Query psy1168
Match_columns 229
No_of_seqs 160 out of 1145
Neff 8.8
Searched_HMMs 46136
Date Fri Aug 16 16:06:40 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1168.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/1168hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0794|consensus 100.0 3.5E-45 7.5E-50 286.3 14.3 209 6-216 1-211 (264)
2 TIGR00569 ccl1 cyclin ccl1. Un 100.0 3.5E-43 7.7E-48 295.2 19.8 202 10-224 1-231 (305)
3 KOG0834|consensus 100.0 3.8E-44 8.1E-49 300.5 13.1 209 13-224 7-219 (323)
4 KOG0835|consensus 100.0 1.5E-33 3.2E-38 231.1 16.8 182 32-215 10-199 (367)
5 COG5333 CCL1 Cdk activating ki 100.0 1.8E-32 3.8E-37 224.8 15.1 172 36-216 36-209 (297)
6 KOG2496|consensus 100.0 2.8E-28 6E-33 198.5 12.7 189 10-211 2-220 (325)
7 KOG0656|consensus 99.9 3.9E-24 8.4E-29 179.8 15.6 157 42-211 75-238 (335)
8 PRK00423 tfb transcription ini 99.9 3.9E-23 8.5E-28 175.7 17.9 158 41-216 119-276 (310)
9 KOG0653|consensus 99.8 2.3E-20 5.1E-25 163.4 10.6 161 42-216 155-316 (391)
10 KOG0655|consensus 99.8 7.8E-20 1.7E-24 150.7 8.5 159 37-209 137-307 (408)
11 COG1405 SUA7 Transcription ini 99.8 4E-18 8.6E-23 142.1 15.8 152 47-215 99-250 (285)
12 KOG1597|consensus 99.8 5E-18 1.1E-22 138.4 13.4 165 45-226 104-274 (308)
13 COG5024 Cyclin [Cell division 99.8 2.3E-18 5E-23 150.0 10.1 163 41-217 209-371 (440)
14 PF00134 Cyclin_N: Cyclin, N-t 99.7 5E-18 1.1E-22 126.2 7.7 101 41-155 27-127 (127)
15 cd00043 CYCLIN Cyclin box fold 99.5 3.5E-13 7.6E-18 92.7 8.8 87 45-147 2-88 (88)
16 KOG0654|consensus 99.4 3E-13 6.6E-18 115.2 6.9 162 43-218 135-297 (359)
17 smart00385 CYCLIN domain prese 99.3 5.1E-12 1.1E-16 85.9 7.6 83 50-148 1-83 (83)
18 KOG1598|consensus 99.1 2.5E-10 5.3E-15 100.7 9.0 150 47-216 69-226 (521)
19 PF00382 TFIIB: Transcription 99.0 4E-09 8.8E-14 70.3 7.6 63 52-115 1-63 (71)
20 KOG4164|consensus 98.5 1.9E-07 4.2E-12 79.5 6.9 106 36-157 377-482 (497)
21 PF02984 Cyclin_C: Cyclin, C-t 98.5 8.1E-08 1.7E-12 69.9 2.6 59 157-215 1-59 (118)
22 PRK00423 tfb transcription ini 98.2 7.5E-06 1.6E-10 70.0 9.5 66 49-115 220-285 (310)
23 cd00043 CYCLIN Cyclin box fold 98.2 3.6E-06 7.8E-11 57.3 5.2 60 156-215 2-61 (88)
24 smart00385 CYCLIN domain prese 98.2 4.1E-06 9E-11 56.4 5.0 56 161-216 1-56 (83)
25 PF00382 TFIIB: Transcription 98.1 6.5E-06 1.4E-10 54.7 5.8 54 163-216 1-54 (71)
26 PF08613 Cyclin: Cyclin; Inte 98.1 4.8E-05 1E-09 58.1 10.0 91 48-154 54-149 (149)
27 COG1405 SUA7 Transcription ini 97.2 0.0016 3.5E-08 54.8 7.6 66 49-115 195-260 (285)
28 KOG1597|consensus 96.9 0.0051 1.1E-07 51.2 8.1 67 48-115 203-269 (308)
29 PF01857 RB_B: Retinoblastoma- 96.1 0.05 1.1E-06 40.7 8.2 73 43-116 9-83 (135)
30 TIGR00569 ccl1 cyclin ccl1. Un 93.3 0.21 4.6E-06 42.6 5.8 53 162-214 62-116 (305)
31 PF02984 Cyclin_C: Cyclin, C-t 93.2 0.14 3.1E-06 36.5 4.1 56 49-104 4-59 (118)
32 PF00134 Cyclin_N: Cyclin, N-t 92.4 0.51 1.1E-05 34.2 6.1 55 161-215 36-90 (127)
33 KOG0835|consensus 91.1 0.4 8.6E-06 40.9 4.7 56 51-106 144-201 (367)
34 KOG1674|consensus 88.8 2 4.4E-05 34.8 7.0 92 50-157 80-181 (218)
35 KOG0834|consensus 84.4 1.5 3.3E-05 37.7 4.2 53 161-213 44-96 (323)
36 KOG1598|consensus 84.2 2 4.3E-05 39.0 5.0 60 64-124 185-247 (521)
37 KOG4557|consensus 79.4 21 0.00046 28.9 8.6 81 19-105 60-153 (262)
38 COG5333 CCL1 Cdk activating ki 78.7 2.8 6.1E-05 35.5 3.8 54 161-214 50-103 (297)
39 KOG0794|consensus 76.2 5.3 0.00011 32.6 4.5 51 162-212 47-97 (264)
40 KOG1675|consensus 74.6 7.3 0.00016 33.1 5.1 95 50-159 195-291 (343)
41 KOG0656|consensus 70.1 14 0.00031 31.9 6.0 58 159-216 81-141 (335)
42 PF01857 RB_B: Retinoblastoma- 70.0 14 0.0003 27.6 5.3 56 159-214 14-71 (135)
43 KOG2496|consensus 68.1 15 0.00032 31.3 5.5 49 165-213 65-115 (325)
44 KOG1010|consensus 67.7 18 0.00039 35.1 6.5 76 41-117 673-750 (920)
45 KOG0213|consensus 52.5 1.9E+02 0.0042 28.3 10.3 88 19-114 632-723 (1172)
46 PF11357 Spy1: Cell cycle regu 50.5 1E+02 0.0022 22.9 7.5 88 56-157 22-110 (131)
47 PF13591 MerR_2: MerR HTH fami 47.7 65 0.0014 21.7 5.1 42 15-77 32-73 (84)
48 TIGR00873 gnd 6-phosphoglucona 41.2 77 0.0017 28.9 6.0 34 45-78 397-430 (467)
49 COG2117 Predicted subunit of t 35.2 34 0.00075 26.5 2.3 43 145-187 18-67 (198)
50 PF11526 CFIA_Pcf11: Subunit o 35.1 25 0.00054 24.0 1.4 20 13-32 11-30 (84)
51 KOG3785|consensus 32.3 1.1E+02 0.0024 27.1 5.2 64 148-211 305-374 (557)
52 PF14502 HTH_41: Helix-turn-he 32.2 77 0.0017 19.2 3.0 25 51-75 8-32 (48)
53 PF02286 Dehydratase_LU: Dehyd 27.0 68 0.0015 28.9 3.1 67 6-74 374-443 (554)
54 PF14383 VARLMGL: DUF761-assoc 26.9 25 0.00055 19.5 0.3 9 1-9 22-30 (34)
55 cd03687 Dehydratase_LU Dehydra 24.2 87 0.0019 28.2 3.2 101 6-116 367-470 (545)
56 PRK15444 pduC propanediol dehy 24.0 90 0.0019 28.1 3.3 101 6-116 374-477 (554)
57 KOG0654|consensus 23.6 1.4E+02 0.0029 26.3 4.3 36 68-103 258-293 (359)
58 cd03197 GST_C_mPGES2 GST_C fam 23.4 1.9E+02 0.0042 21.9 4.6 66 36-105 3-73 (149)
59 PF08259 Periviscerokin: Periv 22.7 35 0.00076 13.9 0.3 7 2-8 4-10 (11)
60 KOG0653|consensus 21.3 1.7E+02 0.0036 26.0 4.5 90 13-105 227-316 (391)
61 TIGR01565 homeo_ZF_HD homeobox 21.2 1.1E+02 0.0024 19.2 2.5 37 19-66 7-49 (58)
62 PF02796 HTH_7: Helix-turn-hel 20.6 1.9E+02 0.0041 16.7 3.3 29 39-68 12-40 (45)
No 1
>KOG0794|consensus
Probab=100.00 E-value=3.5e-45 Score=286.26 Aligned_cols=209 Identities=54% Similarity=0.903 Sum_probs=194.6
Q ss_pred ccccchh-hhccCCcccHHHHHHhhhcCCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhhcccccc
Q psy1168 6 TQGRFYP-EWIQQWVLDRQDLIRERKHDLSILSDEEYQKIFIFFANFIQILGEQLKLRQQVIATATVYFKRFYARNSLKC 84 (229)
Q Consensus 6 ~~~~~~~-~~~~~w~f~~~~l~~~~~~~~~~~s~~~e~~~r~~~~~~I~~~~~~l~l~~~~~~~A~~~~~Rf~~~~s~~~ 84 (229)
|+||||+ +|..+|+|+++++...++.+..+++.+++.+++.+..+.|..+|+++++.+.|++||++||+|||.++|+++
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~ 80 (264)
T KOG0794|consen 1 MAGNFWTSSHYQQWLLDKTELLKERQLDLRGLSEDEYSKLKIFMANVIQKLGQHLKLRQRVIATAIVYFRRFYLRKSLKE 80 (264)
T ss_pred CCcchhhhhhhhhHhcCHHHHhhhccchhhcccHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 8999999 999999999999999998888899999999999999999999999999999999999999999999999999
Q ss_pred CCchhHHHHHHHHHhhcccccccchHHHHHHHHHHHHhhhcccccccchhhHHHHHHHHHHHHHHcCcceeecCChHHHH
Q psy1168 85 IDPLLLAPTCVFLASKVEEFGVISSSRLLSTCQTVVKNKLNYAYAQEFPYRTNHILECEFYLLENLDCCLIVYQPYRPLL 164 (229)
Q Consensus 85 ~~~~~v~~acl~LA~K~ee~~~~~l~~li~~~~~~~~~~~~~~~~~~~~~~~~~i~~~E~~iL~~L~fdl~~~~P~~~l~ 164 (229)
+++.+++.||+|||||+||+| +...+++..+..+++++++ ..++.+....++|..+|+.+|+.|++-|-+.|||+.+.
T Consensus 81 ~~p~lla~TClyLAcKvEE~~-i~~~r~l~~~a~~L~~~f~-~~~e~~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYrsL~ 158 (264)
T KOG0794|consen 81 IEPRLLAPTCLYLACKVEECP-IVHIRLLVNEAKVLKTRFS-YWPEKFPYERKDILEMEFYLLEALDCYLIVHHPYRSLL 158 (264)
T ss_pred cCHHHHHHHHHHHHhhhhhcc-hHHHHHHHHHHHHHhhhcc-cchhhcCCCcCcchhhhhhHHhhhceeEEEecCCccHH
Confidence 999999999999999999998 3667777777778887776 44566677789999999999999999999999999999
Q ss_pred HHHHHhCc-cHHHHHHHHHHHHHHhCCcccccccHHHHHHHHHHHhcccCccc
Q psy1168 165 QLVQDIGH-EDQLLALAWRVINDSLRTDVCLLYPPYQIAIGECSFSFTPHVIA 216 (229)
Q Consensus 165 ~~~~~l~~-~~~i~~~a~~~~~~~~~~~~~l~~~P~~IA~aai~~A~~~~~~~ 216 (229)
.++++.|. +....+.+|.++||++++++|+.|+|..||.||+++|+..++-+
T Consensus 159 q~~qd~gi~d~~~l~~~W~ivNDSyr~Dl~Ll~PPh~IalAcl~Ia~~~~~k~ 211 (264)
T KOG0794|consen 159 QFVQDMGINDQKLLQLAWSIVNDSYRMDLCLLYPPHQIALACLYIACVIDEKD 211 (264)
T ss_pred HHHHHhcccchhhhhhhHhhhcchhhcceeeecCHHHHHHHHHHHHHhhcCCC
Confidence 99999998 56799999999999999999999999999999999999987644
No 2
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=100.00 E-value=3.5e-43 Score=295.17 Aligned_cols=202 Identities=31% Similarity=0.472 Sum_probs=177.6
Q ss_pred chh-hhccCCccc-HHHHHHhhh------------------cCCCCCCHHHHHHHHHHHHHHHHHHHHhcC--CCHHHHH
Q psy1168 10 FYP-EWIQQWVLD-RQDLIRERK------------------HDLSILSDEEYQKIFIFFANFIQILGEQLK--LRQQVIA 67 (229)
Q Consensus 10 ~~~-~~~~~w~f~-~~~l~~~~~------------------~~~~~~s~~~e~~~r~~~~~~I~~~~~~l~--l~~~~~~ 67 (229)
||. ||.+.|.|| ++||...|. ....++++++|..+|.+++.+|.++|.+|+ ||+.|++
T Consensus 1 y~~StQ~r~W~F~~~~~L~~~R~~~N~~~~~~~~~~~~~~~~~~~~Lt~eeE~~l~~~y~~~i~~~~~~lkp~Lpq~via 80 (305)
T TIGR00569 1 YRNSSQKRHWTFTSEEQLQEKRADANAKFREAHEEEEKVLEAKPIFLTPEEELDLVKYYEKRLLDFCSAFKPTMPTSVVG 80 (305)
T ss_pred CCCCcccccCcCCCHHHHHHHHHHHHHHHHHHHhhhccccccccCCCCHHHHHHHHHHHHHHHHHHHHHhcCCCCchHHH
Confidence 677 999999999 999998764 124589999999999999999999999999 9999999
Q ss_pred HHHHHHHHHhhccccccCCchhHHHHHHHHHhhcccccccchHHHHHHHHHHHHhhhcccccccchhhHHHHHHHHHHHH
Q psy1168 68 TATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEEFGVISSSRLLSTCQTVVKNKLNYAYAQEFPYRTNHILECEFYLL 147 (229)
Q Consensus 68 ~A~~~~~Rf~~~~s~~~~~~~~v~~acl~LA~K~ee~~~~~l~~li~~~~~~~~~~~~~~~~~~~~~~~~~i~~~E~~iL 147 (229)
||++||||||.++|+..+++++|++||+|||||+||.++ ++++++.... +....++++|+.+|..||
T Consensus 81 TAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE~~~-si~~fv~~~~------------~~~~~~~~~Il~~E~~lL 147 (305)
T TIGR00569 81 TAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNV-SIDQFVGNLK------------ETPLKALEQVLEYELLLI 147 (305)
T ss_pred HHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhccccCc-CHHHHHhhcc------------CCchhhHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999996 8888876321 122245799999999999
Q ss_pred HHcCcceeecCChHHHHHHHHHhC-------ccHHHHHHHHHHHHHHhCCcccccccHHHHHHHHHHHhcccCccccCCc
Q psy1168 148 ENLDCCLIVYQPYRPLLQLVQDIG-------HEDQLLALAWRVINDSLRTDVCLLYPPYQIAIGECSFSFTPHVIAEVGT 220 (229)
Q Consensus 148 ~~L~fdl~~~~P~~~l~~~~~~l~-------~~~~i~~~a~~~~~~~~~~~~~l~~~P~~IA~aai~~A~~~~~~~~~~~ 220 (229)
++|+|||.++|||+++..|+.+++ ..+.+.+.||.++||++.|+.|+.|+|++||+|||++|+..+++.-.+.
T Consensus 148 ~~L~F~L~V~hPyr~L~~~l~dl~~~l~~~~~~~~l~q~a~~~lndsl~Td~~L~y~Ps~IAlAAI~lA~~~~~~~l~~~ 227 (305)
T TIGR00569 148 QQLNFHLIVHNPYRPLEGFLIDIKTRLPGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIALAAILHTASRAGLNMESY 227 (305)
T ss_pred HHCCCcEEeeCccHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHcCCceecCCHHHHHHHHHHHHHHHhCCCCccc
Confidence 999999999999999999997654 2356889999999999999999999999999999999999988764444
Q ss_pred cccc
Q psy1168 221 LGEV 224 (229)
Q Consensus 221 ~~ev 224 (229)
.+|+
T Consensus 228 ~~e~ 231 (305)
T TIGR00569 228 LTEQ 231 (305)
T ss_pred chhh
Confidence 4443
No 3
>KOG0834|consensus
Probab=100.00 E-value=3.8e-44 Score=300.48 Aligned_cols=209 Identities=30% Similarity=0.431 Sum_probs=188.7
Q ss_pred hhccCCcccHHHHHHhhhcCCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhhccccccCCchhHHH
Q psy1168 13 EWIQQWVLDRQDLIRERKHDLSILSDEEYQKIFIFFANFIQILGEQLKLRQQVIATATVYFKRFYARNSLKCIDPLLLAP 92 (229)
Q Consensus 13 ~~~~~w~f~~~~l~~~~~~~~~~~s~~~e~~~r~~~~~~I~~~~~~l~l~~~~~~~A~~~~~Rf~~~~s~~~~~~~~v~~ 92 (229)
..-+.|+|+++|+++..+...+|++.++|.+.|..++.||.++|.+|++|+.+++||++||||||+.+++++++++.+|+
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 56789999999999544445678999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhcccccccchHHHHHHHHHHHHhhhcccccccchhhHHHHHHHHHHHHHHcCcceeecCChHHHHHHHHHhCc
Q psy1168 93 TCVFLASKVEEFGVISSSRLLSTCQTVVKNKLNYAYAQEFPYRTNHILECEFYLLENLDCCLIVYQPYRPLLQLVQDIGH 172 (229)
Q Consensus 93 acl~LA~K~ee~~~~~l~~li~~~~~~~~~~~~~~~~~~~~~~~~~i~~~E~~iL~~L~fdl~~~~P~~~l~~~~~~l~~ 172 (229)
+|+|||+|+||+++ +++|+|.++++..++.. ....+.|+..++.|+..|..+|++|+|||++.+||.|+..|+++++.
T Consensus 87 sclfLAgKvEetp~-kl~dIi~~s~~~~~~~~-~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~l~~ 164 (323)
T KOG0834|consen 87 SCLFLAGKVEETPR-KLEDIIKVSYRYLNPKD-LELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKKLKA 164 (323)
T ss_pred HHHHHHhhcccCcc-cHHHHHHHHHHHcCccc-ccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHHhhh
Confidence 99999999999997 99999999887665321 23346688999999999999999999999999999999999999987
Q ss_pred cH----HHHHHHHHHHHHHhCCcccccccHHHHHHHHHHHhcccCccccCCccccc
Q psy1168 173 ED----QLLALAWRVINDSLRTDVCLLYPPYQIAIGECSFSFTPHVIAEVGTLGEV 224 (229)
Q Consensus 173 ~~----~i~~~a~~~~~~~~~~~~~l~~~P~~IA~aai~~A~~~~~~~~~~~~~ev 224 (229)
.. .+.+.||.++||++.+.+|++|+|..||+|||++|+...++ +++..++.
T Consensus 165 ~~~~~~~~a~~Aw~~~nD~~~t~~cL~y~p~~IAva~i~lA~~~~~~-~~~~~~~~ 219 (323)
T KOG0834|consen 165 DENLKQPLAQAAWNFVNDSLRTTLCLQYSPHSIAVACIHLAAKLLGV-ELPSDTDK 219 (323)
T ss_pred hhhccccHHHHHHHHhchhheeeeeEeecCcEEEeehhhHHHHHcCC-CCCCCccc
Confidence 55 49999999999999999999999999999999999999998 55555543
No 4
>KOG0835|consensus
Probab=100.00 E-value=1.5e-33 Score=231.14 Aligned_cols=182 Identities=27% Similarity=0.322 Sum_probs=162.1
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhhccccccCCchhHHHHHHHHHhhcccccccchHH
Q psy1168 32 DLSILSDEEYQKIFIFFANFIQILGEQLKLRQQVIATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEEFGVISSSR 111 (229)
Q Consensus 32 ~~~~~s~~~e~~~r~~~~~~I~~~~~~l~l~~~~~~~A~~~~~Rf~~~~s~~~~~~~~v~~acl~LA~K~ee~~~~~l~~ 111 (229)
..++++.+.+..+|..+|.||++-|-.|+||+.+.+|++++|+|||..+++..++...+++||+.||+|+||.|+ ++++
T Consensus 10 ~qd~l~~e~e~el~~LG~e~Iqea~ILL~L~q~a~atgqVLFqRf~~~ks~v~~~~e~vv~ACv~LASKiEE~Pr-r~rd 88 (367)
T KOG0835|consen 10 LQDGLSLETEEELRILGCELIQEAGILLNLPQVAMATGQVLFQRFCYSKSFVRHDFEIVVMACVLLASKIEEEPR-RIRD 88 (367)
T ss_pred hhcccccchHHHHHHHhHHHHHhhhHhhcCcHHHHHHHHHHHHHHHhccccccccHHHHHHHHHHHHhhhccccc-cHhH
Confidence 456778777778888999999999999999999999999999999999999999999999999999999999997 9999
Q ss_pred HHHHHHHHHHhhh-----cc-cccccchhhHHHHHHHHHHHHHHcCcceeecCChHHHHHHHHHhCccH--HHHHHHHHH
Q psy1168 112 LLSTCQTVVKNKL-----NY-AYAQEFPYRTNHILECEFYLLENLDCCLIVYQPYRPLLQLVQDIGHED--QLLALAWRV 183 (229)
Q Consensus 112 li~~~~~~~~~~~-----~~-~~~~~~~~~~~~i~~~E~~iL~~L~fdl~~~~P~~~l~~~~~~l~~~~--~i~~~a~~~ 183 (229)
++++.... +++. +. .....+...+..++.+|..||+.|||+..+.+||.++..|++.+++++ .+.|.+|.+
T Consensus 89 VinVFh~L-~~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~~~~~~~l~Q~~wNf 167 (367)
T KOG0835|consen 89 VINVFHYL-EQRRESEAAEHLILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQLPPNLKLLQAAWNF 167 (367)
T ss_pred HHHHHHHH-HHHHhccCcchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhcCCCchhHHHHHHHh
Confidence 99986643 3321 11 123445667889999999999999999999999999999999999864 579999999
Q ss_pred HHHHhCCcccccccHHHHHHHHHHHhcccCcc
Q psy1168 184 INDSLRTDVCLLYPPYQIAIGECSFSFTPHVI 215 (229)
Q Consensus 184 ~~~~~~~~~~l~~~P~~IA~aai~~A~~~~~~ 215 (229)
+||++.|++|..|+|..||+||||+|+...+|
T Consensus 168 mNDslRT~v~vry~pe~iACaciyLaAR~~eI 199 (367)
T KOG0835|consen 168 MNDSLRTDVFVRYSPESIACACIYLAARNLEI 199 (367)
T ss_pred hhhccccceeeecCHHHHHHHHHHHHHhhhcC
Confidence 99999999999999999999999999998764
No 5
>COG5333 CCL1 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=100.00 E-value=1.8e-32 Score=224.83 Aligned_cols=172 Identities=37% Similarity=0.603 Sum_probs=150.8
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhhccccccCCchhHHHHHHHHHhhcccccccchHHHHHH
Q psy1168 36 LSDEEYQKIFIFFANFIQILGEQLKLRQQVIATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEEFGVISSSRLLST 115 (229)
Q Consensus 36 ~s~~~e~~~r~~~~~~I~~~~~~l~l~~~~~~~A~~~~~Rf~~~~s~~~~~~~~v~~acl~LA~K~ee~~~~~l~~li~~ 115 (229)
++-+++..+|.+++.+|..+|.+|++|+.+.+||+.+|+||+.+++.++.+++.++.||+|||||.||+++ ++...
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~ 111 (297)
T COG5333 36 LTLEKELNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVEDTPR----DISIE 111 (297)
T ss_pred cchhhhhhHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhhcccccccHHHHHHhheeeeeecccccc----hhhHH
Confidence 55588889999999999999999999999999999999999999999999999999999999999999863 22111
Q ss_pred HHHHHHhhhcccccccchhhHHHHHHHHHHHHHHcCcceeecCChHHHHHHHHHhCccH--HHHHHHHHHHHHHhCCccc
Q psy1168 116 CQTVVKNKLNYAYAQEFPYRTNHILECEFYLLENLDCCLIVYQPYRPLLQLVQDIGHED--QLLALAWRVINDSLRTDVC 193 (229)
Q Consensus 116 ~~~~~~~~~~~~~~~~~~~~~~~i~~~E~~iL~~L~fdl~~~~P~~~l~~~~~~l~~~~--~i~~~a~~~~~~~~~~~~~ 193 (229)
+... ++. .++..+.+++.|+.+|..+|++|+||+.++|||.++..|++++.... ++.+.||.+++|++.+++|
T Consensus 112 ~~~~-~~~----~se~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~~q~~~~~~~~~~aw~~inDa~~t~~~ 186 (297)
T COG5333 112 SFEA-RDL----WSEEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDKYKLLQIAWKIINDALRTDLC 186 (297)
T ss_pred HHHh-hcc----ccccccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHHHHhccHHHHHHHHHHHHHhhhhceee
Confidence 1111 111 23566778999999999999999999999999999999999987654 5999999999999999999
Q ss_pred ccccHHHHHHHHHHHhcccCccc
Q psy1168 194 LLYPPYQIAIGECSFSFTPHVIA 216 (229)
Q Consensus 194 l~~~P~~IA~aai~~A~~~~~~~ 216 (229)
+.|+|.+||+||+.+|+..+|..
T Consensus 187 llypphiIA~a~l~ia~~~~~~~ 209 (297)
T COG5333 187 LLYPPHIIALAALLIACEVLGMP 209 (297)
T ss_pred eecChHHHHHHHHHHHHHhcCCc
Confidence 99999999999999999988754
No 6
>KOG2496|consensus
Probab=99.96 E-value=2.8e-28 Score=198.52 Aligned_cols=189 Identities=27% Similarity=0.414 Sum_probs=146.2
Q ss_pred chh-hhccCCcccHHHHHHhhhc------------C------CCCCCHHHHHHHHHHHHHHHHHHHHhc--CCCHHHHHH
Q psy1168 10 FYP-EWIQQWVLDRQDLIRERKH------------D------LSILSDEEYQKIFIFFANFIQILGEQL--KLRQQVIAT 68 (229)
Q Consensus 10 ~~~-~~~~~w~f~~~~l~~~~~~------------~------~~~~s~~~e~~~r~~~~~~I~~~~~~l--~l~~~~~~~ 68 (229)
|.. +|++.|+||++||.+.|.. + -..+.+.++..+-.....-+.+.|+++ ++|..|+.|
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~T 81 (325)
T KOG2496|consen 2 YRTSSQYRKWIFTEEQLAERRVDANQKAIQMLEEEAHNLDENEVFVLEAEELTLTKEEELSLVNFYSKFKPNLPTSVVST 81 (325)
T ss_pred CCcchhhhcccccHHHHHHHHHHHHHHHHHHHHHhccCCCccchhccccccccccHHHHHHHHHHHHHhcCCCchHHHHH
Confidence 445 9999999999999987531 1 112233333333333334445555544 689999999
Q ss_pred HHHHHHHHhhccccccCCchhHHHHHHHHHhhcccccccchHHHHHHHHHHHHhhhcccccccchhhHHHHHHHHHHHHH
Q psy1168 69 ATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEEFGVISSSRLLSTCQTVVKNKLNYAYAQEFPYRTNHILECEFYLLE 148 (229)
Q Consensus 69 A~~~~~Rf~~~~s~~~~~~~~v~~acl~LA~K~ee~~~~~l~~li~~~~~~~~~~~~~~~~~~~~~~~~~i~~~E~~iL~ 148 (229)
|+.||+|||..+|.+++++..|++||+|||||++|..+ +++++++... .+-+...+.|+.+|..+|+
T Consensus 82 A~~fFkRffL~nsvme~~pk~I~~tc~flA~Kieef~I-SieqFvkn~~------------~~~~k~~e~vLk~E~~llq 148 (325)
T KOG2496|consen 82 AIEFFKRFFLENSVMEYSPKIIMATCFFLACKIEEFYI-SIEQFVKNMN------------GRKWKTHEIVLKYEFLLLQ 148 (325)
T ss_pred HHHHHHHHHHhcchhhcChHHHHHHHHHHHhhhHhhee-cHHHHHhhcc------------CcccccHHHHHhchHHHHH
Confidence 99999999999999999999999999999999999985 9999877533 1123457899999999999
Q ss_pred HcCcceeecCChHHHHHHHHHhCc-------cHHHHHHH--HHHHHHHhCCcccccccHHHHHHHHHHHhcc
Q psy1168 149 NLDCCLIVYQPYRPLLQLVQDIGH-------EDQLLALA--WRVINDSLRTDVCLLYPPYQIAIGECSFSFT 211 (229)
Q Consensus 149 ~L~fdl~~~~P~~~l~~~~~~l~~-------~~~i~~~a--~~~~~~~~~~~~~l~~~P~~IA~aai~~A~~ 211 (229)
.|+|+|.+.+||+.+..|+.++.. .....+.. ..+++..+.++.++.|+|++||+|||..|..
T Consensus 149 sL~f~L~vh~PyRPleGFl~D~kt~l~~~~n~d~~~~~~d~~~fl~~~lltDa~lLytPsQIALaAil~a~~ 220 (325)
T KOG2496|consen 149 SLKFSLTVHNPYRPLEGFLLDMKTRLPALENPDILRKHDDSKKFLDRALLTDAYLLYTPSQIALAAILHAAG 220 (325)
T ss_pred hhhhhheecCCCCchHHHHHHHHHHHHhccCHHHHhhhhhHHHHHHHHHHhccceecChHHHHHHHHHHHhc
Confidence 999999999999999999987642 12222222 4899999999999999999999999955543
No 7
>KOG0656|consensus
Probab=99.92 E-value=3.9e-24 Score=179.77 Aligned_cols=157 Identities=22% Similarity=0.240 Sum_probs=136.6
Q ss_pred HHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhhccccccCC---chhHHHHHHHHHhhcccccccchHHHHHHHHH
Q psy1168 42 QKIFIFFANFIQILGEQLKLRQQVIATATVYFKRFYARNSLKCID---PLLLAPTCVFLASKVEEFGVISSSRLLSTCQT 118 (229)
Q Consensus 42 ~~~r~~~~~~I~~~~~~l~l~~~~~~~A~~~~~Rf~~~~s~~~~~---~~~v~~acl~LA~K~ee~~~~~l~~li~~~~~ 118 (229)
-.+|..+++||.++|+..++...|...|++|++||+..+++.+.+ .+++|+|||+||+|++|..+|-+.|+....
T Consensus 75 ~~~R~~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~-- 152 (335)
T KOG0656|consen 75 SSMRKQALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVACLSLASKMEETDVPLLADLQVEY-- 152 (335)
T ss_pred cHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCCchHHHHHHHHHHHHHHHhhcCcCCchhhhhhhcc--
Confidence 346889999999999999999999999999999999999888888 999999999999999999766777765432
Q ss_pred HHHhhhcccccccchhhHHHHHHHHHHHHHHcCcceeecCChHHHHHHHHHhCc----cHHHHHHHHHHHHHHhCCcccc
Q psy1168 119 VVKNKLNYAYAQEFPYRTNHILECEFYLLENLDCCLIVYQPYRPLLQLVQDIGH----EDQLLALAWRVINDSLRTDVCL 194 (229)
Q Consensus 119 ~~~~~~~~~~~~~~~~~~~~i~~~E~~iL~~L~fdl~~~~P~~~l~~~~~~l~~----~~~i~~~a~~~~~~~~~~~~~l 194 (229)
.++-...+.|.+||..||.+|+|++...||++|+..|+.+++. ...+...+..++-......-++
T Consensus 153 -----------~~~~feaktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~ki~~~~~~~~~~~~~~s~~ll~~~~d~~Fl 221 (335)
T KOG0656|consen 153 -----------TDNVFEAKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSKISQKDHNKHLFLKHASLFLLSVITDIKFL 221 (335)
T ss_pred -----------ccccccHHHHHHHHHHHHhhccccccCCCchHHHHHHHHHcCcccchHHHHHHHHHHHHHHHhhhhhhh
Confidence 1233458999999999999999999999999999999999987 4677888888888877777899
Q ss_pred cccHHHHHHHHHHHhcc
Q psy1168 195 LYPPYQIAIGECSFSFT 211 (229)
Q Consensus 195 ~~~P~~IA~aai~~A~~ 211 (229)
.|+||.||+|++..+..
T Consensus 222 ~y~pSviAaa~~~~v~~ 238 (335)
T KOG0656|consen 222 EYPPSVIAAAAILSVSA 238 (335)
T ss_pred cCChHHHHHHHHHHHHH
Confidence 99999999997755543
No 8
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.91 E-value=3.9e-23 Score=175.72 Aligned_cols=158 Identities=12% Similarity=0.137 Sum_probs=144.5
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhhccccccCCchhHHHHHHHHHhhcccccccchHHHHHHHHHHH
Q psy1168 41 YQKIFIFFANFIQILGEQLKLRQQVIATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEEFGVISSSRLLSTCQTVV 120 (229)
Q Consensus 41 e~~~r~~~~~~I~~~~~~l~l~~~~~~~A~~~~~Rf~~~~s~~~~~~~~v~~acl~LA~K~ee~~~~~l~~li~~~~~~~ 120 (229)
++.+ ..+...|.++|..|+||..+..+|..+|++++..+.+++.+...+++||||+|||.++.|+ +++++...+.
T Consensus 119 er~l-~~a~~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~~~rgrs~~~i~AAclYiACR~~~~pr-tl~eI~~~~~--- 193 (310)
T PRK00423 119 ERNL-AFALSELDRIASQLGLPRSVREEAAVIYRKAVEKGLIRGRSIEGVVAAALYAACRRCKVPR-TLDEIAEVSR--- 193 (310)
T ss_pred hHHH-HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHcCCCc-CHHHHHHHhC---
Confidence 4444 4677999999999999999999999999999999999999999999999999999999997 9999876532
Q ss_pred HhhhcccccccchhhHHHHHHHHHHHHHHcCcceeecCChHHHHHHHHHhCccHHHHHHHHHHHHHHhCCcccccccHHH
Q psy1168 121 KNKLNYAYAQEFPYRTNHILECEFYLLENLDCCLIVYQPYRPLLQLVQDIGHEDQLLALAWRVINDSLRTDVCLLYPPYQ 200 (229)
Q Consensus 121 ~~~~~~~~~~~~~~~~~~i~~~E~~iL~~L~fdl~~~~P~~~l~~~~~~l~~~~~i~~~a~~~~~~~~~~~~~l~~~P~~ 200 (229)
..+++|...++.|++.|++++.+.+|++|+.+|+..|+++..+.+.|+.+++++....++.+.+|..
T Consensus 194 -------------v~~k~i~~~~~~l~k~L~~~~~~~~p~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~~l~~Gr~P~s 260 (310)
T PRK00423 194 -------------VSRKEIGRCYRFLLRELNLKLPPTDPIDYVPRFASELGLSGEVQKKAIEILQKAKEKGLTSGKGPTG 260 (310)
T ss_pred -------------CCHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHH
Confidence 2367888999999999999999999999999999999999999999999999998888999999999
Q ss_pred HHHHHHHHhcccCccc
Q psy1168 201 IAIGECSFSFTPHVIA 216 (229)
Q Consensus 201 IA~aai~~A~~~~~~~ 216 (229)
||+||||+|+..+|..
T Consensus 261 IAAAaIYlA~~~~g~~ 276 (310)
T PRK00423 261 LAAAAIYIASLLLGER 276 (310)
T ss_pred HHHHHHHHHHHHhCCC
Confidence 9999999999988654
No 9
>KOG0653|consensus
Probab=99.83 E-value=2.3e-20 Score=163.36 Aligned_cols=161 Identities=19% Similarity=0.237 Sum_probs=146.2
Q ss_pred HHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhhccccccCCchhHHHHHHH-HHhhcccccccchHHHHHHHHHHH
Q psy1168 42 QKIFIFFANFIQILGEQLKLRQQVIATATVYFKRFYARNSLKCIDPLLLAPTCVF-LASKVEEFGVISSSRLLSTCQTVV 120 (229)
Q Consensus 42 ~~~r~~~~~~I~~~~~~l~l~~~~~~~A~~~~~Rf~~~~s~~~~~~~~v~~acl~-LA~K~ee~~~~~l~~li~~~~~~~ 120 (229)
.++|...++|+.++..+++|..+|+..|+.+++||+.+..+...+.++++++||| ||||.||...|.+.+++..+.+
T Consensus 155 ~~mR~iLvdwlvevh~~F~L~~ETL~LaVnliDRfL~~~~v~~~~lqLvgvsalf~IA~K~EE~~~P~v~dlv~isd~-- 232 (391)
T KOG0653|consen 155 AKMRAILVDWLVEVHEKFGLSPETLYLAVNLIDRFLSKVKVPLKKLQLVGVSALLSIACKYEEISLPSVEDLVLITDG-- 232 (391)
T ss_pred HHHHHHHHHHHHHhhhhcCcCHHHHHHHHHHHHHHHHHhcccHHHhhHHhHHHHHHHHHhhhhccCCccceeEeeeCC--
Confidence 3689999999999999999999999999999999999988989999999999977 9999999887677887654321
Q ss_pred HhhhcccccccchhhHHHHHHHHHHHHHHcCcceeecCChHHHHHHHHHhCccHHHHHHHHHHHHHHhCCcccccccHHH
Q psy1168 121 KNKLNYAYAQEFPYRTNHILECEFYLLENLDCCLIVYQPYRPLLQLVQDIGHEDQLLALAWRVINDSLRTDVCLLYPPYQ 200 (229)
Q Consensus 121 ~~~~~~~~~~~~~~~~~~i~~~E~~iL~~L~fdl~~~~P~~~l~~~~~~l~~~~~i~~~a~~~~~~~~~~~~~l~~~P~~ 200 (229)
...+++|+.||+.+|.+|+|++.+++|+.|++++.+..+.+......+..+++.++...-.+.++|+.
T Consensus 233 ------------~~s~~~il~mE~~il~~L~f~l~~p~~~~FLrr~~ka~~~d~~~~~~~k~~~El~l~d~~~~~~~~s~ 300 (391)
T KOG0653|consen 233 ------------AYSREEILRMEKYILNVLEFDLSVPTPLSFLRRFLKAADYDIKTRTLVKYLLELSLCDYSMLSIPPSS 300 (391)
T ss_pred ------------ccchHHHHHHHHHHHhccCeeecCCchHHHHHHHHHhhhcchhHHHHHHHHHHHHHhhhHHhccCcHH
Confidence 13589999999999999999999999999999999999988888999999999999999899999999
Q ss_pred HHHHHHHHhcccCccc
Q psy1168 201 IAIGECSFSFTPHVIA 216 (229)
Q Consensus 201 IA~aai~~A~~~~~~~ 216 (229)
+|+|+.+++..++...
T Consensus 301 ~aaa~~~~~~~~~~~~ 316 (391)
T KOG0653|consen 301 SAAASFTLALRMLSKG 316 (391)
T ss_pred HHHHHHHHHHHHhccC
Confidence 9999999999987665
No 10
>KOG0655|consensus
Probab=99.81 E-value=7.8e-20 Score=150.69 Aligned_cols=159 Identities=15% Similarity=0.130 Sum_probs=130.3
Q ss_pred CHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhh-ccccccCCchhHHHHHHHHHhhcccccccchHHHHHH
Q psy1168 37 SDEEYQKIFIFFANFIQILGEQLKLRQQVIATATVYFKRFYA-RNSLKCIDPLLLAPTCVFLASKVEEFGVISSSRLLST 115 (229)
Q Consensus 37 s~~~e~~~r~~~~~~I~~~~~~l~l~~~~~~~A~~~~~Rf~~-~~s~~~~~~~~v~~acl~LA~K~ee~~~~~l~~li~~ 115 (229)
.+..+-++|.-..+|+.++|+..+|..+|.+.|+.||+||+. .+.+.+.+.++|+.||||+|+|+||...+++.++..+
T Consensus 137 Hpdlqp~mRaILlDWlmEVCEvykLHRETFyLAvDy~DRyl~t~~~v~kt~lQLIGitsLFIAAK~EEIYpPKl~eFAyv 216 (408)
T KOG0655|consen 137 HPDLQPQMRAILLDWLMEVCEVYKLHRETFYLAVDYFDRYLETQVEVSKTNLQLIGITSLFIAAKLEEIYPPKLIEFAYV 216 (408)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhhhhHHHhhHHHHHHHHHHhhccCccccceeee
Confidence 344455689899999999999999999999999999999987 4567778999999999999999999877788888665
Q ss_pred HHHHHHhhhcccccccchhhHHHHHHHHHHHHHHcCcceeecCChHHHHHHHHHhCcc-----------HHHHHHHHHHH
Q psy1168 116 CQTVVKNKLNYAYAQEFPYRTNHILECEFYLLENLDCCLIVYQPYRPLLQLVQDIGHE-----------DQLLALAWRVI 184 (229)
Q Consensus 116 ~~~~~~~~~~~~~~~~~~~~~~~i~~~E~~iL~~L~fdl~~~~P~~~l~~~~~~l~~~-----------~~i~~~a~~~~ 184 (229)
.-+ ....++|+.||..||++|+|+|.+.+...++.-|++..+.+ +...-....++
T Consensus 217 TDg--------------Acs~ddIltmE~iilkal~W~l~PiTii~WL~vylQv~~~n~~~k~l~Pq~~~~efiqiaqlL 282 (408)
T KOG0655|consen 217 TDG--------------ACSEDDILTMELIILKALKWELSPITIISWLNVYLQVDALNDAPKVLLPQYSQEEFIQIAQLL 282 (408)
T ss_pred ccC--------------ccchHHHHHHHHHHHHHhcccccceehHHHHHHHHHHHhcCCCCceeccccchHHHHHHHHHH
Confidence 322 13478999999999999999999999999999999876542 23333333566
Q ss_pred HHHhCCcccccccHHHHHHHHHHHh
Q psy1168 185 NDSLRTDVCLLYPPYQIAIGECSFS 209 (229)
Q Consensus 185 ~~~~~~~~~l~~~P~~IA~aai~~A 209 (229)
+.+...--++.|+..++||||++--
T Consensus 283 Dlc~ldids~~fsYrilaAAal~h~ 307 (408)
T KOG0655|consen 283 DLCILDIDSLEFSYRILAAAALCHF 307 (408)
T ss_pred HHHHhccccccchHHHHHHHHHHHH
Confidence 6666666688999999999999743
No 11
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=99.79 E-value=4e-18 Score=142.08 Aligned_cols=152 Identities=13% Similarity=0.132 Sum_probs=141.2
Q ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhhccccccCCchhHHHHHHHHHhhcccccccchHHHHHHHHHHHHhhhcc
Q psy1168 47 FFANFIQILGEQLKLRQQVIATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEEFGVISSSRLLSTCQTVVKNKLNY 126 (229)
Q Consensus 47 ~~~~~I~~~~~~l~l~~~~~~~A~~~~~Rf~~~~s~~~~~~~~v~~acl~LA~K~ee~~~~~l~~li~~~~~~~~~~~~~ 126 (229)
.+...|..++..|+||..+..+|+.+|++.+.++..++....-+++||+|+||+.++.|+ ++.++.....
T Consensus 99 ~a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~rGRsie~v~AA~iY~acR~~~~pr-tl~eIa~a~~--------- 168 (285)
T COG1405 99 TALEELERIASALGLPESVRETAARIYRKAVDKGLLRGRSIESVAAACIYAACRINGVPR-TLDEIAKALG--------- 168 (285)
T ss_pred HHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcCCcHHHHHHHHHHHHHHHcCCCc-cHHHHHHHHC---------
Confidence 678999999999999999999999999999999999999999999999999999999997 8888876532
Q ss_pred cccccchhhHHHHHHHHHHHHHHcCcceeecCChHHHHHHHHHhCccHHHHHHHHHHHHHHhCCcccccccHHHHHHHHH
Q psy1168 127 AYAQEFPYRTNHILECEFYLLENLDCCLIVYQPYRPLLQLVQDIGHEDQLLALAWRVINDSLRTDVCLLYPPYQIAIGEC 206 (229)
Q Consensus 127 ~~~~~~~~~~~~i~~~E~~iL~~L~fdl~~~~P~~~l~~~~~~l~~~~~i~~~a~~~~~~~~~~~~~l~~~P~~IA~aai 206 (229)
..+++|.+..+.+.+.|+-.+....|.+|+.+|+..|+++.++...|..++..+....+..+..|..+|+||+
T Consensus 169 -------V~~kei~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaai 241 (285)
T COG1405 169 -------VSKKEIGRTYRLLVRELKLKIPPVDPSDYIPRFASKLGLSDEVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAI 241 (285)
T ss_pred -------CCHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCcccCCCchhHHHHHH
Confidence 2257888999999999999999899999999999999999999999999999999888888999999999999
Q ss_pred HHhcccCcc
Q psy1168 207 SFSFTPHVI 215 (229)
Q Consensus 207 ~~A~~~~~~ 215 (229)
|+|+.++++
T Consensus 242 y~as~l~~~ 250 (285)
T COG1405 242 YLASLLLGE 250 (285)
T ss_pred HHHHHHhCC
Confidence 999999874
No 12
>KOG1597|consensus
Probab=99.78 E-value=5e-18 Score=138.42 Aligned_cols=165 Identities=16% Similarity=0.170 Sum_probs=140.8
Q ss_pred HHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhhccccccCCchhHHHHHHHHHhhcccccccchHHHHHHHHHHHHhhh
Q psy1168 45 FIFFANFIQILGEQLKLRQQVIATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEEFGVISSSRLLSTCQTVVKNKL 124 (229)
Q Consensus 45 r~~~~~~I~~~~~~l~l~~~~~~~A~~~~~Rf~~~~s~~~~~~~~v~~acl~LA~K~ee~~~~~l~~li~~~~~~~~~~~ 124 (229)
...+...|..+|++++||..+..+|..+|+++...+.+++.....+++||||+||+.++.|+ +++++..+.. +.
T Consensus 104 ~~~a~~~I~~m~d~~~Lp~~I~d~A~~ifk~v~~~k~lrGks~eai~AAclyiACRq~~~pR-T~kEI~~~an-v~---- 177 (308)
T KOG1597|consen 104 LKAAFKEITAMCDRLSLPATIKDRANEIFKLVEDSKLLRGKSVEALAAACLYIACRQEDVPR-TFKEISAVAN-VS---- 177 (308)
T ss_pred HHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhhhhcCccHHHHHHHHHHHHHHhcCCCc-hHHHHHHHHc-CC----
Confidence 34677899999999999999999999999999999999999999999999999999999997 9999866543 32
Q ss_pred cccccccchhhHHHHHHHHHHHHHHcCcceeec--CChHHHHHHHHHhCccHHHHHHHHHHHHHHhCCcccccccHHHHH
Q psy1168 125 NYAYAQEFPYRTNHILECEFYLLENLDCCLIVY--QPYRPLLQLVQDIGHEDQLLALAWRVINDSLRTDVCLLYPPYQIA 202 (229)
Q Consensus 125 ~~~~~~~~~~~~~~i~~~E~~iL~~L~fdl~~~--~P~~~l~~~~~~l~~~~~i~~~a~~~~~~~~~~~~~l~~~P~~IA 202 (229)
+++|-+.=..|++.|+-+.... +.-+|+.|||..|++++.+...|..+...+..-+.+-+.+|-+||
T Consensus 178 -----------kKEIgr~~K~i~~~l~~s~~~~s~~t~~~m~RFCs~L~L~~~~q~aA~e~a~ka~~~~~~~gRsPiSIA 246 (308)
T KOG1597|consen 178 -----------KKEIGRCVKLIGEALETSVDLISISTGDFMPRFCSNLGLPKSAQEAATEIAEKAEEMDIRAGRSPISIA 246 (308)
T ss_pred -----------HHHHHHHHHHHHHHHhccchhhhhhHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccccCCCchhHH
Confidence 4566666667777777655544 488999999999999999999999999998888888889999999
Q ss_pred HHHHHHhcccCc----cccCCcccccCC
Q psy1168 203 IGECSFSFTPHV----IAEVGTLGEVGE 226 (229)
Q Consensus 203 ~aai~~A~~~~~----~~~~~~~~ev~~ 226 (229)
||+||+++.+.+ ..+++.+|+|.|
T Consensus 247 Aa~IYmisqls~~kkt~keI~~vtgVaE 274 (308)
T KOG1597|consen 247 AAAIYMISQLSDEKKTQKEIGEVTGVAE 274 (308)
T ss_pred HHHHHHHHHhccCcccHHHHHHHhhhhH
Confidence 999999999864 334666666655
No 13
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=99.76 E-value=2.3e-18 Score=150.01 Aligned_cols=163 Identities=17% Similarity=0.109 Sum_probs=144.5
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhhccccccCCchhHHHHHHHHHhhcccccccchHHHHHHHHHHH
Q psy1168 41 YQKIFIFFANFIQILGEQLKLRQQVIATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEEFGVISSSRLLSTCQTVV 120 (229)
Q Consensus 41 e~~~r~~~~~~I~~~~~~l~l~~~~~~~A~~~~~Rf~~~~s~~~~~~~~v~~acl~LA~K~ee~~~~~l~~li~~~~~~~ 120 (229)
+..+|...++||.++-..+++-+.|...|+.+.+||+..+...-...++++++|+|||||+||...+.+.++..++.+.
T Consensus 209 ~~~mR~~Lv~wlvevH~~F~llpeTL~lainiiDrfLs~~~v~l~k~QLvg~s~LfIa~K~EE~~~p~i~~l~~~t~g~- 287 (440)
T COG5024 209 EWSMRSILVDWLVEVHGKFGLLPETLFLAINIIDRFLSSRVVSLEKYQLVGISALFIASKYEEVNCPSIKDLVYATDGA- 287 (440)
T ss_pred HHhHHHHHHHHHHHhcccccccchHHHHHHHHHHHHhccCcccHHHHHHHHHHHHHHHHhHhHhcCHHHHHHHHHHccc-
Confidence 3389999999999999999999999999999999999998888888999999999999999999876777776654322
Q ss_pred HhhhcccccccchhhHHHHHHHHHHHHHHcCcceeecCChHHHHHHHHHhCccHHHHHHHHHHHHHHhCCcccccccHHH
Q psy1168 121 KNKLNYAYAQEFPYRTNHILECEFYLLENLDCCLIVYQPYRPLLQLVQDIGHEDQLLALAWRVINDSLRTDVCLLYPPYQ 200 (229)
Q Consensus 121 ~~~~~~~~~~~~~~~~~~i~~~E~~iL~~L~fdl~~~~P~~~l~~~~~~l~~~~~i~~~a~~~~~~~~~~~~~l~~~P~~ 200 (229)
..+++++.+|+-+|.+|+|++..+.|..|++++-+.-+-+..-...+.+++.-+....-+..++|+.
T Consensus 288 -------------~t~~~i~~aE~~ml~~l~f~is~P~P~sFLRriSka~dyd~~srt~~k~~~e~s~~~~~f~~~~~S~ 354 (440)
T COG5024 288 -------------FTRDDIIRAERYMLEVLDFNISWPSPMSFLRRISKASDYDIFSRTPAKFSSEISPVDYKFIQISPSW 354 (440)
T ss_pred -------------ccHHHHHHHHHHHhhhcccccCCCChHHHHHHHHhhcccchhhhhhHhhhCCchHhhhhhccCCchH
Confidence 3489999999999999999999999999999998888877777788888888887777788899999
Q ss_pred HHHHHHHHhcccCcccc
Q psy1168 201 IAIGECSFSFTPHVIAE 217 (229)
Q Consensus 201 IA~aai~~A~~~~~~~~ 217 (229)
+|+||.|.|...++-+.
T Consensus 355 ~~aaa~~~s~~~~~~~~ 371 (440)
T COG5024 355 CAAAAMYLSRKILSQNQ 371 (440)
T ss_pred HHHHHHHHHHhhhccCC
Confidence 99999999999886544
No 14
>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=99.74 E-value=5e-18 Score=126.16 Aligned_cols=101 Identities=29% Similarity=0.370 Sum_probs=83.5
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhhccccccCCchhHHHHHHHHHhhcccccccchHHHHHHHHHHH
Q psy1168 41 YQKIFIFFANFIQILGEQLKLRQQVIATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEEFGVISSSRLLSTCQTVV 120 (229)
Q Consensus 41 e~~~r~~~~~~I~~~~~~l~l~~~~~~~A~~~~~Rf~~~~s~~~~~~~~v~~acl~LA~K~ee~~~~~l~~li~~~~~~~ 120 (229)
....|...++||.+++..++++..|.++|+.|+|||+.+.++...+++++++||+++|||++|...+++.+++..+.
T Consensus 27 ~~~~r~~~~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K~~e~~~~~~~~~~~~~~--- 103 (127)
T PF00134_consen 27 TPEMRQIIIDWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNRSKLQLIALACLFLASKMEEDNPPSISDLIRISD--- 103 (127)
T ss_dssp HHHHHHHHHHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTCCGHHHHHHHHHHHHHHHHTSS--HHHHHHHHTT---
T ss_pred CHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHhhcccccchhhhhhhhHHHHhhhhhccccchHHHHHHHHc---
Confidence 34677889999999999999999999999999999999999999999999999999999999985457888776531
Q ss_pred HhhhcccccccchhhHHHHHHHHHHHHHHcCccee
Q psy1168 121 KNKLNYAYAQEFPYRTNHILECEFYLLENLDCCLI 155 (229)
Q Consensus 121 ~~~~~~~~~~~~~~~~~~i~~~E~~iL~~L~fdl~ 155 (229)
....++++..+|+.||++|+||++
T Consensus 104 -----------~~~~~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 104 -----------NTFTKKDILEMEREILSALNFDLN 127 (127)
T ss_dssp -----------TSSHHHHHHHHHHHHHHHTTT---
T ss_pred -----------CCCCHHHHHHHHHHHHHHCCCCcC
Confidence 123489999999999999999975
No 15
>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=99.47 E-value=3.5e-13 Score=92.73 Aligned_cols=87 Identities=25% Similarity=0.279 Sum_probs=75.1
Q ss_pred HHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhhccccccCCchhHHHHHHHHHhhcccccccchHHHHHHHHHHHHhhh
Q psy1168 45 FIFFANFIQILGEQLKLRQQVIATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEEFGVISSSRLLSTCQTVVKNKL 124 (229)
Q Consensus 45 r~~~~~~I~~~~~~l~l~~~~~~~A~~~~~Rf~~~~s~~~~~~~~v~~acl~LA~K~ee~~~~~l~~li~~~~~~~~~~~ 124 (229)
|....+||.++++.++++..+..+|..+++||+..+.+.+++++.+++||+|+|||+++.+ +..+++...+..
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~~-~~~~~~~~~~~~------ 74 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEIP-PWLKDLVHVTGY------ 74 (88)
T ss_pred cchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCCC-CCHHHHhHHhCC------
Confidence 3467899999999999999999999999999999999999999999999999999999996 488888665321
Q ss_pred cccccccchhhHHHHHHHHHHHH
Q psy1168 125 NYAYAQEFPYRTNHILECEFYLL 147 (229)
Q Consensus 125 ~~~~~~~~~~~~~~i~~~E~~iL 147 (229)
. ..+++..+|..++
T Consensus 75 -------~--~~~~i~~~e~~il 88 (88)
T cd00043 75 -------A--TEEEILRMEKLLL 88 (88)
T ss_pred -------C--CHHHHHHHHHHhC
Confidence 0 4788888888764
No 16
>KOG0654|consensus
Probab=99.42 E-value=3e-13 Score=115.19 Aligned_cols=162 Identities=18% Similarity=0.146 Sum_probs=142.1
Q ss_pred HHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhhccccccCCchhHHHHHHHHHhhcccccccchHHHHHHHHHHHHh
Q psy1168 43 KIFIFFANFIQILGEQLKLRQQVIATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEEFGVISSSRLLSTCQTVVKN 122 (229)
Q Consensus 43 ~~r~~~~~~I~~~~~~l~l~~~~~~~A~~~~~Rf~~~~s~~~~~~~~v~~acl~LA~K~ee~~~~~l~~li~~~~~~~~~ 122 (229)
.+|.-.++|..++++..++..++.+.+..+.+||...........+++..+|.++|+|.+|...+.+++++....
T Consensus 135 smrgilvdwlvevsee~r~~~e~l~ls~~~~drfl~~~~~~~~k~ql~g~s~m~I~sk~ee~~~~~~~ef~~itd----- 209 (359)
T KOG0654|consen 135 SMRGILVDWLVEVSEEYRLTFETLYLSVNYRDRFLSYKEVNKQKLQLVGISAMLIASKYEEIKEPRVEEFCYITD----- 209 (359)
T ss_pred chhhhhhhhhhHHHHHHHhhhhheeecHHHHHHHhccCccHHHHHHHhCcccceeeccchhhcchHHHHHHhhhh-----
Confidence 378889999999999999999999999999999999888888889999999999999999987667777765432
Q ss_pred hhcccccccchhhHHHHHHHHHHHHHHcCcceeecCChHHHHHHHHHhC-ccHHHHHHHHHHHHHHhCCcccccccHHHH
Q psy1168 123 KLNYAYAQEFPYRTNHILECEFYLLENLDCCLIVYQPYRPLLQLVQDIG-HEDQLLALAWRVINDSLRTDVCLLYPPYQI 201 (229)
Q Consensus 123 ~~~~~~~~~~~~~~~~i~~~E~~iL~~L~fdl~~~~P~~~l~~~~~~l~-~~~~i~~~a~~~~~~~~~~~~~l~~~P~~I 201 (229)
......++..+|..+|..+.|++..++...|+.+|..... ...++..++.++.+.++....++.|.||.|
T Consensus 210 ---------~ty~~~qv~~~~~~il~~l~~~~~~pt~~~~l~~~~~~~~~~~~~~e~~~~yl~elsll~~~~l~y~PSli 280 (359)
T KOG0654|consen 210 ---------NTYTYWQVLRMEIDILNALTFELVRPTSKTFLRRFLRVAQTPELQVEPLANYLTELSLLDYIFLKYLPSLI 280 (359)
T ss_pred ---------hhhHHHHHHHHHHHHHHHhHHHHhCchHHHHHHHHHHhhcchhHHHHHHHHHHHHhhhhhHHHhccChHHH
Confidence 2234788999999999999999999999999999987765 567788899999999998888999999999
Q ss_pred HHHHHHHhcccCccccC
Q psy1168 202 AIGECSFSFTPHVIAEV 218 (229)
Q Consensus 202 A~aai~~A~~~~~~~~~ 218 (229)
|+||+++|-..++..++
T Consensus 281 AasAv~lA~~~~~~~pW 297 (359)
T KOG0654|consen 281 AASAVFLARLTLDFHPW 297 (359)
T ss_pred HHHHHHHHHhhccCCCC
Confidence 99999999888774443
No 17
>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=99.34 E-value=5.1e-12 Score=85.94 Aligned_cols=83 Identities=25% Similarity=0.418 Sum_probs=70.1
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHHHHHhhccccccCCchhHHHHHHHHHhhcccccccchHHHHHHHHHHHHhhhccccc
Q psy1168 50 NFIQILGEQLKLRQQVIATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEEFGVISSSRLLSTCQTVVKNKLNYAYA 129 (229)
Q Consensus 50 ~~I~~~~~~l~l~~~~~~~A~~~~~Rf~~~~s~~~~~~~~v~~acl~LA~K~ee~~~~~l~~li~~~~~~~~~~~~~~~~ 129 (229)
+||.++++.++++..+..+|..+++|++....+.+++++.+++||+|+|||.+|.++ ...++...+.
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~~~-~~~~~~~~~~------------ 67 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEIPP-WTKELVHYTG------------ 67 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcCCC-CchhHhHhhC------------
Confidence 489999999999999999999999999997777789999999999999999999874 7777654321
Q ss_pred ccchhhHHHHHHHHHHHHH
Q psy1168 130 QEFPYRTNHILECEFYLLE 148 (229)
Q Consensus 130 ~~~~~~~~~i~~~E~~iL~ 148 (229)
+ ...+++..+|+.+++
T Consensus 68 --~-~~~~~i~~~~~~il~ 83 (83)
T smart00385 68 --Y-FTEEEILRMEKLLLE 83 (83)
T ss_pred --C-CCHHHHHHHHHHHhC
Confidence 0 237889999998873
No 18
>KOG1598|consensus
Probab=99.12 E-value=2.5e-10 Score=100.73 Aligned_cols=150 Identities=16% Similarity=0.109 Sum_probs=124.9
Q ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhhccccccCCchhHHHHHHHHHhhcccccc--cchHHHHHHHHHHHHhhh
Q psy1168 47 FFANFIQILGEQLKLRQQVIATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEEFGV--ISSSRLLSTCQTVVKNKL 124 (229)
Q Consensus 47 ~~~~~I~~~~~~l~l~~~~~~~A~~~~~Rf~~~~s~~~~~~~~v~~acl~LA~K~ee~~~--~~l~~li~~~~~~~~~~~ 124 (229)
.+-..|.+++.+|+++. ++.+|..+|+.-..++-.++.....+.++|+|++|+.+.++. +...+++++
T Consensus 69 n~r~~i~~~~~~l~l~~-~~~~a~~~~k~a~~~nftkGr~~~~vvasClY~vcR~e~t~hlliDfS~~Lqv--------- 138 (521)
T KOG1598|consen 69 NARRLIEELTERLNLGN-KTEVAFNFFKLAPDRNFTKGRRSTEVVAACLYLVCRLEKTDHLLIDFSSYLQV--------- 138 (521)
T ss_pred HHHhHHHHHHHhcCcch-HHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHhhCCceEEEEeccceEE---------
Confidence 45679999999999999 999999999999999999999999999999999999998874 122222221
Q ss_pred cccccccchhhHHHHHHHHHHHHHHcCcc---eeecCChHHHHHHHHHhCc---cHHHHHHHHHHHHHHhCCcccccccH
Q psy1168 125 NYAYAQEFPYRTNHILECEFYLLENLDCC---LIVYQPYRPLLQLVQDIGH---EDQLLALAWRVINDSLRTDVCLLYPP 198 (229)
Q Consensus 125 ~~~~~~~~~~~~~~i~~~E~~iL~~L~fd---l~~~~P~~~l~~~~~~l~~---~~~i~~~a~~~~~~~~~~~~~l~~~P 198 (229)
..-++...=..+.+.|.-+ +...+|.-|+.+|...|.. ++++...|..+++.+.++++..+.+|
T Consensus 139 ----------~Vy~LG~~~l~l~~~L~i~en~~plvDpsL~i~Rfa~~L~~g~~~~~Vv~~a~~L~~rMkrdwm~tGRRP 208 (521)
T KOG1598|consen 139 ----------SVYDLGSNFLEVTDSLSIGENVSPLVDPSLYIVRFSCRLLFGDKTEDVAKTATRLAQRMKRDWMQTGRRP 208 (521)
T ss_pred ----------ehhhhhHHHHHHHHHhccccccccccCcceeeechhHhhhcCCchHHHHHHHHHHHHHHHHHHHHhCCCc
Confidence 1223444445677778877 6778999999999988753 46799999999999999999999999
Q ss_pred HHHHHHHHHHhcccCccc
Q psy1168 199 YQIAIGECSFSFTPHVIA 216 (229)
Q Consensus 199 ~~IA~aai~~A~~~~~~~ 216 (229)
+.|+.||+++|+.+||+.
T Consensus 209 sglcGAaLliAar~h~~~ 226 (521)
T KOG1598|consen 209 SGLCGAALLIAARMHGFR 226 (521)
T ss_pred cchhHHHHHHHHHHcCcc
Confidence 999999999999999864
No 19
>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=98.96 E-value=4e-09 Score=70.31 Aligned_cols=63 Identities=22% Similarity=0.345 Sum_probs=55.8
Q ss_pred HHHHHHhcCCCHHHHHHHHHHHHHHhhccccccCCchhHHHHHHHHHhhcccccccchHHHHHH
Q psy1168 52 IQILGEQLKLRQQVIATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEEFGVISSSRLLST 115 (229)
Q Consensus 52 I~~~~~~l~l~~~~~~~A~~~~~Rf~~~~s~~~~~~~~v~~acl~LA~K~ee~~~~~l~~li~~ 115 (229)
|.++|+.|+||..+..+|..++++-...+-.++.++..+++||+|+||+.++.++ +++++...
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~~~~-t~~eIa~~ 63 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNGVPR-TLKEIAEA 63 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTTSSS-SHHHHHHH
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcCCCc-CHHHHHHH
Confidence 5789999999999999999999999999999999999999999999999999986 89988654
No 20
>KOG4164|consensus
Probab=98.55 E-value=1.9e-07 Score=79.51 Aligned_cols=106 Identities=20% Similarity=0.317 Sum_probs=86.6
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhhccccccCCchhHHHHHHHHHhhcccccccchHHHHHH
Q psy1168 36 LSDEEYQKIFIFFANFIQILGEQLKLRQQVIATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEEFGVISSSRLLST 115 (229)
Q Consensus 36 ~s~~~e~~~r~~~~~~I~~~~~~l~l~~~~~~~A~~~~~Rf~~~~s~~~~~~~~v~~acl~LA~K~ee~~~~~l~~li~~ 115 (229)
++....+.++ .-|.+++...++...|+++|.+||.+...++.+.+.+.++.|.|||.||+|++|...-.++.+|..
T Consensus 377 LTLSKirSlK----REMr~l~~d~~id~~TVa~AyVYFEKliLkglisK~NRKlcAGAclLlaaKmnD~Kks~vKslIek 452 (497)
T KOG4164|consen 377 LTLSKIRSLK----REMRELGEDCGIDVVTVAMAYVYFEKLILKGLISKQNRKLCAGACLLLAAKMNDLKKSTVKSLIEK 452 (497)
T ss_pred EeHHHHHHHH----HHHHHhhhccCccceeehhHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHhhhhhhHHHHHHHHH
Confidence 4444444444 678889999999999999999999999999999999999999999999999998764356677766
Q ss_pred HHHHHHhhhcccccccchhhHHHHHHHHHHHHHHcCcceeec
Q psy1168 116 CQTVVKNKLNYAYAQEFPYRTNHILECEFYLLENLDCCLIVY 157 (229)
Q Consensus 116 ~~~~~~~~~~~~~~~~~~~~~~~i~~~E~~iL~~L~fdl~~~ 157 (229)
....+ ...+.+++..|.-||-+|.|-|.++
T Consensus 453 ~Ee~f------------R~nrrdLia~Ef~VlvaLefaL~~~ 482 (497)
T KOG4164|consen 453 LEEQF------------RLNRRDLIAFEFPVLVALEFALHLP 482 (497)
T ss_pred HHHHh------------cccHHhhhhhhhhHHHhhhhhccCC
Confidence 54433 3448899999999999999988764
No 21
>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=98.48 E-value=8.1e-08 Score=69.89 Aligned_cols=59 Identities=22% Similarity=0.191 Sum_probs=51.0
Q ss_pred cCChHHHHHHHHHhCccHHHHHHHHHHHHHHhCCcccccccHHHHHHHHHHHhcccCcc
Q psy1168 157 YQPYRPLLQLVQDIGHEDQLLALAWRVINDSLRTDVCLLYPPYQIAIGECSFSFTPHVI 215 (229)
Q Consensus 157 ~~P~~~l~~~~~~l~~~~~i~~~a~~~~~~~~~~~~~l~~~P~~IA~aai~~A~~~~~~ 215 (229)
++|++|+.+|++..+.+.++...|+.+++.++.+..++.|+||.||+||+++|...++.
T Consensus 1 PTp~~Fl~~~~~~~~~~~~~~~~a~~l~el~l~~~~fl~~~PS~iAaAai~lA~~~~~~ 59 (118)
T PF02984_consen 1 PTPYDFLRRFLKISNADQEVRNLARYLLELSLLDYEFLQYPPSVIAAAAILLARKILGK 59 (118)
T ss_dssp --HHHHHHHHHTSSSHHHHHHHHHHHHHHHHHHSHHHTTS-HHHHHHHHHHHHHHHHHS
T ss_pred CcHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhCc
Confidence 58999999997766667889999999999999999999999999999999999998763
No 22
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=98.24 E-value=7.5e-06 Score=69.97 Aligned_cols=66 Identities=14% Similarity=0.174 Sum_probs=60.4
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHHHHHhhccccccCCchhHHHHHHHHHhhcccccccchHHHHHH
Q psy1168 49 ANFIQILGEQLKLRQQVIATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEEFGVISSSRLLST 115 (229)
Q Consensus 49 ~~~I~~~~~~l~l~~~~~~~A~~~~~Rf~~~~s~~~~~~~~v~~acl~LA~K~ee~~~~~l~~li~~ 115 (229)
.++|.++|..|+|+..+..+|..++++........+.+|..+++||+|+||+..+.++ +.+++..+
T Consensus 220 ~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~~l~~Gr~P~sIAAAaIYlA~~~~g~~~-t~keIa~v 285 (310)
T PRK00423 220 IDYVPRFASELGLSGEVQKKAIEILQKAKEKGLTSGKGPTGLAAAAIYIASLLLGERR-TQREVAEV 285 (310)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHhCCCC-CHHHHHHH
Confidence 4889999999999999999999999999887777899999999999999999999986 88888654
No 23
>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=98.18 E-value=3.6e-06 Score=57.26 Aligned_cols=60 Identities=18% Similarity=0.159 Sum_probs=55.5
Q ss_pred ecCChHHHHHHHHHhCccHHHHHHHHHHHHHHhCCcccccccHHHHHHHHHHHhcccCcc
Q psy1168 156 VYQPYRPLLQLVQDIGHEDQLLALAWRVINDSLRTDVCLLYPPYQIAIGECSFSFTPHVI 215 (229)
Q Consensus 156 ~~~P~~~l~~~~~~l~~~~~i~~~a~~~~~~~~~~~~~l~~~P~~IA~aai~~A~~~~~~ 215 (229)
.++|.+++.+++..++.+.++...|..+++.++....+..++|+.||+||+++|++..+.
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~ 61 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEI 61 (88)
T ss_pred cchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCC
Confidence 367899999999999999999999999999998877788999999999999999998766
No 24
>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=4.1e-06 Score=56.36 Aligned_cols=56 Identities=20% Similarity=0.220 Sum_probs=50.7
Q ss_pred HHHHHHHHHhCccHHHHHHHHHHHHHHhCCcccccccHHHHHHHHHHHhcccCccc
Q psy1168 161 RPLLQLVQDIGHEDQLLALAWRVINDSLRTDVCLLYPPYQIAIGECSFSFTPHVIA 216 (229)
Q Consensus 161 ~~l~~~~~~l~~~~~i~~~a~~~~~~~~~~~~~l~~~P~~IA~aai~~A~~~~~~~ 216 (229)
+|+.++++.++.++++...|+.+++.++....+..++|+.||+||+++|++..+..
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~~ 56 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEIP 56 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcCC
Confidence 37889999999999999999999999988667778999999999999999988765
No 25
>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=98.15 E-value=6.5e-06 Score=54.72 Aligned_cols=54 Identities=9% Similarity=0.095 Sum_probs=46.9
Q ss_pred HHHHHHHhCccHHHHHHHHHHHHHHhCCcccccccHHHHHHHHHHHhcccCccc
Q psy1168 163 LLQLVQDIGHEDQLLALAWRVINDSLRTDVCLLYPPYQIAIGECSFSFTPHVIA 216 (229)
Q Consensus 163 l~~~~~~l~~~~~i~~~a~~~~~~~~~~~~~l~~~P~~IA~aai~~A~~~~~~~ 216 (229)
+.++++.|++++.+.+.|..+........+.-+.+|..||+||||+|++.++..
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~~~ 54 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNGVP 54 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTTSS
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcCCC
Confidence 578999999999999999999999988888889999999999999999988754
No 26
>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=98.07 E-value=4.8e-05 Score=58.09 Aligned_cols=91 Identities=20% Similarity=0.185 Sum_probs=63.6
Q ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHHHhh---c--cccccCCchhHHHHHHHHHhhcccccccchHHHHHHHHHHHHh
Q psy1168 48 FANFIQILGEQLKLRQQVIATATVYFKRFYA---R--NSLKCIDPLLLAPTCVFLASKVEEFGVISSSRLLSTCQTVVKN 122 (229)
Q Consensus 48 ~~~~I~~~~~~l~l~~~~~~~A~~~~~Rf~~---~--~s~~~~~~~~v~~acl~LA~K~ee~~~~~l~~li~~~~~~~~~ 122 (229)
..+|+.++.+..+++..+.-.|..|++|+.. . ..+.....+-+.++|+.+|.|+-+....+-+....++
T Consensus 54 i~~fl~ri~~~~~~s~~~~i~aliYl~Rl~~~~~~~~~~~~~~~~~Rl~l~alilA~K~~~D~~~~n~~~a~v~------ 127 (149)
T PF08613_consen 54 IRDFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPLNSSNIHRLFLTALILASKFLDDNTYSNKSWAKVG------ 127 (149)
T ss_dssp HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT---STTTHHHHHHHHHHHHHHHH-SS---HHHHHHHH------
T ss_pred HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHhhcccccccHHHHHhhc------
Confidence 3478899999999999999999999999988 2 2344566788999999999999876532333322221
Q ss_pred hhcccccccchhhHHHHHHHHHHHHHHcCcce
Q psy1168 123 KLNYAYAQEFPYRTNHILECEFYLLENLDCCL 154 (229)
Q Consensus 123 ~~~~~~~~~~~~~~~~i~~~E~~iL~~L~fdl 154 (229)
....+++-.+|+..|..|+|+|
T Consensus 128 ----------gis~~eln~lE~~fL~~l~~~L 149 (149)
T PF08613_consen 128 ----------GISLKELNELEREFLKLLDYNL 149 (149)
T ss_dssp ----------TS-HHHHHHHHHHHHHHTTT--
T ss_pred ----------CCCHHHHHHHHHHHHHHCCCcC
Confidence 1236789999999999999986
No 27
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=97.19 E-value=0.0016 Score=54.79 Aligned_cols=66 Identities=18% Similarity=0.179 Sum_probs=58.1
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHHHHHhhccccccCCchhHHHHHHHHHhhcccccccchHHHHHH
Q psy1168 49 ANFIQILGEQLKLRQQVIATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEEFGVISSSRLLST 115 (229)
Q Consensus 49 ~~~I~~~~~~l~l~~~~~~~A~~~~~Rf~~~~s~~~~~~~~v~~acl~LA~K~ee~~~~~l~~li~~ 115 (229)
.++|.++|+.|+|+..+...|..+.+..-......+.+|.-+|+||+|+|++..+.++ +-+++..+
T Consensus 195 ~~yi~rf~s~L~l~~~v~~~a~ei~~~~~~~g~~~Gk~P~glAaaaiy~as~l~~~~~-tq~eva~v 260 (285)
T COG1405 195 SDYIPRFASKLGLSDEVRRKAIEIVKKAKRAGLTAGKSPAGLAAAAIYLASLLLGERR-TQKEVAKV 260 (285)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCcccCCCchhHHHHHHHHHHHHhCCch-HHHHHHHH
Confidence 3678899999999999999999999999999888899999999999999999999764 55555443
No 28
>KOG1597|consensus
Probab=96.94 E-value=0.0051 Score=51.24 Aligned_cols=67 Identities=12% Similarity=0.169 Sum_probs=60.1
Q ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHHHhhccccccCCchhHHHHHHHHHhhcccccccchHHHHHH
Q psy1168 48 FANFIQILGEQLKLRQQVIATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEEFGVISSSRLLST 115 (229)
Q Consensus 48 ~~~~I~~~~~~l~l~~~~~~~A~~~~~Rf~~~~s~~~~~~~~v~~acl~LA~K~ee~~~~~l~~li~~ 115 (229)
..++|.+.|..|+||..+...|..+-++.-...-..+..|.-|++|++|+++-+.+.++ +.+++..+
T Consensus 203 t~~~m~RFCs~L~L~~~~q~aA~e~a~ka~~~~~~~gRsPiSIAAa~IYmisqls~~kk-t~keI~~v 269 (308)
T KOG1597|consen 203 TGDFMPRFCSNLGLPKSAQEAATEIAEKAEEMDIRAGRSPISIAAAAIYMISQLSDEKK-TQKEIGEV 269 (308)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccccCCCchhHHHHHHHHHHHhccCcc-cHHHHHHH
Confidence 56899999999999999999999999999888788889999999999999999999764 77777554
No 29
>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=96.09 E-value=0.05 Score=40.73 Aligned_cols=73 Identities=16% Similarity=0.139 Sum_probs=55.4
Q ss_pred HHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhh--ccccccCCchhHHHHHHHHHhhcccccccchHHHHHHH
Q psy1168 43 KIFIFFANFIQILGEQLKLRQQVIATATVYFKRFYA--RNSLKCIDPLLLAPTCVFLASKVEEFGVISSSRLLSTC 116 (229)
Q Consensus 43 ~~r~~~~~~I~~~~~~l~l~~~~~~~A~~~~~Rf~~--~~s~~~~~~~~v~~acl~LA~K~ee~~~~~l~~li~~~ 116 (229)
++-..+..-|.++|++|+++.......-+.|+..+. ..-+++.+..-+.+.|+|.-||+..... +.++++..+
T Consensus 9 Kvy~la~~Rl~~LC~~L~l~~~~~~~iwt~fe~~l~~~t~L~~dRHLDQiilCaiY~i~Kv~~~~~-sF~~Ii~~Y 83 (135)
T PF01857_consen 9 KVYKLAAVRLQDLCERLDLSSDLREKIWTCFEHSLTHHTELMKDRHLDQIILCAIYGICKVSKEEL-SFKDIIKAY 83 (135)
T ss_dssp HHHHHHHHHHHHHHHHHTTSTTHHHHHHHHHHHHHHHSGGGGTTS-HHHHHHHHHHHHHHHTT-S---HHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhHHHHhcchHHHHHHHHHHHHHHhhcCCC-CHHHHHHHH
Confidence 333446677999999999998887777777777765 3456778888999999999999998764 899998764
No 30
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=93.30 E-value=0.21 Score=42.62 Aligned_cols=53 Identities=11% Similarity=0.100 Sum_probs=45.5
Q ss_pred HHHHHHHHhC--ccHHHHHHHHHHHHHHhCCcccccccHHHHHHHHHHHhcccCc
Q psy1168 162 PLLQLVQDIG--HEDQLLALAWRVINDSLRTDVCLLYPPYQIAIGECSFSFTPHV 214 (229)
Q Consensus 162 ~l~~~~~~l~--~~~~i~~~a~~~~~~~~~~~~~l~~~P~~IA~aai~~A~~~~~ 214 (229)
.|..++..++ +++.+.-.|..++...+...-...|+|..||++|+|+|++.-.
T Consensus 62 ~i~~~~~~lkp~Lpq~viaTAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE 116 (305)
T TIGR00569 62 RLLDFCSAFKPTMPTSVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEE 116 (305)
T ss_pred HHHHHHHHhcCCCCchHHHHHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhccc
Confidence 5556677788 8889999999999998887777899999999999999998653
No 31
>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=93.21 E-value=0.14 Score=36.50 Aligned_cols=56 Identities=16% Similarity=0.145 Sum_probs=43.9
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHHHHHhhccccccCCchhHHHHHHHHHhhcccc
Q psy1168 49 ANFIQILGEQLKLRQQVIATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEEF 104 (229)
Q Consensus 49 ~~~I~~~~~~l~l~~~~~~~A~~~~~Rf~~~~s~~~~~~~~v~~acl~LA~K~ee~ 104 (229)
..|+....+..+....+...|..+..-......+.++.+-.+|+||+++|.+..+.
T Consensus 4 ~~Fl~~~~~~~~~~~~~~~~a~~l~el~l~~~~fl~~~PS~iAaAai~lA~~~~~~ 59 (118)
T PF02984_consen 4 YDFLRRFLKISNADQEVRNLARYLLELSLLDYEFLQYPPSVIAAAAILLARKILGK 59 (118)
T ss_dssp HHHHHHHHTSSSHHHHHHHHHHHHHHHHHHSHHHTTS-HHHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhCc
Confidence 45666665555556678888888888877777888999999999999999999654
No 32
>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=92.40 E-value=0.51 Score=34.22 Aligned_cols=55 Identities=15% Similarity=0.000 Sum_probs=45.0
Q ss_pred HHHHHHHHHhCccHHHHHHHHHHHHHHhCCcccccccHHHHHHHHHHHhcccCcc
Q psy1168 161 RPLLQLVQDIGHEDQLLALAWRVINDSLRTDVCLLYPPYQIAIGECSFSFTPHVI 215 (229)
Q Consensus 161 ~~l~~~~~~l~~~~~i~~~a~~~~~~~~~~~~~l~~~P~~IA~aai~~A~~~~~~ 215 (229)
+++......++++......|..+++..+.........+..+|+||+++|++....
T Consensus 36 ~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K~~e~ 90 (127)
T PF00134_consen 36 DWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNRSKLQLIALACLFLASKMEED 90 (127)
T ss_dssp HHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTCCGHHHHHHHHHHHHHHHHTS
T ss_pred HHHHHHHHhcccchhHHHHHHHHHHHHHhhcccccchhhhhhhhHHHHhhhhhcc
Confidence 4677778888899999999999999887666677888999999999999997644
No 33
>KOG0835|consensus
Probab=91.10 E-value=0.4 Score=40.87 Aligned_cols=56 Identities=18% Similarity=0.314 Sum_probs=37.6
Q ss_pred HHHHHHHhcCCCHHH--HHHHHHHHHHHhhccccccCCchhHHHHHHHHHhhcccccc
Q psy1168 51 FIQILGEQLKLRQQV--IATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEEFGV 106 (229)
Q Consensus 51 ~I~~~~~~l~l~~~~--~~~A~~~~~Rf~~~~s~~~~~~~~v~~acl~LA~K~ee~~~ 106 (229)
+|......|++++.- ...|=+|..--.-..-+..+.+..||+||+|||++..|.|.
T Consensus 144 lii~YLqtL~~~~~~~l~Q~~wNfmNDslRT~v~vry~pe~iACaciyLaAR~~eIpL 201 (367)
T KOG0835|consen 144 LIIMYLQTLQLPPNLKLLQAAWNFMNDSLRTDVFVRYSPESIACACIYLAARNLEIPL 201 (367)
T ss_pred HHHHHHHHhcCCCchhHHHHHHHhhhhccccceeeecCHHHHHHHHHHHHHhhhcCCC
Confidence 344444556666543 44444444444444556678999999999999999999764
No 34
>KOG1674|consensus
Probab=88.82 E-value=2 Score=34.82 Aligned_cols=92 Identities=21% Similarity=0.201 Sum_probs=63.5
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHHHHHhhccc---------cccCC-chhHHHHHHHHHhhcccccccchHHHHHHHHHH
Q psy1168 50 NFIQILGEQLKLRQQVIATATVYFKRFYARNS---------LKCID-PLLLAPTCVFLASKVEEFGVISSSRLLSTCQTV 119 (229)
Q Consensus 50 ~~I~~~~~~l~l~~~~~~~A~~~~~Rf~~~~s---------~~~~~-~~~v~~acl~LA~K~ee~~~~~l~~li~~~~~~ 119 (229)
+++.++-+..+....+.-.|.+||+||..... +.... .+-..++|+-+|+|..+..- --... +
T Consensus 80 ~yleri~k~~~~s~~~lv~al~Yldr~~~~~~~~~~~~~~~i~s~n~vhR~lit~v~vs~kf~~d~~-y~n~~----~-- 152 (218)
T KOG1674|consen 80 QYLERIFKYSKCSPECLVLALVYLDRFVKQPQARSVKPQSLINSLNKVHRLLITTVTVSTKFLDDVY-YSNAY----Y-- 152 (218)
T ss_pred HHHHHHHHHhcCCchhhhhhhhhhhhhhhhhcccccCcccccccchhHHHHHHHHHHHHHhhccchh-hhHHH----H--
Confidence 56677778889999999999999999988521 11223 33468899999999986531 11111 1
Q ss_pred HHhhhcccccccchhhHHHHHHHHHHHHHHcCcceeec
Q psy1168 120 VKNKLNYAYAQEFPYRTNHILECEFYLLENLDCCLIVY 157 (229)
Q Consensus 120 ~~~~~~~~~~~~~~~~~~~i~~~E~~iL~~L~fdl~~~ 157 (229)
.+-.+ ...+++-.+|..++..++|.+.+.
T Consensus 153 -a~vgg--------l~~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 153 -AKVGG--------LTTDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred -HHhCC--------CChHhhhhhhHHHHhhCCeEEEec
Confidence 00001 225666699999999999999886
No 35
>KOG0834|consensus
Probab=84.38 E-value=1.5 Score=37.71 Aligned_cols=53 Identities=11% Similarity=0.072 Sum_probs=43.1
Q ss_pred HHHHHHHHHhCccHHHHHHHHHHHHHHhCCcccccccHHHHHHHHHHHhcccC
Q psy1168 161 RPLLQLVQDIGHEDQLLALAWRVINDSLRTDVCLLYPPYQIAIGECSFSFTPH 213 (229)
Q Consensus 161 ~~l~~~~~~l~~~~~i~~~a~~~~~~~~~~~~~l~~~P~~IA~aai~~A~~~~ 213 (229)
.||......|+..+.-...|..+....+.-.-+-.|+|.++|++|+++|++..
T Consensus 44 ~fI~elg~~L~~~~~ti~tA~~~~hRFy~~~s~~~~~~~~vA~sclfLAgKvE 96 (323)
T KOG0834|consen 44 KFIQELGVRLKMPQKTIATAIVIFHRFYMFHSFKKFDPYTVAASCLFLAGKVE 96 (323)
T ss_pred HHHHHHHHHcCCCccchhhhhhhhhhhhhhcccccCcHHHHHHHHHHHHhhcc
Confidence 46777777888777767777778877777777788999999999999999854
No 36
>KOG1598|consensus
Probab=84.23 E-value=2 Score=39.05 Aligned_cols=60 Identities=18% Similarity=0.271 Sum_probs=43.5
Q ss_pred HHHHHHHHHHHHHhhccccccCCchhHHHHHHHHHhhcccccccchHHHHHH---HHHHHHhhh
Q psy1168 64 QVIATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEEFGVISSSRLLST---CQTVVKNKL 124 (229)
Q Consensus 64 ~~~~~A~~~~~Rf~~~~s~~~~~~~~v~~acl~LA~K~ee~~~~~l~~li~~---~~~~~~~~~ 124 (229)
.|.-+|..+..|--.---..+..|--++.|||++||...+.++ ++.+|+.+ +..++++++
T Consensus 185 ~Vv~~a~~L~~rMkrdwm~tGRRPsglcGAaLliAar~h~~~r-si~dIv~vvhV~e~Tl~kRl 247 (521)
T KOG1598|consen 185 DVAKTATRLAQRMKRDWMQTGRRPSGLCGAALLIAARMHGFRR-TIGDIAKVVHVCESTLSKRL 247 (521)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCccchhHHHHHHHHHHcCccc-cHHHHHHHHHHhHHHHHHHH
Confidence 4788888887775322223456788999999999999999986 89998764 445555543
No 37
>KOG4557|consensus
Probab=79.40 E-value=21 Score=28.86 Aligned_cols=81 Identities=23% Similarity=0.315 Sum_probs=50.5
Q ss_pred cccHHHHHHhhhcCCCCCCHHHHHHHHHHHHH--------HHHHHHHhcCCCHHHHHHHHHHHHHHhhc-----cccccC
Q psy1168 19 VLDRQDLIRERKHDLSILSDEEYQKIFIFFAN--------FIQILGEQLKLRQQVIATATVYFKRFYAR-----NSLKCI 85 (229)
Q Consensus 19 ~f~~~~l~~~~~~~~~~~s~~~e~~~r~~~~~--------~I~~~~~~l~l~~~~~~~A~~~~~Rf~~~-----~s~~~~ 85 (229)
.|++++.... .|++.+.|.+-...+-. -++++|.++++- +++-.|..++.-|-.+ +--.++
T Consensus 60 ~fDr~~avKL-----SGl~k~~Y~~~~~sfe~llgln~~~~VrdlaVQfgc~-evi~~a~~vl~syk~~lpaT~~~~~D~ 133 (262)
T KOG4557|consen 60 IFDRQAAVKL-----SGLSKKAYSRSFNSFENLLGLNIKLNVRDLAVQFGCV-EVIKSAQNVLSSYKERLPATRRANADF 133 (262)
T ss_pred cccHHHHHHh-----ccccHHHHHHHHHHHHHHhcchhhcCHHHHHHHHhHH-HHHHHHHHHHHHHHhcCchhhhcCCcc
Confidence 4666655554 57788888664322221 245566666653 4556777787777543 222346
Q ss_pred CchhHHHHHHHHHhhccccc
Q psy1168 86 DPLLLAPTCVFLASKVEEFG 105 (229)
Q Consensus 86 ~~~~v~~acl~LA~K~ee~~ 105 (229)
..-...+|++|+|||...-.
T Consensus 134 SrP~ft~aA~~~ack~lKlK 153 (262)
T KOG4557|consen 134 SRPVFTAAAFYLACKKLKLK 153 (262)
T ss_pred cchHHHHHHHHHHHHHHHHh
Confidence 66788999999999976543
No 38
>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=78.73 E-value=2.8 Score=35.47 Aligned_cols=54 Identities=9% Similarity=0.065 Sum_probs=45.7
Q ss_pred HHHHHHHHHhCccHHHHHHHHHHHHHHhCCcccccccHHHHHHHHHHHhcccCc
Q psy1168 161 RPLLQLVQDIGHEDQLLALAWRVINDSLRTDVCLLYPPYQIAIGECSFSFTPHV 214 (229)
Q Consensus 161 ~~l~~~~~~l~~~~~i~~~a~~~~~~~~~~~~~l~~~P~~IA~aai~~A~~~~~ 214 (229)
.++..++..+.++..+...|.-+....+.-.-.-.+++..||.+|||+|++.-.
T Consensus 50 k~i~~l~~~L~lp~~~laTAi~~f~Rf~Lk~sv~e~~~~~vv~tcv~LA~K~ed 103 (297)
T COG5333 50 KLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVED 103 (297)
T ss_pred HHHHHHHHhcCCCcchHHHHHHHHHHHHhhcccccccHHHHHHhheeeeeeccc
Confidence 567778888889999999999888887655556789999999999999999654
No 39
>KOG0794|consensus
Probab=76.20 E-value=5.3 Score=32.60 Aligned_cols=51 Identities=12% Similarity=-0.010 Sum_probs=37.2
Q ss_pred HHHHHHHHhCccHHHHHHHHHHHHHHhCCcccccccHHHHHHHHHHHhccc
Q psy1168 162 PLLQLVQDIGHEDQLLALAWRVINDSLRTDVCLLYPPYQIAIGECSFSFTP 212 (229)
Q Consensus 162 ~l~~~~~~l~~~~~i~~~a~~~~~~~~~~~~~l~~~P~~IA~aai~~A~~~ 212 (229)
++..+.+.+.+.+.+...|...+...+.-.-.-.+.|..+|..|+|+||+.
T Consensus 47 ~I~~lg~~lklRQ~ViATAivY~rRfy~r~S~k~~~p~lla~TClyLAcKv 97 (264)
T KOG0794|consen 47 VIQKLGQHLKLRQRVIATAIVYFRRFYLRKSLKEIEPRLLAPTCLYLACKV 97 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCHHHHHHHHHHHHhhh
Confidence 444445555566777777777777666444466799999999999999984
No 40
>KOG1675|consensus
Probab=74.57 E-value=7.3 Score=33.12 Aligned_cols=95 Identities=19% Similarity=0.126 Sum_probs=57.9
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHHHHHh--hccccccCCchhHHHHHHHHHhhcccccccchHHHHHHHHHHHHhhhccc
Q psy1168 50 NFIQILGEQLKLRQQVIATATVYFKRFY--ARNSLKCIDPLLLAPTCVFLASKVEEFGVISSSRLLSTCQTVVKNKLNYA 127 (229)
Q Consensus 50 ~~I~~~~~~l~l~~~~~~~A~~~~~Rf~--~~~s~~~~~~~~v~~acl~LA~K~ee~~~~~l~~li~~~~~~~~~~~~~~ 127 (229)
.++...+....|....--...+|+.|-. .......+....+....+++|+|+=+..-..-.|.+ .++|.
T Consensus 195 k~v~~l~~~~qlta~~aiitL~~~erl~~~~e~~~~p~~w~r~~~g~il~sskv~~dqs~wnvdyc----qIlKd----- 265 (343)
T KOG1675|consen 195 KFVRILFSWAQLTAECDIITLVYAERLLWLAERDPCPRNWSRAVLGEILLSSKVYDDQSVWNVDYC----EILKD----- 265 (343)
T ss_pred hhhhhHhhhhhhhhccchHHHHhhHhhhhHhhcCCCcchhhhhhhhhheehhhhhhhhhcccHHHH----HHHhh-----
Confidence 3444444444444444444456777753 344455666777777789999998655311212222 23331
Q ss_pred ccccchhhHHHHHHHHHHHHHHcCcceeecCC
Q psy1168 128 YAQEFPYRTNHILECEFYLLENLDCCLIVYQP 159 (229)
Q Consensus 128 ~~~~~~~~~~~i~~~E~~iL~~L~fdl~~~~P 159 (229)
...+++-.+|+.+|+.|+||++++..
T Consensus 266 ------~tveDmNe~ERqfLelLqfNinvp~s 291 (343)
T KOG1675|consen 266 ------QSVDDMNALERQFLELLQFNINVPSS 291 (343)
T ss_pred ------ccHhhHHHHHHHHHHHHhhccCccHH
Confidence 23688889999999999999988643
No 41
>KOG0656|consensus
Probab=70.06 E-value=14 Score=31.92 Aligned_cols=58 Identities=12% Similarity=0.067 Sum_probs=47.6
Q ss_pred ChHHHHHHHHHhCccHHHHHHHHHHHHHHhCCccccccc---HHHHHHHHHHHhcccCccc
Q psy1168 159 PYRPLLQLVQDIGHEDQLLALAWRVINDSLRTDVCLLYP---PYQIAIGECSFSFTPHVIA 216 (229)
Q Consensus 159 P~~~l~~~~~~l~~~~~i~~~a~~~~~~~~~~~~~l~~~---P~~IA~aai~~A~~~~~~~ 216 (229)
..+.|.+.+...+.+..+.-+|.+.++..+...-+-..+ -..+|+||+.+|+++-.++
T Consensus 81 A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k~k~W~lQLlAvaCLsLAsKmeE~~ 141 (335)
T KOG0656|consen 81 ALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPKDKPWMLQLLAVACLSLASKMEETD 141 (335)
T ss_pred HHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCCCchHHHHHHHHHHHHHHHhhcCcC
Confidence 457788888888999999999999999876655555666 6889999999999986554
No 42
>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=70.02 E-value=14 Score=27.61 Aligned_cols=56 Identities=16% Similarity=0.078 Sum_probs=46.1
Q ss_pred ChHHHHHHHHHhCccHHHHHHHHHHHHHHh--CCcccccccHHHHHHHHHHHhcccCc
Q psy1168 159 PYRPLLQLVQDIGHEDQLLALAWRVINDSL--RTDVCLLYPPYQIAIGECSFSFTPHV 214 (229)
Q Consensus 159 P~~~l~~~~~~l~~~~~i~~~a~~~~~~~~--~~~~~l~~~P~~IA~aai~~A~~~~~ 214 (229)
+..-+..+|+.+++..++.+.+|.+.+-++ .++++....-.+|-+.|+|..++..+
T Consensus 14 a~~Rl~~LC~~L~l~~~~~~~iwt~fe~~l~~~t~L~~dRHLDQiilCaiY~i~Kv~~ 71 (135)
T PF01857_consen 14 AAVRLQDLCERLDLSSDLREKIWTCFEHSLTHHTELMKDRHLDQIILCAIYGICKVSK 71 (135)
T ss_dssp HHHHHHHHHHHHTTSTTHHHHHHHHHHHHHHHSGGGGTTS-HHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhhHHHHhcchHHHHHHHHHHHHHHhhc
Confidence 344567788899998899999999998886 56778888899999999999998765
No 43
>KOG2496|consensus
Probab=68.14 E-value=15 Score=31.29 Aligned_cols=49 Identities=8% Similarity=0.087 Sum_probs=41.3
Q ss_pred HHHHHh--CccHHHHHHHHHHHHHHhCCcccccccHHHHHHHHHHHhcccC
Q psy1168 165 QLVQDI--GHEDQLLALAWRVINDSLRTDVCLLYPPYQIAIGECSFSFTPH 213 (229)
Q Consensus 165 ~~~~~l--~~~~~i~~~a~~~~~~~~~~~~~l~~~P~~IA~aai~~A~~~~ 213 (229)
.|+.++ .++..+.-.|..+....+.-+....|+|..|-++|+++|++..
T Consensus 65 ~f~~k~~p~lp~~Vv~TA~~fFkRffL~nsvme~~pk~I~~tc~flA~Kie 115 (325)
T KOG2496|consen 65 NFYSKFKPNLPTSVVSTAIEFFKRFFLENSVMEYSPKIIMATCFFLACKIE 115 (325)
T ss_pred HHHHHhcCCCchHHHHHHHHHHHHHHHhcchhhcChHHHHHHHHHHHhhhH
Confidence 344444 3578899999999999999888999999999999999999864
No 44
>KOG1010|consensus
Probab=67.75 E-value=18 Score=35.06 Aligned_cols=76 Identities=13% Similarity=0.162 Sum_probs=57.1
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhhc--cccccCCchhHHHHHHHHHhhcccccccchHHHHHHHH
Q psy1168 41 YQKIFIFFANFIQILGEQLKLRQQVIATATVYFKRFYAR--NSLKCIDPLLLAPTCVFLASKVEEFGVISSSRLLSTCQ 117 (229)
Q Consensus 41 e~~~r~~~~~~I~~~~~~l~l~~~~~~~A~~~~~Rf~~~--~s~~~~~~~~v~~acl~LA~K~ee~~~~~l~~li~~~~ 117 (229)
+++.-..+..-|..+|++|.+..+....--.+|+.-+.. .-+++.|..-+.+.|+|+-+|++.... +.++|+..+.
T Consensus 673 ~rKvY~LAavRL~~Lc~rL~l~~e~r~~IWtlFehsl~~et~Lm~dRHLDQillCaiy~i~KV~~~~l-tF~eIm~~YR 750 (920)
T KOG1010|consen 673 LRKVYHLAAVRLNDLCERLSLSDELREQIWTLFEHSLTNETELMRDRHLDQILLCAIYGIAKVKKEDL-TFSEIMRAYR 750 (920)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHhccHHHHHhhhHHHHHHHHHHhheehhcccc-hHHHHHHHHh
Confidence 345545577779999999999987777666777765542 234567788899999999999998774 8888877554
No 45
>KOG0213|consensus
Probab=52.51 E-value=1.9e+02 Score=28.28 Aligned_cols=88 Identities=19% Similarity=0.150 Sum_probs=57.1
Q ss_pred cccHHHHHHhhhcCCCCCCHH-HHHHHHHHHHHHHHHHHHhcCCCHHHH--HHHHHHHHHHhhccccc-cCCchhHHHHH
Q psy1168 19 VLDRQDLIRERKHDLSILSDE-EYQKIFIFFANFIQILGEQLKLRQQVI--ATATVYFKRFYARNSLK-CIDPLLLAPTC 94 (229)
Q Consensus 19 ~f~~~~l~~~~~~~~~~~s~~-~e~~~r~~~~~~I~~~~~~l~l~~~~~--~~A~~~~~Rf~~~~s~~-~~~~~~v~~ac 94 (229)
+||.|-..-+.+. +-+|+ +.+++ ..+-+.++|..-+....-+ ...-.+|+.|+.++.-. .....-+.-+.
T Consensus 632 yyTrevmlil~rE---f~sPDeemkki---vLKVv~qcc~t~Gv~~~y~r~dilp~ff~~fw~rrmA~drr~ykqlv~tt 705 (1172)
T KOG0213|consen 632 YYTREVMLILIRE---FGSPDEEMKKI---VLKVVKQCCATDGVEPAYIRFDILPEFFFSFWGRRMALDRRNYKQLVDTT 705 (1172)
T ss_pred HhHHHHHHHHHHh---hCCChHHHHHH---HHHHHHHHhcccCCCHHHHhhhhhHHHHhhhhhhhhhccccchhhHHHHH
Confidence 6776655554332 22344 34444 4577788898888877643 34558999999876543 44566677788
Q ss_pred HHHHhhcccccccchHHHHH
Q psy1168 95 VFLASKVEEFGVISSSRLLS 114 (229)
Q Consensus 95 l~LA~K~ee~~~~~l~~li~ 114 (229)
+-+|.|+--.+ .+.+++.
T Consensus 706 v~ia~KvG~~~--~v~R~v~ 723 (1172)
T KOG0213|consen 706 VEIAAKVGSDP--IVSRVVL 723 (1172)
T ss_pred HHHHHHhCchH--HHHHHhh
Confidence 99999987665 4555544
No 46
>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=50.45 E-value=1e+02 Score=22.89 Aligned_cols=88 Identities=13% Similarity=0.111 Sum_probs=50.1
Q ss_pred HHhcCCCHH-HHHHHHHHHHHHhhccccccCCchhHHHHHHHHHhhcccccccchHHHHHHHHHHHHhhhcccccccchh
Q psy1168 56 GEQLKLRQQ-VIATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEEFGVISSSRLLSTCQTVVKNKLNYAYAQEFPY 134 (229)
Q Consensus 56 ~~~l~l~~~-~~~~A~~~~~Rf~~~~s~~~~~~~~v~~acl~LA~K~ee~~~~~l~~li~~~~~~~~~~~~~~~~~~~~~ 134 (229)
=..++.+.. .++..++||.|--... ..+.. .--..|||||+-+||.....-.++..-.. |++...
T Consensus 22 D~~~~~sDKYLLAmV~~YF~Ragl~~--~~Y~r-i~FFlALYLAndmEED~~~~K~~If~f~~-----------G~~w~~ 87 (131)
T PF11357_consen 22 DKCLRVSDKYLLAMVIAYFSRAGLFS--WQYQR-IHFFLALYLANDMEEDDEEPKYEIFPFLY-----------GKNWRS 87 (131)
T ss_pred CcchhhhhHHHHHHHHHHHHhcccch--hhcch-HHHHHHHHHhhHHHhccchHHHHHHHHHH-----------CcchHH
Confidence 345566665 7888889999864321 12222 23346999999999986322233333222 222112
Q ss_pred hHHHHHHHHHHHHHHcCcceeec
Q psy1168 135 RTNHILECEFYLLENLDCCLIVY 157 (229)
Q Consensus 135 ~~~~i~~~E~~iL~~L~fdl~~~ 157 (229)
..-.....=..+.+.+||...|.
T Consensus 88 ~~~~F~klr~~~~~~m~~Ra~Vs 110 (131)
T PF11357_consen 88 QIPQFHKLRDQFWRRMDWRAWVS 110 (131)
T ss_pred HhHHHHHHHHHHHHHcCCceeeC
Confidence 23344555566778888877664
No 47
>PF13591 MerR_2: MerR HTH family regulatory protein
Probab=47.74 E-value=65 Score=21.69 Aligned_cols=42 Identities=24% Similarity=0.324 Sum_probs=28.7
Q ss_pred ccCCcccHHHHHHhhhcCCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHh
Q psy1168 15 IQQWVLDRQDLIRERKHDLSILSDEEYQKIFIFFANFIQILGEQLKLRQQVIATATVYFKRFY 77 (229)
Q Consensus 15 ~~~w~f~~~~l~~~~~~~~~~~s~~~e~~~r~~~~~~I~~~~~~l~l~~~~~~~A~~~~~Rf~ 77 (229)
...|+|+.+++.+. ..+.++..-|+++..-++.+..+++|..
T Consensus 32 ~~~~~f~~~~l~rl---------------------~~~~rL~~Dl~in~~gi~lil~LLd~i~ 73 (84)
T PF13591_consen 32 EEEWYFSEEDLARL---------------------RRIRRLHRDLGINLEGIALILDLLDRIE 73 (84)
T ss_pred CCeeeECHHHHHHH---------------------HHHHHHHHHcCCCHHHHHHHHHHHHHHH
Confidence 35667766666654 2356667777888887788777777764
No 48
>TIGR00873 gnd 6-phosphogluconate dehydrogenase, decarboxylating. This model does not specify whether the cofactor is NADP only (EC 1.1.1.44), NAD only, or both. The model does not assign an EC number for that reason.
Probab=41.16 E-value=77 Score=28.88 Aligned_cols=34 Identities=6% Similarity=0.014 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhh
Q psy1168 45 FIFFANFIQILGEQLKLRQQVIATATVYFKRFYA 78 (229)
Q Consensus 45 r~~~~~~I~~~~~~l~l~~~~~~~A~~~~~Rf~~ 78 (229)
.....+++...+-..++|..++..|..||++|-.
T Consensus 397 ~~~~~r~vV~~a~~~gip~P~ls~aL~y~~~~~s 430 (467)
T TIGR00873 397 AQSGWRRVVALAIEYGIPVPAFSAALSFYDGYRT 430 (467)
T ss_pred hhHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhc
Confidence 4456688888999999999999999999999965
No 49
>COG2117 Predicted subunit of tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]
Probab=35.19 E-value=34 Score=26.52 Aligned_cols=43 Identities=16% Similarity=0.322 Sum_probs=28.9
Q ss_pred HHHHHcCcce-------eecCChHHHHHHHHHhCccHHHHHHHHHHHHHH
Q psy1168 145 YLLENLDCCL-------IVYQPYRPLLQLVQDIGHEDQLLALAWRVINDS 187 (229)
Q Consensus 145 ~iL~~L~fdl-------~~~~P~~~l~~~~~~l~~~~~i~~~a~~~~~~~ 187 (229)
.||+.|||+. .+.+-+.+-..-...++.+.++.++-..++++.
T Consensus 18 ~iL~klgyev~LVTvnFGv~d~~k~A~~tA~~lgF~h~vl~Ldr~ile~A 67 (198)
T COG2117 18 LILDKLGYEVELVTVNFGVLDSWKYARETAAILGFPHEVLQLDREILEDA 67 (198)
T ss_pred HHHHHhCCCcEEEEEEeccccchhhHHHHHHHhCCCcceeccCHHHHHHH
Confidence 6788898854 344568888888888887655555555555444
No 50
>PF11526 CFIA_Pcf11: Subunit of cleavage factor IA Pcf11; InterPro: IPR021605 Pcf11 is a subunit of an essential polyadenylation factor in Saccharomyces cerevisiae, CFIA. Pcf11 binds to Clp1, another subunit of CFIA whose interaction is responsible for maintaining a tight coupling between the Clp1 nucleotide binding subunit and the other components of the polyadenylation machinery. ; PDB: 2NPI_C.
Probab=35.10 E-value=25 Score=24.00 Aligned_cols=20 Identities=20% Similarity=0.464 Sum_probs=9.0
Q ss_pred hhccCCcccHHHHHHhhhcC
Q psy1168 13 EWIQQWVLDRQDLIRERKHD 32 (229)
Q Consensus 13 ~~~~~w~f~~~~l~~~~~~~ 32 (229)
.|.++||+++.|+..-+...
T Consensus 11 iQSR~WYLdd~eWIkFkdd~ 30 (84)
T PF11526_consen 11 IQSRNWYLDDSEWIKFKDDE 30 (84)
T ss_dssp -B-B-----HHHHHH--TTT
T ss_pred ccccceeeChHHhhcccccc
Confidence 89999999999999976543
No 51
>KOG3785|consensus
Probab=32.34 E-value=1.1e+02 Score=27.07 Aligned_cols=64 Identities=22% Similarity=0.109 Sum_probs=47.0
Q ss_pred HHcCcceeecCChHHHHHHHHHh--Cc---cHHHHHHHHHHHHHHhCC-cccccccHHHHHHHHHHHhcc
Q psy1168 148 ENLDCCLIVYQPYRPLLQLVQDI--GH---EDQLLALAWRVINDSLRT-DVCLLYPPYQIAIGECSFSFT 211 (229)
Q Consensus 148 ~~L~fdl~~~~P~~~l~~~~~~l--~~---~~~i~~~a~~~~~~~~~~-~~~l~~~P~~IA~aai~~A~~ 211 (229)
-.|.-||.+.+||+||.+-+-.. |. +++..+.|..++...--+ ..|-..+..+--++++++.-.
T Consensus 305 ~~L~Kdl~PttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~q 374 (557)
T KOG3785|consen 305 ISLCKDLDPTTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQ 374 (557)
T ss_pred HHHHhhcCCCChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHH
Confidence 34566899999999998766433 32 467888888888876544 347778888888888888754
No 52
>PF14502 HTH_41: Helix-turn-helix domain
Probab=32.23 E-value=77 Score=19.16 Aligned_cols=25 Identities=16% Similarity=0.271 Sum_probs=21.8
Q ss_pred HHHHHHHhcCCCHHHHHHHHHHHHH
Q psy1168 51 FIQILGEQLKLRQQVIATATVYFKR 75 (229)
Q Consensus 51 ~I~~~~~~l~l~~~~~~~A~~~~~R 75 (229)
-|.+++++++++.-|+..|..++..
T Consensus 8 tI~e~~~~~~vs~GtiQ~Alk~Le~ 32 (48)
T PF14502_consen 8 TISEYSEKFGVSRGTIQNALKFLEE 32 (48)
T ss_pred CHHHHHHHhCcchhHHHHHHHHHHH
Confidence 4778889999999999999988864
No 53
>PF02286 Dehydratase_LU: Dehydratase large subunit; InterPro: IPR003206 This entry represents the large subunit of adenosylcobalamin-dependent diol dehydratases (4.2.1.28 from EC) and glycerol dehydratases (4.2.1.30 from EC). These enzymes are produced by some enterobacteria in response to growth substances. The enzyme have an TIM beta/alpha barrel fold []. Inactivated holoenzymes are reactivated by their own reactivating factors that mediate the ATP-dependent exchange of an enzyme-bound, damaged cofactor for free adenosylcobalamin through intermediary formation of apoenzyme. The reactivation takes place in two steps: (a) ADP-dependent cobalamin release and (b) ATP-dependent dissociation of the resulting apoenzyme-reactivating factor complexes [].; GO: 0016836 hydro-lyase activity, 0031419 cobalamin binding, 0050215 propanediol dehydratase activity, 0006071 glycerol metabolic process, 0008152 metabolic process; PDB: 1MMF_A 1IWP_A 1UC4_A 1IWB_L 1EGM_L 1EGV_A 3AUJ_L 1DIO_L 1UC5_A 1EEX_L ....
Probab=26.99 E-value=68 Score=28.87 Aligned_cols=67 Identities=21% Similarity=0.153 Sum_probs=35.3
Q ss_pred ccccchh-hhccCCcccHHHHHHhhhcCCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCHHHHH--HHHHHHH
Q psy1168 6 TQGRFYP-EWIQQWVLDRQDLIRERKHDLSILSDEEYQKIFIFFANFIQILGEQLKLRQQVIA--TATVYFK 74 (229)
Q Consensus 6 ~~~~~~~-~~~~~w~f~~~~l~~~~~~~~~~~s~~~e~~~r~~~~~~I~~~~~~l~l~~~~~~--~A~~~~~ 74 (229)
++|+.|+ .....|+.-..++.- -.|...+++++.-.+|.++++-|+.+-+.|+||.-|-+ .|.+|-|
T Consensus 374 FagSn~daeD~DDy~vlQRDl~v--DgGL~pV~Ee~vi~vRnkAara~QavF~eLGlp~itDeeVEaatyA~ 443 (554)
T PF02286_consen 374 FAGSNFDAEDFDDYNVLQRDLKV--DGGLRPVTEEEVIAVRNKAARAIQAVFKELGLPPITDEEVEAATYAH 443 (554)
T ss_dssp TT--SSBGGGHHHHHHHHHHHT-----S-----HHHHHHHHHHHHHHHHHHHHHTT-S---HHHHHHHHH-S
T ss_pred ccCCCCChhhhhHHHHHHHHhcc--cCCCCcCCHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHhc
Confidence 4555555 555555443333321 13556677888888999999999999999999986533 4445443
No 54
>PF14383 VARLMGL: DUF761-associated sequence motif
Probab=26.95 E-value=25 Score=19.46 Aligned_cols=9 Identities=44% Similarity=0.435 Sum_probs=7.1
Q ss_pred CCccccccc
Q psy1168 1 MGLISTQGR 9 (229)
Q Consensus 1 ~~~~~~~~~ 9 (229)
|||++++..
T Consensus 22 MGld~lP~~ 30 (34)
T PF14383_consen 22 MGLDSLPDS 30 (34)
T ss_pred hccccCCcc
Confidence 889988764
No 55
>cd03687 Dehydratase_LU Dehydratase large subunit. This family contains the large (alpha) subunit of B12-dependent glycerol dehydratases (GDHs) and B12-dependent diol dehydratases (DDHs). GDH is isofunctional with DDH. These enzymes can each catalyze the conversion of 1,2-propanediol, glycerol, and 1,2-ethanediol to the corresponding aldehydes via a coenzyme B12 (adenosylcobalamin)-dependent radical mechanism. Both enzymes exhibit a subunit composition of alpha2beta2gamma2. The enzymes differ in substrate specificity; glycerol is the preferred substrate for GDH and 1,2-propanediol for DDH. GDH shows almost equal affinity for both (R) and (S)-isomers while DDH prefers the (S) isomer. GDH plays a key role in the dihydroxyacetone (DHA) pathway and DDH in the anaerobic degradation of 1,2-diols. The radical mechanism has been well studied for Klebsiella oxytoca DDH and involves binding of 1,2-propanediol to the enzyme to induce hemolytic cleavage of the Co-C5' bond of the coenzyme to form co
Probab=24.16 E-value=87 Score=28.18 Aligned_cols=101 Identities=18% Similarity=0.109 Sum_probs=59.6
Q ss_pred ccccchh-hhccCCcccHHHHHHhhhcCCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCHHHHH--HHHHHHHHHhhcccc
Q psy1168 6 TQGRFYP-EWIQQWVLDRQDLIRERKHDLSILSDEEYQKIFIFFANFIQILGEQLKLRQQVIA--TATVYFKRFYARNSL 82 (229)
Q Consensus 6 ~~~~~~~-~~~~~w~f~~~~l~~~~~~~~~~~s~~~e~~~r~~~~~~I~~~~~~l~l~~~~~~--~A~~~~~Rf~~~~s~ 82 (229)
++++.|+ .....|+.-..++.-- .|...+++++--.+|.++++-|+.+-+.|+||.-|-. -|.+|-| .|
T Consensus 367 FagSN~daeD~DDy~vlqRDl~vd--gGl~pV~ee~viavRnkAA~AiQAVf~~LGlp~itDeeveaatyA~-----gS- 438 (545)
T cd03687 367 FAGSNFDAEDFDDYNVLQRDLKVD--GGLRPVTEEEVIAVRNKAARAIQAVFRELGLPPITDEEVEAATYAH-----GS- 438 (545)
T ss_pred cccCCCChhhhhhHHHHHHhhccC--CCCccCCHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHhhc-----CC-
Confidence 4555555 5555554433333221 3566778999899999999999999999999975422 4445443 21
Q ss_pred ccCCchhHHHHHHHHHhhcccccccchHHHHHHH
Q psy1168 83 KCIDPLLLAPTCVFLASKVEEFGVISSSRLLSTC 116 (229)
Q Consensus 83 ~~~~~~~v~~acl~LA~K~ee~~~~~l~~li~~~ 116 (229)
++ .|.--...-+.-|-.+.+..+ +.-|+++..
T Consensus 439 ~D-mp~r~~~~dlkaa~~~~~rgi-Tg~DvVkaL 470 (545)
T cd03687 439 KD-MPERNPVEDIKAAEEIINRNI-TGLDVVKAL 470 (545)
T ss_pred cc-CCccchHHHHHHHHHHHHcCC-chhHHHHHH
Confidence 11 122222334455556655553 667776654
No 56
>PRK15444 pduC propanediol dehydratase large subunit; Provisional
Probab=23.98 E-value=90 Score=28.15 Aligned_cols=101 Identities=18% Similarity=0.118 Sum_probs=59.2
Q ss_pred ccccchh-hhccCCcccHHHHHHhhhcCCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCHHHHH--HHHHHHHHHhhcccc
Q psy1168 6 TQGRFYP-EWIQQWVLDRQDLIRERKHDLSILSDEEYQKIFIFFANFIQILGEQLKLRQQVIA--TATVYFKRFYARNSL 82 (229)
Q Consensus 6 ~~~~~~~-~~~~~w~f~~~~l~~~~~~~~~~~s~~~e~~~r~~~~~~I~~~~~~l~l~~~~~~--~A~~~~~Rf~~~~s~ 82 (229)
++++.|+ .....|+.-..++.-- .|...+++++--.+|.++++-|+.+-+.|+||.-|-. -|.+|-| .|
T Consensus 374 FagSN~daeD~DDy~vlQRDl~vd--gGlrpV~ee~vi~vRnkAArAiQAVF~~LGlp~itDeeVeAatyA~-----gS- 445 (554)
T PRK15444 374 FAGSNFDAEDFDDYNVLQRDLKVD--GGLRPVREEEVIAVRNKAARALQAVFRELGLPPITDEEVEAATYAH-----GS- 445 (554)
T ss_pred cccCCCChhhhhhHHHHHHHhccc--CCCccCCHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHhhc-----CC-
Confidence 4555555 5555555433333221 3566778898889999999999999999999975422 3445443 11
Q ss_pred ccCCchhHHHHHHHHHhhcccccccchHHHHHHH
Q psy1168 83 KCIDPLLLAPTCVFLASKVEEFGVISSSRLLSTC 116 (229)
Q Consensus 83 ~~~~~~~v~~acl~LA~K~ee~~~~~l~~li~~~ 116 (229)
++ .+.--...-+.-|-.+.+..+ +.-|+++..
T Consensus 446 kD-mp~r~~~~dlkaa~~~~~rgi-Tg~DiVkaL 477 (554)
T PRK15444 446 KD-MPERNVVEDLKAAQEIMNRGI-TGLDVVKAL 477 (554)
T ss_pred cc-CCccchHHHHHHHHHHHHcCC-chhHHHHHH
Confidence 11 112222234444555555543 666766653
No 57
>KOG0654|consensus
Probab=23.58 E-value=1.4e+02 Score=26.32 Aligned_cols=36 Identities=22% Similarity=0.128 Sum_probs=23.6
Q ss_pred HHHHHHHHHhhccccccCCchhHHHHHHHHHhhccc
Q psy1168 68 TATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEE 103 (229)
Q Consensus 68 ~A~~~~~Rf~~~~s~~~~~~~~v~~acl~LA~K~ee 103 (229)
++.++..-.+.-..+..+-|-+++++++|||==.-+
T Consensus 258 ~~~yl~elsll~~~~l~y~PSliAasAv~lA~~~~~ 293 (359)
T KOG0654|consen 258 LANYLTELSLLDYIFLKYLPSLIAASAVFLARLTLD 293 (359)
T ss_pred HHHHHHHhhhhhHHHhccChHHHHHHHHHHHHhhcc
Confidence 333333333334456678899999999999965444
No 58
>cd03197 GST_C_mPGES2 GST_C family; microsomal Prostaglandin E synthase Type 2 (mPGES2) subfamily; mPGES2 is a membrane-anchored dimeric protein containing a CXXC motif which catalyzes the isomerization of PGH2 to PGE2. Unlike cytosolic PGE synthase (cPGES) and microsomal PGES Type 1 (mPGES1), mPGES2 does not require glutathione (GSH) for its activity, although its catalytic rate is increased two- to four-fold in the presence of DTT, GSH, or other thiol compounds. PGE2 is widely distributed in various tissues and is implicated in the sleep/wake cycle, relaxation/contraction of smooth muscle, excretion of sodium ions, maintenance of body temperature, and mediation of inflammation. mPGES2 contains an N-terminal hydrophobic domain which is membrane associated and a C-terminal soluble domain with a GST-like structure. The C-terminus contains two structural domains a N-terminal thioredoxin-fold domain and a C-terminal alpha helical domain. The GST active site is located in a cleft between t
Probab=23.41 E-value=1.9e+02 Score=21.94 Aligned_cols=66 Identities=15% Similarity=0.056 Sum_probs=40.8
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHhcCCCH--HHHHHHHHHHHHHhhcccc---ccCCchhHHHHHHHHHhhccccc
Q psy1168 36 LSDEEYQKIFIFFANFIQILGEQLKLRQ--QVIATATVYFKRFYARNSL---KCIDPLLLAPTCVFLASKVEEFG 105 (229)
Q Consensus 36 ~s~~~e~~~r~~~~~~I~~~~~~l~l~~--~~~~~A~~~~~Rf~~~~s~---~~~~~~~v~~acl~LA~K~ee~~ 105 (229)
.+.++|.+.| +|+.+--.++--|. .+..-|..=|+-+.....+ .+.-.+.++++++|+.+|.--.+
T Consensus 3 ~~~~~e~kWr----~W~d~~lv~~~~pniyrt~~ea~~~f~yi~~~~~f~~~er~~~~~~Ga~aM~~isk~lkk~ 73 (149)
T cd03197 3 LADPEEMKWR----KWADDHLVHLISPNIYRTWSEALASFDYITPSGYFGYWEKFFAKYVGAAAMYLISKYLKKP 73 (149)
T ss_pred cchHHHHHHH----HHHHhhhHhhccHHHhCCHHHHHHhhhhHhcCCCccHHHHHHHHHhhHHHHHHHHHHhccc
Confidence 3456666777 55554444443333 2566677777766655554 33345688999999999975443
No 59
>PF08259 Periviscerokin: Periviscerokinin family; InterPro: IPR013231 Perviscerokinin neuropeptides are found in the abdominal perisympathetic organs of insects. They mediate visceral muscle contractile activity (myotropic activity). CAPA, which are in the periviscerokinin and pyrokinin peptide families, has potential medical importance. This is due to its myotropic effects on, for example, heart muscles and due to its occurrence in the Ixodoidea (ticks), which are important vectors in the transmission of many animal diseases []. These peptides also have a strong diuretic or anti-diuretic effect, suggesting they have significant medical implications [].
Probab=22.72 E-value=35 Score=13.86 Aligned_cols=7 Identities=43% Similarity=0.553 Sum_probs=4.9
Q ss_pred Ccccccc
Q psy1168 2 GLISTQG 8 (229)
Q Consensus 2 ~~~~~~~ 8 (229)
|+++|+.
T Consensus 4 GlI~fpR 10 (11)
T PF08259_consen 4 GLIPFPR 10 (11)
T ss_pred cccccCC
Confidence 7777764
No 60
>KOG0653|consensus
Probab=21.29 E-value=1.7e+02 Score=26.00 Aligned_cols=90 Identities=16% Similarity=0.109 Sum_probs=50.3
Q ss_pred hhccCCcccHHHHHHhhhcCCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhhccccccCCchhHHH
Q psy1168 13 EWIQQWVLDRQDLIRERKHDLSILSDEEYQKIFIFFANFIQILGEQLKLRQQVIATATVYFKRFYARNSLKCIDPLLLAP 92 (229)
Q Consensus 13 ~~~~~w~f~~~~l~~~~~~~~~~~s~~~e~~~r~~~~~~I~~~~~~l~l~~~~~~~A~~~~~Rf~~~~s~~~~~~~~v~~ 92 (229)
.--+.|.||.+|+.+.-..-.+.+... .-.-....|++++.+..+....+..++-...--++.-..+....+..+++
T Consensus 227 v~isd~~~s~~~il~mE~~il~~L~f~---l~~p~~~~FLrr~~ka~~~d~~~~~~~k~~~El~l~d~~~~~~~~s~~aa 303 (391)
T KOG0653|consen 227 VLITDGAYSREEILRMEKYILNVLEFD---LSVPTPLSFLRRFLKAADYDIKTRTLVKYLLELSLCDYSMLSIPPSSSAA 303 (391)
T ss_pred EeeeCCccchHHHHHHHHHHHhccCee---ecCCchHHHHHHHHHhhhcchhHHHHHHHHHHHHHhhhHHhccCcHHHHH
Confidence 334566778887777643211111111 01112234555555555555555555555555555555666677788889
Q ss_pred HHHHHHhhccccc
Q psy1168 93 TCVFLASKVEEFG 105 (229)
Q Consensus 93 acl~LA~K~ee~~ 105 (229)
|+.++|-+.....
T Consensus 304 a~~~~~~~~~~~~ 316 (391)
T KOG0653|consen 304 ASFTLALRMLSKG 316 (391)
T ss_pred HHHHHHHHHhccC
Confidence 9999998877654
No 61
>TIGR01565 homeo_ZF_HD homeobox domain, ZF-HD class. This model represents a class of homoebox domain that differs substantially from the typical homoebox domain described in pfam model pfam00046. It is found in both C4 and C3 plants.
Probab=21.15 E-value=1.1e+02 Score=19.19 Aligned_cols=37 Identities=11% Similarity=0.130 Sum_probs=22.6
Q ss_pred cccHHHHHHhhh----cC--CCCCCHHHHHHHHHHHHHHHHHHHHhcCCCHHHH
Q psy1168 19 VLDRQDLIRERK----HD--LSILSDEEYQKIFIFFANFIQILGEQLKLRQQVI 66 (229)
Q Consensus 19 ~f~~~~l~~~~~----~~--~~~~s~~~e~~~r~~~~~~I~~~~~~l~l~~~~~ 66 (229)
.||.+|++.+.. .+ +...+. ..+.++|..++|+..++
T Consensus 7 ~Ft~~Q~~~Le~~fe~~~y~~~~~~~-----------~~r~~la~~lgl~~~vv 49 (58)
T TIGR01565 7 KFTAEQKEKMRDFAEKLGWKLKDKRR-----------EEVREFCEEIGVTRKVF 49 (58)
T ss_pred CCCHHHHHHHHHHHHHcCCCCCCCCH-----------HHHHHHHHHhCCCHHHe
Confidence 588888887742 11 122221 23567788889987654
No 62
>PF02796 HTH_7: Helix-turn-helix domain of resolvase; InterPro: IPR006120 Site-specific recombination plays an important role in DNA rearrangement in prokaryotic organisms. Two types of site-specific recombination are known to occur: Recombination between inverted repeats resulting in the reversal of a DNA segment. Recombination between repeat sequences on two DNA molecules resulting in their cointegration, or between repeats on one DNA molecule resulting in the excision of a DNA fragment. Site-specific recombination is characterised by a strand exchange mechanism that requires no DNA synthesis or high energy cofactor; the phosphodiester bond energy is conserved in a phospho-protein linkage during strand cleavage and re-ligation. Two unrelated families of recombinases are currently known []. The first, called the 'phage integrase' family, groups a number of bacterial phage and yeast plasmid enzymes. The second [], called the 'resolvase' family, groups enzymes which share the following structural characteristics: an N-terminal catalytic and dimerization domain that contains a conserved serine residue involved in the transient covalent attachment to DNA IPR006119 from INTERPRO, and a C-terminal helix-turn-helix DNA-binding domain. ; GO: 0000150 recombinase activity, 0003677 DNA binding, 0006310 DNA recombination; PDB: 1ZR2_A 2GM4_B 1RES_A 1ZR4_A 1RET_A 1GDT_B 2R0Q_C 1JKP_C 1IJW_C 1JJ6_C ....
Probab=20.60 E-value=1.9e+02 Score=16.68 Aligned_cols=29 Identities=14% Similarity=0.179 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCCHHHHHH
Q psy1168 39 EEYQKIFIFFANFIQILGEQLKLRQQVIAT 68 (229)
Q Consensus 39 ~~e~~~r~~~~~~I~~~~~~l~l~~~~~~~ 68 (229)
++-.++...+ .-+.++++.++++..|+..
T Consensus 12 ~~i~~l~~~G-~si~~IA~~~gvsr~TvyR 40 (45)
T PF02796_consen 12 EEIKELYAEG-MSIAEIAKQFGVSRSTVYR 40 (45)
T ss_dssp HHHHHHHHTT---HHHHHHHTTS-HHHHHH
T ss_pred HHHHHHHHCC-CCHHHHHHHHCcCHHHHHH
Confidence 4445555555 6689999999999998753
Done!