFLAcKvEEtprkLrDII~Va~~~l~r~~~~l 122 (730)
.|.+++.+|+|. ..++.-|..|.+..-.+ .+.-+..-+.-++-|+=||+=.-.++---...+.+...
T Consensus 2 lI~~l~~klgL~~ep~~lrKa~E~~RL~~~~~~~~~~~v~E~~kaV~CldlAa~~l~i~fDr~~avKLSGl--------- 72 (262)
T KOG4557|consen 2 LISDLGRKLGLDNEPLLLRKAAEIRRLCDAQFDSSIIGVGEICKAVICLDLAATRLQIIFDRQAAVKLSGL--------- 72 (262)
T ss_pred cHHHHHHhcCCccChHHHHHHHHHHHHHHhhccCccccccchhHHHHhHHHHHHHhcccccHHHHHHhccc---------
Confidence 477899999994 35677777776544332 22333333445566777765443332211222222110
Q ss_pred CCCchHHHHHHHHHHHHHHHHHHHcCCccccCChHHHHHHHHHHhcCCHHHHHHHHHHHHcccccc------ccccCCcH
Q psy11273 123 DPRSEAYQEQAQEIVVNENVLLQTLGFDVGIEHPHTYVVKCCHLVRASKDLAQTSYFMASNSLHLT------TMCLQYRS 196 (730)
Q Consensus 123 D~~se~y~~~reeIL~mEr~ILqaL~FDL~V~~P~~FL~rflk~L~~skeL~qlA~~ILnDSL~lT------~LcL~y~P 196 (730)
.-+.|... +-..|.. -.|+..++|.+ .-.. ++. -+++..|..++. + |.. .+-+.++-
T Consensus 73 --~k~~Y~~~---~~sfe~l--lgln~~~~Vrd---laVQ----fgc-~evi~~a~~vl~-s-yk~~lpaT~~~~~D~Sr 135 (262)
T KOG4557|consen 73 --SKKAYSRS---FNSFENL--LGLNIKLNVRD---LAVQ----FGC-VEVIKSAQNVLS-S-YKERLPATRRANADFSR 135 (262)
T ss_pred --cHHHHHHH---HHHHHHH--hcchhhcCHHH---HHHH----HhH-HHHHHHHHHHHH-H-HHhcCchhhhcCCcccc
Confidence 11234321 1122322 22333343321 1111 111 245556666552 1 122 23467777
Q ss_pred HHHHHHHHHHHHHHcCCCCCCCCCCCcccccccCCCCHHHHHHHHHHHHHHHhcCC
Q psy11273 197 TVVACFCIHLACKWANWEIPQSNEGRKWFWYIDKEVTQEQLEQLTEEFLAIFDKCP 252 (730)
Q Consensus 197 S~IAAAAIyLAakllgi~iP~~~eg~~Ww~~fd~~VT~EqLeeIi~EIL~LYe~~p 252 (730)
-+-++||+|+||+.+...+.... . .-..++...+...++.++-..|.+..
T Consensus 136 P~ft~aA~~~ack~lKlKVdK~k----l--i~~sg~~~s~F~~l~kqler~~~qv~ 185 (262)
T KOG4557|consen 136 PVFTAAAFYLACKKLKLKVDKLK----L--IEVSGTSESEFSCLSKQLERNYKQVS 185 (262)
T ss_pred hHHHHHHHHHHHHHHHHhhhHhh----c--ccccCCCHHHHHHHHHHHHHHHHHhc
Confidence 88999999999999876543211 0 11246778888888888888887654
No 44
>KOG1675|consensus
Probab=63.40 E-value=8.7 Score=42.36 Aligned_cols=94 Identities=14% Similarity=0.231 Sum_probs=56.7
Q ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHHHhhc--CccccchhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHhhccCCCCCC
Q psy11273 46 NLIQDMGQRLQVTQLCINTAIVYMHRFYVF--HSFTQFHRNSIATAALFLAAKVEEQPRKLEHVIRVAQLCLFKNQPPLD 123 (730)
Q Consensus 46 d~I~eVg~~LkLPq~TlaTAivyFhRFysr--kSi~~~d~qLVAAACLFLAcKvEEtprkLrDII~Va~~~l~r~~~~lD 123 (730)
.|+..++....|.-+.--..++|+.|.... .....+.+..++..++++|+|+-...---. ++.+..+..
T Consensus 195 k~v~~l~~~~qlta~~aiitL~~~erl~~~~e~~~~p~~w~r~~~g~il~sskv~~dqs~wn--vdycqIlKd------- 265 (343)
T KOG1675|consen 195 KFVRILFSWAQLTAECDIITLVYAERLLWLAERDPCPRNWSRAVLGEILLSSKVYDDQSVWN--VDYCEILKD------- 265 (343)
T ss_pred hhhhhHhhhhhhhhccchHHHHhhHhhhhHhhcCCCcchhhhhhhhhheehhhhhhhhhccc--HHHHHHHhh-------
Confidence 344444444444444444556777776543 234466667777778999999865211000 222222211
Q ss_pred CCchHHHHHHHHHHHHHHHHHHHcCCccccCC
Q psy11273 124 PRSEAYQEQAQEIVVNENVLLQTLGFDVGIEH 155 (730)
Q Consensus 124 ~~se~y~~~reeIL~mEr~ILqaL~FDL~V~~ 155 (730)
.+.+++-++||.+|+.|+||++++-
T Consensus 266 -------~tveDmNe~ERqfLelLqfNinvp~ 290 (343)
T KOG1675|consen 266 -------QSVDDMNALERQFLELLQFNINVPS 290 (343)
T ss_pred -------ccHhhHHHHHHHHHHHHhhccCccH
Confidence 1357788999999999999999873
No 45
>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=62.35 E-value=36 Score=33.25 Aligned_cols=55 Identities=20% Similarity=0.230 Sum_probs=42.5
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHccc-cccccccCCcHHHHHHHHHHHHHHHcC
Q psy11273 158 TYVVKCCHLVRASKDLAQTSYFMASNSL-HLTTMCLQYRSTVVACFCIHLACKWAN 212 (730)
Q Consensus 158 ~FL~rflk~L~~skeL~qlA~~ILnDSL-~lT~LcL~y~PS~IAAAAIyLAakllg 212 (730)
.-|..+|..|+...++...+|.++.-++ ..+.++....-.+|-++|||..|++.+
T Consensus 16 ~Rl~~LC~~L~l~~~~~~~iwt~fe~~l~~~t~L~~dRHLDQiilCaiY~i~Kv~~ 71 (135)
T PF01857_consen 16 VRLQDLCERLDLSSDLREKIWTCFEHSLTHHTELMKDRHLDQIILCAIYGICKVSK 71 (135)
T ss_dssp HHHHHHHHHHTTSTTHHHHHHHHHHHHHHHSGGGGTTS-HHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhHHHHhcchHHHHHHHHHHHHHHhhc
Confidence 3455677778887788888888765544 357788899999999999999999876
No 46
>KOG2138|consensus
Probab=60.58 E-value=2.2 Score=50.89 Aligned_cols=6 Identities=17% Similarity=-0.080 Sum_probs=2.7
Q ss_pred CCCCCC
Q psy11273 2 STNTTQ 7 (730)
Q Consensus 2 a~nFw~ 7 (730)
+++||+
T Consensus 53 SAGywN 58 (883)
T KOG2138|consen 53 SAGYWN 58 (883)
T ss_pred ccccee
Confidence 344454
No 47
>KOG0656|consensus
Probab=58.72 E-value=33 Score=38.40 Aligned_cols=83 Identities=13% Similarity=0.203 Sum_probs=55.4
Q ss_pred HHHHHHHHHHHHHcCCcccc---------CChHHHHHHHHHHhcCCHHHHHHHHHHHHccccccccccCCc---HHHHHH
Q psy11273 134 QEIVVNENVLLQTLGFDVGI---------EHPHTYVVKCCHLVRASKDLAQTSYFMASNSLHLTTMCLQYR---STVVAC 201 (730)
Q Consensus 134 eeIL~mEr~ILqaL~FDL~V---------~~P~~FL~rflk~L~~skeL~qlA~~ILnDSL~lT~LcL~y~---PS~IAA 201 (730)
..++..|..-...+++.+.+ ....++|.+.+...+....+.-+|.+++...+ ...-+-... =..||+
T Consensus 50 ~~ll~kEe~~~p~~~~~~~~~~~~~~~~R~~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFl-s~~~l~k~k~W~lQLlAv 128 (335)
T KOG0656|consen 50 ANLLEKEEQHNPSLDYFLCVQKLILSSMRKQALDWILKVCEEYNFEPLVFLLAMNYLDRFL-SSQKLPKDKPWMLQLLAV 128 (335)
T ss_pred HHHHHHHHHhCCCCchhhhcccccccHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHhh-cccccCCCchHHHHHHHH
Confidence 34555666655555532222 23457788888888888889999999874433 222233455 678999
Q ss_pred HHHHHHHHHcCCCCCC
Q psy11273 202 FCIHLACKWANWEIPQ 217 (730)
Q Consensus 202 AAIyLAakllgi~iP~ 217 (730)
||+.||+++--...|-
T Consensus 129 aCLsLAsKmeE~~vPl 144 (335)
T KOG0656|consen 129 ACLSLASKMEETDVPL 144 (335)
T ss_pred HHHHHHHhhcCcCCch
Confidence 9999999997665553
No 48
>KOG1924|consensus
Probab=55.38 E-value=10 Score=46.32 Aligned_cols=34 Identities=6% Similarity=0.010 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHcCCCH-HHHHHHHHHHHHHhhc
Q psy11273 42 QQAANLIQDMGQRLQVTQ-LCINTAIVYMHRFYVF 75 (730)
Q Consensus 42 ~~avd~I~eVg~~LkLPq-~TlaTAivyFhRFysr 75 (730)
+.++.|...+...++..+ +....+..|.++...-
T Consensus 118 ~kmis~~l~~k~~~~~s~ne~~~~s~eyV~~l~~g 152 (1102)
T KOG1924|consen 118 RKMISQYLQMKMMIRKSDNEAKGSSPEYVVELRSG 152 (1102)
T ss_pred HHHHHHHHHHHHHHhhhhhhhccCChHHHHHHHcc
Confidence 344445555554443332 3444555555555443
No 49
>KOG0794|consensus
Probab=54.39 E-value=16 Score=38.96 Aligned_cols=55 Identities=15% Similarity=0.181 Sum_probs=35.9
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHccccccccccCCcHHHHHHHHHHHHHHHcCC
Q psy11273 158 TYVVKCCHLVRASKDLAQTSYFMASNSLHLTTMCLQYRSTVVACFCIHLACKWANW 213 (730)
Q Consensus 158 ~FL~rflk~L~~skeL~qlA~~ILnDSL~lT~LcL~y~PS~IAAAAIyLAakllgi 213 (730)
.+|..+...+...+.+..+|.-++...+.+.. .-.+.|..+|..||||||+.-..
T Consensus 46 n~I~~lg~~lklRQ~ViATAivY~rRfy~r~S-~k~~~p~lla~TClyLAcKvEE~ 100 (264)
T KOG0794|consen 46 NVIQKLGQHLKLRQRVIATAIVYFRRFYLRKS-LKEIEPRLLAPTCLYLACKVEEC 100 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-hhccCHHHHHHHHHHHHhhhhhc
Confidence 34444455555666676666555444332222 45799999999999999997543
No 50
>KOG4557|consensus
Probab=53.46 E-value=65 Score=34.30 Aligned_cols=79 Identities=16% Similarity=0.200 Sum_probs=49.2
Q ss_pred ccCHHHHhcCCCccCCCCHHHHHHHHHHHHH--------HHHHHHHHcCCCHHHHHHHHHHHHHHhhcCc-----cccch
Q psy11273 16 YFTKEQLENTPSRKCGYDAEKELSCRQQAAN--------LIQDMGQRLQVTQLCINTAIVYMHRFYVFHS-----FTQFH 82 (730)
Q Consensus 16 LFT~EQLe~TPSrrdGIs~e~El~lR~~avd--------~I~eVg~~LkLPq~TlaTAivyFhRFysrkS-----i~~~d 82 (730)
.|+++++.. ..|++.....+-...+-+ -++++|.+|++- +++-.|..++.-|-.+.. -.++.
T Consensus 60 ~fDr~~avK----LSGl~k~~Y~~~~~sfe~llgln~~~~VrdlaVQfgc~-evi~~a~~vl~syk~~lpaT~~~~~D~S 134 (262)
T KOG4557|consen 60 IFDRQAAVK----LSGLSKKAYSRSFNSFENLLGLNIKLNVRDLAVQFGCV-EVIKSAQNVLSSYKERLPATRRANADFS 134 (262)
T ss_pred cccHHHHHH----hccccHHHHHHHHHHHHHHhcchhhcCHHHHHHHHhHH-HHHHHHHHHHHHHHhcCchhhhcCCccc
Confidence 466666654 466665544332221111 245777777764 466788888888876422 23456
Q ss_pred hhHHHHHHHHHHhhhcC
Q psy11273 83 RNSIATAALFLAAKVEE 99 (730)
Q Consensus 83 ~qLVAAACLFLAcKvEE 99 (730)
+-.+.+|++|+|||.-.
T Consensus 135 rP~ft~aA~~~ack~lK 151 (262)
T KOG4557|consen 135 RPVFTAAAFYLACKKLK 151 (262)
T ss_pred chHHHHHHHHHHHHHHH
Confidence 67889999999999754
No 51
>KOG4043|consensus
Probab=48.78 E-value=8.2 Score=39.06 Aligned_cols=12 Identities=25% Similarity=0.321 Sum_probs=6.7
Q ss_pred CcccccCCCCCC
Q psy11273 472 PPYMSAAKLPPP 483 (730)
Q Consensus 472 ~~~~~~~~~~~~ 483 (730)
++|.+-|-||+-
T Consensus 27 g~f~~~~e~Pak 38 (214)
T KOG4043|consen 27 GFFTLKAELPAK 38 (214)
T ss_pred CchhhhccCCch
Confidence 456666655543
No 52
>KOG3598|consensus
Probab=48.42 E-value=8.3 Score=49.59 Aligned_cols=45 Identities=27% Similarity=0.488 Sum_probs=29.6
Q ss_pred CcCCcchhhhhhhhhhhhhhhHHHhhhccchhhhhhhhhhcccCC
Q psy11273 615 HSQHPKKKKKHKEKDKDRDKKHKEKKKHKDDKHKDKRKDKHRESS 659 (730)
Q Consensus 615 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~ 659 (730)
.+|++-|+++.|.++-.+.+.-+|+||++++++|.++++|+++.+
T Consensus 1794 e~e~~~~e~~s~~~~d~~~~~t~E~KK~~~~g~K~ks~~~~~e~~ 1838 (2220)
T KOG3598|consen 1794 EKEAAEKEEESKNAEDEKNKNTAENKKDTKEGEKGKSKDKEKEGE 1838 (2220)
T ss_pred cccccccCccccCccccCCCCchhhhccccccccCCCcccccccc
Confidence 344444455555554445455588888888888888888888764
No 53
>KOG2572|consensus
Probab=47.98 E-value=8 Score=43.95 Aligned_cols=31 Identities=23% Similarity=0.414 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHh---cCChhHHHHhhcccCC
Q psy11273 235 EQLEQLTEEFLAIFD---KCPSKLKKRICSISSN 265 (730)
Q Consensus 235 EqLeeIi~EIL~LYe---~~ps~Lrkrl~e~s~t 265 (730)
..|...|.+++.+.+ +--.+|+.|++.+..+
T Consensus 250 ~nI~~l~dqVle~aeyR~qL~dylknrM~~iAPn 283 (498)
T KOG2572|consen 250 LNIKELCDQVLELAEYRDQLIDYLKNRMRTIAPN 283 (498)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcch
Confidence 345555666666543 3335667777776665
No 54
>KOG2573|consensus
Probab=47.37 E-value=5 Score=45.53 Aligned_cols=112 Identities=15% Similarity=0.108 Sum_probs=55.0
Q ss_pred HHHHHHcCCccccCC-----hHHH-HHHHHHHhcCCHHHHHHHHHHHHccccccc-----cccCCcHHHHHHHHHHHHHH
Q psy11273 141 NVLLQTLGFDVGIEH-----PHTY-VVKCCHLVRASKDLAQTSYFMASNSLHLTT-----MCLQYRSTVVACFCIHLACK 209 (730)
Q Consensus 141 r~ILqaL~FDL~V~~-----P~~F-L~rflk~L~~skeL~qlA~~ILnDSL~lT~-----LcL~y~PS~IAAAAIyLAak 209 (730)
..||.+|+=|++... =|.| +..+.+.+..+-..+.++..|.+..-...+ +-..-.-+.+|.+.|-.|-.
T Consensus 173 I~lLDqlDKDINtfaMRirEwYswhFPEL~kiv~DNy~ya~~~~~i~dk~~l~ed~~~~~~e~l~~d~~ka~~Iiea~k~ 252 (498)
T KOG2573|consen 173 IALLDQLDKDINTFAMRIREWYSWHFPELVKIVPDNYKYAKVVKFIVDKEKLNEDGLHELLEDLGVDSEKAQEIIEAAKN 252 (498)
T ss_pred HHHHHHHhhhhhhhHHHHHHHHhhccHHHHHhccchHHHHHHHHHHhchhhccccchhHHHHHhcCcHHHHHHHHHHHhh
Confidence 456667766654321 1111 122333334444555566555432211111 11112245677777777777
Q ss_pred HcCCCCCCCCCCCcccccccCCCCHHHHHHHHHHHHHHH---hcCChhHHHHhhcccCCC
Q psy11273 210 WANWEIPQSNEGRKWFWYIDKEVTQEQLEQLTEEFLAIF---DKCPSKLKKRICSISSNQ 266 (730)
Q Consensus 210 llgi~iP~~~eg~~Ww~~fd~~VT~EqLeeIi~EIL~LY---e~~ps~Lrkrl~e~s~tq 266 (730)
-+|.++.. ++.+.|+.+.+.+.++. .+-..+|+.++.....|.
T Consensus 253 SMG~diS~--------------~Dl~Ni~~fa~rV~~l~eyRk~L~~YL~~KMs~vAPnL 298 (498)
T KOG2573|consen 253 SMGQDISP--------------ADLENIRKFAERVSDLAEYRKQLSDYLKDKMSSVAPNL 298 (498)
T ss_pred ccCCCCCH--------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchH
Confidence 77766532 23344444444444433 345577888887766653
No 55
>PF08208 RNA_polI_A34: DNA-directed RNA polymerase I subunit RPA34.5; InterPro: IPR013240 This is a family of proteins conserved from yeasts to human. Subunit A34.5 of RNA polymerase I is a non-essential subunit which is thought to help Pol I overcome topological constraints imposed on ribosomal DNA during the process of transcription [].; PDB: 3NFG_N.
Probab=45.37 E-value=7 Score=39.66 Aligned_cols=9 Identities=44% Similarity=0.641 Sum_probs=4.0
Q ss_pred hhccccccc
Q psy11273 503 EKSSILNHK 511 (730)
Q Consensus 503 ~~~~~~~~~ 511 (730)
.-..++.|.
T Consensus 33 ~~~~~~~~~ 41 (198)
T PF08208_consen 33 TGKPILKHK 41 (198)
T ss_dssp BSEEEEEET
T ss_pred CCccceeeC
Confidence 333445554
No 56
>KOG2573|consensus
Probab=43.85 E-value=6.2 Score=44.82 Aligned_cols=34 Identities=18% Similarity=0.147 Sum_probs=16.0
Q ss_pred HHHHHHHHHhhcCccccchhhHHHHHHHHHHhhh
Q psy11273 64 TAIVYMHRFYVFHSFTQFHRNSIATAALFLAAKV 97 (730)
Q Consensus 64 TAivyFhRFysrkSi~~~d~qLVAAACLFLAcKv 97 (730)
.++.=+-+|-....+..+.++--+++||==|-=+
T Consensus 33 ~s~~D~~kf~~vv~l~sf~pFk~a~~ALen~n~i 66 (498)
T KOG2573|consen 33 SSVDDLSKFTQVVQLASFAPFKGAADALENANAI 66 (498)
T ss_pred HHHHhHHHHHhHhhhhccCCcccHHHHHHhcccc
Confidence 3344444444444444555555555555444333
No 57
>KOG4043|consensus
Probab=40.76 E-value=13 Score=37.71 Aligned_cols=7 Identities=43% Similarity=0.885 Sum_probs=2.8
Q ss_pred cccCCCC
Q psy11273 543 VINKTPF 549 (730)
Q Consensus 543 ~~~~~~~ 549 (730)
||.|-|.
T Consensus 97 lIEKPPI 103 (214)
T KOG4043|consen 97 LIEKPPI 103 (214)
T ss_pred HHhcCCC
Confidence 3444443
No 58
>KOG2812|consensus
Probab=40.74 E-value=13 Score=41.73 Aligned_cols=10 Identities=50% Similarity=0.551 Sum_probs=4.5
Q ss_pred CCCcCCCCCC
Q psy11273 357 SSSSRVPPPP 366 (730)
Q Consensus 357 s~s~~~~~~~ 366 (730)
+|.+|+|++.
T Consensus 85 ~s~sRs~sr~ 94 (426)
T KOG2812|consen 85 SSRSRSPSRD 94 (426)
T ss_pred cccccCCCcc
Confidence 3444444443
No 59
>KOG2496|consensus
Probab=39.81 E-value=48 Score=36.75 Aligned_cols=53 Identities=17% Similarity=0.369 Sum_probs=38.3
Q ss_pred HHHHHHHhc--CCHHHHHHHHHHHHccccccccccCCcHHHHHHHHHHHHHHHcCC
Q psy11273 160 VVKCCHLVR--ASKDLAQTSYFMASNSLHLTTMCLQYRSTVVACFCIHLACKWANW 213 (730)
Q Consensus 160 L~rflk~L~--~skeL~qlA~~ILnDSL~lT~LcL~y~PS~IAAAAIyLAakllgi 213 (730)
+..|+..+. ....|.-+|..+.... ++.+....|.|..|-++|+|+||++-..
T Consensus 63 l~~f~~k~~p~lp~~Vv~TA~~fFkRf-fL~nsvme~~pk~I~~tc~flA~Kieef 117 (325)
T KOG2496|consen 63 LVNFYSKFKPNLPTSVVSTAIEFFKRF-FLENSVMEYSPKIIMATCFFLACKIEEF 117 (325)
T ss_pred HHHHHHHhcCCCchHHHHHHHHHHHHH-HHhcchhhcChHHHHHHHHHHHhhhHhh
Confidence 445555543 3567777777665454 3566678999999999999999997643
No 60
>KOG2572|consensus
Probab=38.99 E-value=9.4 Score=43.44 Aligned_cols=7 Identities=29% Similarity=0.605 Sum_probs=2.9
Q ss_pred CHHHHHH
Q psy11273 103 KLEHVIR 109 (730)
Q Consensus 103 kLrDII~ 109 (730)
.|+.++.
T Consensus 71 ~L~k~lk 77 (498)
T KOG2572|consen 71 GLEKFLK 77 (498)
T ss_pred hHHHHHH
Confidence 3444443
No 61
>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=36.43 E-value=1.2e+02 Score=29.48 Aligned_cols=90 Identities=14% Similarity=0.189 Sum_probs=55.1
Q ss_pred CChHHHHHHHHHHhcCCHHHHHHHHHHHHccccc----cccc-cCCcHHHHHHHHHHHHHHHcCCCCCCCCCCCcccccc
Q psy11273 154 EHPHTYVVKCCHLVRASKDLAQTSYFMASNSLHL----TTMC-LQYRSTVVACFCIHLACKWANWEIPQSNEGRKWFWYI 228 (730)
Q Consensus 154 ~~P~~FL~rflk~L~~skeL~qlA~~ILnDSL~l----T~Lc-L~y~PS~IAAAAIyLAakllgi~iP~~~eg~~Ww~~f 228 (730)
..-.+|+.++++....+..+.-.|..++.. +.. .... -.+...-+-++||.+|.++++-.- .. ...|....
T Consensus 52 i~i~~fl~ri~~~~~~s~~~~i~aliYl~R-l~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~~-~~--n~~~a~v~ 127 (149)
T PF08613_consen 52 ISIRDFLSRILKYTQCSPECLILALIYLDR-LRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDNT-YS--NKSWAKVG 127 (149)
T ss_dssp S-HHHHHHHHHHHTT--HHHHHHHHHHHHH-HHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS------HHHHHHHH
T ss_pred CcHHHHHHHHHHHcCCChHHHHHHHHHHHH-HHHhhcccccccccchhHHHHHHHHHHHHhhccccc-cc--HHHHHhhc
Confidence 345678888887777777777666665533 222 1222 246788899999999999985321 11 23455443
Q ss_pred cCCCCHHHHHHHHHHHHHHHh
Q psy11273 229 DKEVTQEQLEQLTEEFLAIFD 249 (730)
Q Consensus 229 d~~VT~EqLeeIi~EIL~LYe 249 (730)
+++..+|..+-.++|.+.+
T Consensus 128 --gis~~eln~lE~~fL~~l~ 146 (149)
T PF08613_consen 128 --GISLKELNELEREFLKLLD 146 (149)
T ss_dssp --TS-HHHHHHHHHHHHHHTT
T ss_pred --CCCHHHHHHHHHHHHHHCC
Confidence 5889999998888887654
No 62
>KOG1924|consensus
Probab=35.96 E-value=30 Score=42.49 Aligned_cols=11 Identities=45% Similarity=0.498 Sum_probs=6.4
Q ss_pred eecCCCCCccc
Q psy11273 562 IKISPSKSSEG 572 (730)
Q Consensus 562 ~~~~~~~~~~~ 572 (730)
-+|-|.+-++.
T Consensus 632 ~kI~p~d~s~~ 642 (1102)
T KOG1924|consen 632 SKIVPRDLSEN 642 (1102)
T ss_pred cccCccccCcc
Confidence 34677666553
No 63
>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=35.55 E-value=1.4e+02 Score=29.44 Aligned_cols=84 Identities=15% Similarity=0.247 Sum_probs=48.6
Q ss_pred HcCCCH-HHHHHHHHHHHHHhhcCc-cccchhhHHHHHHHHHHhhhcCCCCCHH-HHHHHHHHhhccCCCCCCCCchHHH
Q psy11273 54 RLQVTQ-LCINTAIVYMHRFYVFHS-FTQFHRNSIATAALFLAAKVEEQPRKLE-HVIRVAQLCLFKNQPPLDPRSEAYQ 130 (730)
Q Consensus 54 ~LkLPq-~TlaTAivyFhRFysrkS-i~~~d~qLVAAACLFLAcKvEEtprkLr-DII~Va~~~l~r~~~~lD~~se~y~ 130 (730)
.+++.+ -.++.+++||.|.-.... +.. +--..|||||+-+||.....+ +|.-. ++. ....
T Consensus 24 ~~~~sDKYLLAmV~~YF~Ragl~~~~Y~r----i~FFlALYLAndmEED~~~~K~~If~f---~~G----------~~w~ 86 (131)
T PF11357_consen 24 CLRVSDKYLLAMVIAYFSRAGLFSWQYQR----IHFFLALYLANDMEEDDEEPKYEIFPF---LYG----------KNWR 86 (131)
T ss_pred chhhhhHHHHHHHHHHHHhcccchhhcch----HHHHHHHHHhhHHHhccchHHHHHHHH---HHC----------cchH
Confidence 344554 377888999998764321 222 223568999999999654322 33322 221 1111
Q ss_pred HHHHHHHHHHHHHHHHcCCccccC
Q psy11273 131 EQAQEIVVNENVLLQTLGFDVGIE 154 (730)
Q Consensus 131 ~~reeIL~mEr~ILqaL~FDL~V~ 154 (730)
...-....+=..+.+.+||...|.
T Consensus 87 ~~~~~F~klr~~~~~~m~~Ra~Vs 110 (131)
T PF11357_consen 87 SQIPQFHKLRDQFWRRMDWRAWVS 110 (131)
T ss_pred HHhHHHHHHHHHHHHHcCCceeeC
Confidence 223345556667788899987664
No 64
>KOG0653|consensus
Probab=35.06 E-value=90 Score=35.25 Aligned_cols=86 Identities=12% Similarity=0.212 Sum_probs=51.2
Q ss_pred HHHHHHHhcCCHHHHHHHHHHHHccccccccccCCcHHHHHHHHHH-HHHHHcCCCCCCCCCCCcccccccCCCCHHHHH
Q psy11273 160 VVKCCHLVRASKDLAQTSYFMASNSLHLTTMCLQYRSTVVACFCIH-LACKWANWEIPQSNEGRKWFWYIDKEVTQEQLE 238 (730)
Q Consensus 160 L~rflk~L~~skeL~qlA~~ILnDSL~lT~LcL~y~PS~IAAAAIy-LAakllgi~iP~~~eg~~Ww~~fd~~VT~EqLe 238 (730)
|...-..++...+...+|.+++ |.++....+-.-.=..++++|++ +|+++-.+.+|... +..-.-+..++.++|.
T Consensus 165 lvevh~~F~L~~ETL~LaVnli-DRfL~~~~v~~~~lqLvgvsalf~IA~K~EE~~~P~v~---dlv~isd~~~s~~~il 240 (391)
T KOG0653|consen 165 LVEVHEKFGLSPETLYLAVNLI-DRFLSKVKVPLKKLQLVGVSALLSIACKYEEISLPSVE---DLVLITDGAYSREEIL 240 (391)
T ss_pred HHHhhhhcCcCHHHHHHHHHHH-HHHHHHhcccHHHhhHHhHHHHHHHHHhhhhccCCccc---eeEeeeCCccchHHHH
Confidence 3333344556677778888887 44422222223334567778856 99999555555422 2222235557888888
Q ss_pred HHHHHHHHHHh
Q psy11273 239 QLTEEFLAIFD 249 (730)
Q Consensus 239 eIi~EIL~LYe 249 (730)
.+...|+...+
T Consensus 241 ~mE~~il~~L~ 251 (391)
T KOG0653|consen 241 RMEKYILNVLE 251 (391)
T ss_pred HHHHHHHhccC
Confidence 88777777654
No 65
>KOG1010|consensus
Probab=34.44 E-value=73 Score=39.63 Aligned_cols=69 Identities=17% Similarity=0.223 Sum_probs=55.5
Q ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhc--CccccchhhHHHHHHHHHHhhhcCCCCCHHHHHHHHH
Q psy11273 44 AANLIQDMGQRLQVTQLCINTAIVYMHRFYVF--HSFTQFHRNSIATAALFLAAKVEEQPRKLEHVIRVAQ 112 (730)
Q Consensus 44 avd~I~eVg~~LkLPq~TlaTAivyFhRFysr--kSi~~~d~qLVAAACLFLAcKvEEtprkLrDII~Va~ 112 (730)
+..-|+.+|.+|.|.+++...-..+|+.-+.. ..++++++.-+.+.|+|+-||++....++.+|+..+.
T Consensus 680 AavRL~~Lc~rL~l~~e~r~~IWtlFehsl~~et~Lm~dRHLDQillCaiy~i~KV~~~~ltF~eIm~~YR 750 (920)
T KOG1010|consen 680 AAVRLNDLCERLSLSDELREQIWTLFEHSLTNETELMRDRHLDQILLCAIYGIAKVKKEDLTFSEIMRAYR 750 (920)
T ss_pred HHHHHHHHHHHhhhhhHHHHHHHHHHHHHHhccHHHHHhhhHHHHHHHHHHhheehhcccchHHHHHHHHh
Confidence 45668899999999998777777777666543 3466788888999999999999998889999887543
No 66
>KOG0566|consensus
Probab=32.76 E-value=9.4e+02 Score=31.01 Aligned_cols=30 Identities=50% Similarity=1.037 Sum_probs=16.3
Q ss_pred hhccCCCCCCCCCCCCCCCCCCcccccCCCCC
Q psy11273 451 VRKNGHDLPVPKPHPPPPPPPPPYMSAAKLPP 482 (730)
Q Consensus 451 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 482 (730)
++.||-.--+|.|+|||.||+|+ -+|+++|
T Consensus 1039 ~s~~~~~~~~~~~~p~p~~~~p~--~~a~~~~ 1068 (1080)
T KOG0566|consen 1039 QSNNGLNQQAPAPLPPPAPPPPP--VGAPLGP 1068 (1080)
T ss_pred hhccccCCCCCCCCCCCCCCCCC--CCCCCCC
Confidence 45566555566666666554443 3455544
No 67
>KOG2675|consensus
Probab=30.35 E-value=87 Score=36.35 Aligned_cols=20 Identities=40% Similarity=0.493 Sum_probs=12.9
Q ss_pred CCceecCCCCCccccccccC
Q psy11273 559 FSPIKISPSKSSEGLKAKLE 578 (730)
Q Consensus 559 ~~~~~~~~~~~~~~~~~~~~ 578 (730)
.-+-+.-|.+--||-|-..|
T Consensus 318 ~~~~k~pp~~ELeGkkW~VE 337 (480)
T KOG2675|consen 318 AAPKKKPPVKELEGKKWRVE 337 (480)
T ss_pred cCCCCCCCceeeccceEEEe
Confidence 33456667777777766655
No 68
>KOG3794|consensus
Probab=29.03 E-value=24 Score=40.17 Aligned_cols=8 Identities=38% Similarity=0.650 Sum_probs=3.7
Q ss_pred CChhhhhh
Q psy11273 311 PPPEYRKL 318 (730)
Q Consensus 311 ~~~~~rk~ 318 (730)
+||-|++.
T Consensus 74 ~PPG~~KE 81 (453)
T KOG3794|consen 74 APPGAKKE 81 (453)
T ss_pred CCCCCCch
Confidence 34444444
No 69
>KOG3410|consensus
Probab=28.59 E-value=23 Score=34.17 Aligned_cols=25 Identities=44% Similarity=0.514 Sum_probs=14.0
Q ss_pred CCCCCCCcCCcchhhhhhhhhhhhh
Q psy11273 609 QEPHESHSQHPKKKKKHKEKDKDRD 633 (730)
Q Consensus 609 ~~~~~~~~~~~~~~~~~~~~~~~~~ 633 (730)
.+++.+..+-+|||+||||+++.++
T Consensus 14 KLK~v~~k~~~kKKkk~K~k~~~e~ 38 (120)
T KOG3410|consen 14 KLKKVSEKGLKKKKKKHKHKDEEED 38 (120)
T ss_pred hhhchhhhhhhhhhhcccchHHHHH
Confidence 3444444456666667777665433
No 70
>KOG3925|consensus
Probab=25.59 E-value=51 Score=37.18 Aligned_cols=19 Identities=21% Similarity=0.333 Sum_probs=13.3
Q ss_pred CCCCCCCeEEeeccccccc
Q psy11273 659 SHVDPAPIKITIPKDKIIE 677 (730)
Q Consensus 659 ~~~~~~~~~~~~~~~~~~~ 677 (730)
....+.+|-|-||-.=|..
T Consensus 63 ~~~~~~t~SIaiPgsil~n 81 (371)
T KOG3925|consen 63 DESRPYTYSIAIPGSILNN 81 (371)
T ss_pred CCCCceEEEEEechHHHhh
Confidence 3467778999999765543
No 71
>PF13591 MerR_2: MerR HTH family regulatory protein
Probab=24.48 E-value=1.8e+02 Score=25.83 Aligned_cols=43 Identities=21% Similarity=0.421 Sum_probs=35.0
Q ss_pred CCCcccCHHHHhcCCCccCCCCHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhh
Q psy11273 12 PDRWYFTKEQLENTPSRKCGYDAEKELSCRQQAANLIQDMGQRLQVTQLCINTAIVYMHRFYV 74 (730)
Q Consensus 12 ~s~WLFT~EQLe~TPSrrdGIs~e~El~lR~~avd~I~eVg~~LkLPq~TlaTAivyFhRFys 74 (730)
+..|+|+.+++.. +..+.+++..|+++...++.+..+++|...
T Consensus 32 ~~~~~f~~~~l~r--------------------l~~~~rL~~Dl~in~~gi~lil~LLd~i~~ 74 (84)
T PF13591_consen 32 EEEWYFSEEDLAR--------------------LRRIRRLHRDLGINLEGIALILDLLDRIEQ 74 (84)
T ss_pred CCeeeECHHHHHH--------------------HHHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Confidence 3578888888874 234778999999999999999999998754
No 72
>KOG0655|consensus
Probab=24.12 E-value=2.2e+02 Score=32.31 Aligned_cols=47 Identities=11% Similarity=0.202 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHcCCCCCCCCCCCcccccccCCCCHHHHHHHHHHHHH
Q psy11273 197 TVVACFCIHLACKWANWEIPQSNEGRKWFWYIDKEVTQEQLEQLTEEFLA 246 (730)
Q Consensus 197 S~IAAAAIyLAakllgi~iP~~~eg~~Ww~~fd~~VT~EqLeeIi~EIL~ 246 (730)
..|..+|+|+|+++-.+-.|... ++.-.-+.-.+.++|..+-.-|++
T Consensus 189 QLIGitsLFIAAK~EEIYpPKl~---eFAyvTDgAcs~ddIltmE~iilk 235 (408)
T KOG0655|consen 189 QLIGITSLFIAAKLEEIYPPKLI---EFAYVTDGACSEDDILTMELIILK 235 (408)
T ss_pred HHhhHHHHHHHHHHhhccCcccc---ceeeeccCccchHHHHHHHHHHHH
Confidence 45788999999998877666432 222222444566666555433333
No 73
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=22.47 E-value=81 Score=36.60 Aligned_cols=77 Identities=10% Similarity=0.154 Sum_probs=52.1
Q ss_pred CHHHHHHHHHHHHccccccccccCCcHHHHHHHHHHHHHHHcCCCCCCCCCCCcccccccCCCCHHHHHHHHHHHHHHHh
Q psy11273 170 SKDLAQTSYFMASNSLHLTTMCLQYRSTVVACFCIHLACKWANWEIPQSNEGRKWFWYIDKEVTQEQLEQLTEEFLAIFD 249 (730)
Q Consensus 170 skeL~qlA~~ILnDSL~lT~LcL~y~PS~IAAAAIyLAakllgi~iP~~~eg~~Ww~~fd~~VT~EqLeeIi~EIL~LYe 249 (730)
..+-.-+|.+|+ |.+.....+..=.-..+|++|+++||++..+..|... ...-..+..++.+++.+.-..++...+
T Consensus 230 lpeTL~lainii-DrfLs~~~v~l~k~QLvg~s~LfIa~K~EE~~~p~i~---~l~~~t~g~~t~~~i~~aE~~ml~~l~ 305 (440)
T COG5024 230 LPETLFLAINII-DRFLSSRVVSLEKYQLVGISALFIASKYEEVNCPSIK---DLVYATDGAFTRDDIIRAERYMLEVLD 305 (440)
T ss_pred cchHHHHHHHHH-HHHhccCcccHHHHHHHHHHHHHHHHhHhHhcCHHHH---HHHHHHcccccHHHHHHHHHHHhhhcc
Confidence 344555666666 4443444555566778999999999999877666421 222234666888999888888888776
Q ss_pred c
Q psy11273 250 K 250 (730)
Q Consensus 250 ~ 250 (730)
-
T Consensus 306 f 306 (440)
T COG5024 306 F 306 (440)
T ss_pred c
Confidence 4
No 74
>KOG0526|consensus
Probab=21.27 E-value=51 Score=39.02 Aligned_cols=12 Identities=42% Similarity=0.542 Sum_probs=7.2
Q ss_pred ccCCCCCCCCce
Q psy11273 551 MKTPTPPSFSPI 562 (730)
Q Consensus 551 ~~~~~~~~~~~~ 562 (730)
.+++|.-.|+-|
T Consensus 400 lk~g~~~tFs~i 411 (615)
T KOG0526|consen 400 LKSGTSYTFSNI 411 (615)
T ss_pred EcCCCeeeeccc
Confidence 456666666655
Done!