Query 037214
Match_columns 455
No_of_seqs 226 out of 1525
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 09:54:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037214.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037214hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0656 G1/S-specific cyclin D 100.0 1.2E-37 2.6E-42 313.8 21.4 217 11-240 43-268 (335)
2 KOG0653 Cyclin B and related k 100.0 2.8E-35 6E-40 305.6 17.4 246 9-287 123-372 (391)
3 KOG0655 G1/S-specific cyclin E 100.0 1E-33 2.2E-38 280.2 17.3 208 13-248 113-337 (408)
4 COG5024 Cyclin [Cell division 100.0 1.6E-33 3.5E-38 292.9 13.4 220 10-249 178-402 (440)
5 KOG0654 G2/Mitotic-specific cy 100.0 6.9E-31 1.5E-35 267.0 8.7 237 18-291 108-351 (359)
6 PF00134 Cyclin_N: Cyclin, N-t 99.9 6.4E-22 1.4E-26 172.2 11.7 123 15-151 1-127 (127)
7 TIGR00569 ccl1 cyclin ccl1. Un 99.9 2.6E-20 5.6E-25 187.8 21.3 163 36-212 50-222 (305)
8 KOG0834 CDK9 kinase-activating 99.8 1.1E-19 2.3E-24 183.8 10.8 209 36-252 33-251 (323)
9 KOG0835 Cyclin L [General func 99.8 1.9E-17 4.2E-22 164.9 21.3 200 36-248 17-231 (367)
10 KOG0794 CDK8 kinase-activating 99.7 4.1E-17 8.9E-22 156.0 13.3 201 40-253 39-245 (264)
11 COG5333 CCL1 Cdk activating ki 99.6 3.2E-15 7E-20 148.7 13.1 186 15-214 19-210 (297)
12 PF02984 Cyclin_C: Cyclin, C-t 99.6 2.2E-15 4.8E-20 128.8 8.9 118 153-291 1-118 (118)
13 PRK00423 tfb transcription ini 99.5 7.6E-12 1.7E-16 126.9 21.9 182 43-246 123-304 (310)
14 cd00043 CYCLIN Cyclin box fold 99.3 4.1E-12 9E-17 101.4 7.3 88 41-143 1-88 (88)
15 smart00385 CYCLIN domain prese 99.2 2E-11 4.4E-16 96.5 7.2 83 47-144 1-83 (83)
16 KOG2496 Cdk activating kinase 99.2 1.4E-10 3E-15 115.4 14.3 157 44-212 58-224 (325)
17 COG1405 SUA7 Transcription ini 98.9 2.3E-07 4.9E-12 93.4 19.6 182 42-245 97-278 (285)
18 KOG1597 Transcription initiati 98.6 2.6E-06 5.6E-11 85.1 16.9 180 45-246 107-288 (308)
19 smart00385 CYCLIN domain prese 98.4 2.1E-06 4.5E-11 67.6 8.8 82 157-243 1-82 (83)
20 cd00043 CYCLIN Cyclin box fold 98.3 6E-06 1.3E-10 65.5 10.3 86 152-242 2-87 (88)
21 PF08613 Cyclin: Cyclin; Inte 97.8 4.7E-05 1E-09 69.5 6.7 93 44-150 53-149 (149)
22 KOG1598 Transcription initiati 97.1 0.0056 1.2E-07 66.0 12.6 157 39-213 60-226 (521)
23 KOG4164 Cyclin ik3-1/CABLES [C 97.0 0.00087 1.9E-08 69.5 5.7 105 36-153 376-482 (497)
24 PF00382 TFIIB: Transcription 95.8 0.034 7.5E-07 44.2 6.7 60 49-114 1-60 (71)
25 PF00382 TFIIB: Transcription 95.7 0.11 2.4E-06 41.2 9.3 70 159-234 1-70 (71)
26 PRK00423 tfb transcription ini 91.8 0.81 1.8E-05 46.8 8.9 90 45-150 219-308 (310)
27 KOG1674 Cyclin [General functi 91.3 0.55 1.2E-05 45.9 6.7 100 45-153 78-181 (218)
28 PF00134 Cyclin_N: Cyclin, N-t 83.9 16 0.00034 31.2 10.6 83 156-242 35-118 (127)
29 KOG0834 CDK9 kinase-activating 77.2 2.8 6E-05 43.4 4.1 63 43-111 153-215 (323)
30 COG1405 SUA7 Transcription ini 76.4 31 0.00067 35.2 11.3 105 139-249 76-188 (285)
31 KOG1597 Transcription initiati 66.6 53 0.0011 33.8 10.2 84 155-245 107-191 (308)
32 TIGR00569 ccl1 cyclin ccl1. Un 61.0 18 0.00038 37.3 5.8 53 158-211 62-116 (305)
33 PF02984 Cyclin_C: Cyclin, C-t 58.2 10 0.00022 31.8 3.0 56 46-107 4-59 (118)
34 KOG1675 Predicted cyclin [Gene 42.8 16 0.00035 37.6 2.1 94 56-164 204-299 (343)
35 PF03261 CDK5_activator: Cycli 35.4 30 0.00065 36.2 2.7 75 44-118 223-302 (346)
36 KOG0835 Cyclin L [General func 25.4 1.2E+02 0.0027 31.7 5.1 23 88-110 180-202 (367)
37 KOG0794 CDK8 kinase-activating 23.3 1.3E+02 0.0028 30.2 4.6 54 157-211 46-99 (264)
No 1
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=1.2e-37 Score=313.82 Aligned_cols=217 Identities=22% Similarity=0.350 Sum_probs=190.6
Q ss_pred CCcchHHHHHHHHhhhhCCCCCccc----cccHHHHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHhcCCccccccCCC
Q 037214 11 PLCEQKPSKFFGIEMHWMPAEGYAE----SNKESLRKIAMHQILQISKSNNLDAMIPYAAMNIFDRFISRNEVPRMLGGM 86 (455)
Q Consensus 11 ~~~~E~l~~Lle~E~~~~p~~~yl~----~it~~~R~~LVdWL~eV~~~f~L~~eTl~LAV~yLDRFLs~~~V~~~~~~k 86 (455)
.+.++++..|+++|.++.|..+|.. .+++.+|.++++||++|+.++++.++|++|||||||||++.+++++ ++
T Consensus 43 ~~~e~~i~~ll~kEe~~~p~~~~~~~~~~~~~~~~R~~A~~WIl~V~~~~~~~~~~~~LA~NYlDRFls~~~l~k---~k 119 (335)
T KOG0656|consen 43 LWDERVLANLLEKEEQHNPSLDYFLCVQKLILSSMRKQALDWILKVCEEYNFEPLVFLLAMNYLDRFLSSQKLPK---DK 119 (335)
T ss_pred cccHHHHHHHHHHHHHhCCCCchhhhcccccccHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHhhcccccCC---Cc
Confidence 4778999999999999999988554 6899999999999999999999999999999999999999999999 78
Q ss_pred ccchhhhHHHHHHHHhhhccCCCC-hhhhhhccCCceeecCCccccHHHHHHHHHHHHHhcCcccccCChHHHHHHHHHh
Q 037214 87 REDIVLAADACLTISWSVKSTSFS-YDEFLEADNHEYKDTDARVVRKVQLVAMEQKIDVGVDWRMRVATPISFVEFFVGI 165 (455)
Q Consensus 87 ~~~LQLvgvaCL~IASK~EE~~~P-l~dLqv~~s~~~~~td~~yt~~~eIl~ME~~IL~~L~w~L~~pTP~~FL~~fl~~ 165 (455)
+|.+||+|+|||+||||+||+.+| +.|+|+.+.+|+|. ++.|.+||..||.+|+|+++.+||++|+++|+..
T Consensus 120 ~W~lQLlAvaCLsLAsKmeE~~vPll~dl~v~~~~~~fe-------aktI~rmELLVLstL~Wrl~aVTP~sF~~~fl~k 192 (335)
T KOG0656|consen 120 PWMLQLLAVACLSLASKMEETDVPLLADLQVEYTDNVFE-------AKTIQRMELLVLSTLKWRLRAVTPFSFIDHFLSK 192 (335)
T ss_pred hHHHHHHHHHHHHHHHhhcCcCCchhhhhhhcccccccc-------HHHHHHHHHHHHhhccccccCCCchHHHHHHHHH
Confidence 888999999999999999999988 58999887778888 8899999999999999999999999999999999
Q ss_pred cCCC----HHHHHHHHHHHHHHHhccccccCcChHHHHHHHHHHHHHHhCCCCchhhHHHHHHHHcCCCCHHHHHHHHH
Q 037214 166 IPIG----RGIKRRTLNEIVIQTQGDISFTRFLPTVIAASAVFTACRVLFNDQYYREKENMIRRVTKYVDEVDLEACLE 240 (455)
Q Consensus 166 ~~~~----~~l~~~al~~LlelsL~d~~fl~y~PS~IAAAAI~lA~~~l~~~~~~~w~~~Ll~~~s~yv~~~~L~~C~~ 240 (455)
++.. ..+..++ ..++..+..|..|+.|+||+||+|++.++...+....+......+ . ...+++++.+..|+.
T Consensus 193 i~~~~~~~~~~~~~~-s~~ll~~~~d~~Fl~y~pSviAaa~~~~v~~~~~~l~~~~~~~~~-~-~~~~l~~e~~~~~~~ 268 (335)
T KOG0656|consen 193 ISQKDHNKHLFLKHA-SLFLLSVITDIKFLEYPPSVIAAAAILSVSASVDGLDFREYENNL-L-SLLSLSKEKVNRCYD 268 (335)
T ss_pred cCcccchHHHHHHHH-HHHHHHHhhhhhhhcCChHHHHHHHHHHHHHhhcchhhhhhhHHH-H-HHHHhhHHhhhcchh
Confidence 9883 4556777 788888999999999999999999998888877765543322333 2 334468888888887
No 2
>KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=2.8e-35 Score=305.64 Aligned_cols=246 Identities=19% Similarity=0.250 Sum_probs=209.9
Q ss_pred CCCCcchHHHHHHHHhhhhCCCCCccc--cccHHHHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHhcCCccccccCCC
Q 037214 9 PEPLCEQKPSKFFGIEMHWMPAEGYAE--SNKESLRKIAMHQILQISKSNNLDAMIPYAAMNIFDRFISRNEVPRMLGGM 86 (455)
Q Consensus 9 ~~~~~~E~l~~Lle~E~~~~p~~~yl~--~it~~~R~~LVdWL~eV~~~f~L~~eTl~LAV~yLDRFLs~~~V~~~~~~k 86 (455)
-.++.+++...+.+.|..+.|...+.. +++..||.++|||+++||..|++.+||++|||+++||||+...|+.
T Consensus 123 ~~ey~~di~~~l~~~e~~~~p~~~~~~~~e~~~~mR~iLvdwlvevh~~F~L~~ETL~LaVnliDRfL~~~~v~~----- 197 (391)
T KOG0653|consen 123 IVEYVQDIFEYLRQLELEFLPLSYDISQSEIRAKMRAILVDWLVEVHEKFGLSPETLYLAVNLIDRFLSKVKVPL----- 197 (391)
T ss_pred HHHHHHHHHHHHHHHHHhhCchhhhcccccccHHHHHHHHHHHHHhhhhcCcCHHHHHHHHHHHHHHHHHhcccH-----
Confidence 345677788888888877777766644 8999999999999999999999999999999999999999999999
Q ss_pred ccchhhhHHHHHH-HHhhhccCCCC-hhhhhhccCCceeecCCccccHHHHHHHHHHHHHhcCcccccCChHHHHHHHHH
Q 037214 87 REDIVLAADACLT-ISWSVKSTSFS-YDEFLEADNHEYKDTDARVVRKVQLVAMEQKIDVGVDWRMRVATPISFVEFFVG 164 (455)
Q Consensus 87 ~~~LQLvgvaCL~-IASK~EE~~~P-l~dLqv~~s~~~~~td~~yt~~~eIl~ME~~IL~~L~w~L~~pTP~~FL~~fl~ 164 (455)
.++||+|++||| ||+||||..+| +.| +++.+|++|+.. +|++||+.||++|+|++..|||+.|+++|++
T Consensus 198 -~~lqLvgvsalf~IA~K~EE~~~P~v~d-------lv~isd~~~s~~-~il~mE~~il~~L~f~l~~p~~~~FLrr~~k 268 (391)
T KOG0653|consen 198 -KKLQLVGVSALLSIACKYEEISLPSVED-------LVLITDGAYSRE-EILRMEKYILNVLEFDLSVPTPLSFLRRFLK 268 (391)
T ss_pred -HHhhHHhHHHHHHHHHhhhhccCCccce-------eEeeeCCccchH-HHHHHHHHHHhccCeeecCCchHHHHHHHHH
Confidence 999999999976 99999999888 566 599999998866 9999999999999999999999999999999
Q ss_pred hcCCCHHHHHHHHHHHHHHHhccccccCcChHHHHHHHHHHHHHHhCCCCchhhHHHHHHHHcCCCCHHHHHHHHHHHHH
Q 037214 165 IIPIGRGIKRRTLNEIVIQTQGDISFTRFLPTVIAASAVFTACRVLFNDQYYREKENMIRRVTKYVDEVDLEACLEDTCK 244 (455)
Q Consensus 165 ~~~~~~~l~~~al~~LlelsL~d~~fl~y~PS~IAAAAI~lA~~~l~~~~~~~w~~~Ll~~~s~yv~~~~L~~C~~~L~~ 244 (455)
+...+....... .+++++++.|+.++.++||.+|+|+.++++.+..... .|...+ .+++|| ...++.+|.+.+..
T Consensus 269 a~~~d~~~~~~~-k~~~El~l~d~~~~~~~~s~~aaa~~~~~~~~~~~~~--~w~~~~-~~~sg~-~~~~~~~~~~~~~~ 343 (391)
T KOG0653|consen 269 AADYDIKTRTLV-KYLLELSLCDYSMLSIPPSSSAAASFTLALRMLSKGD--VWSPTL-EHYSGY-SESYLFECARSLSA 343 (391)
T ss_pred hhhcchhHHHHH-HHHHHHHHhhhHHhccCcHHHHHHHHHHHHHHhccCC--ccCCCC-eeccCC-CcHHHHHHHHHHHH
Confidence 999777777777 9999999999999999999999999999999998774 477767 789999 56699999998887
Q ss_pred HHHhhchhhhhhhchhHHHHHHHHHHHHHhccCCCCCCCCCCC
Q 037214 245 MCIEKQIMLERDLESADWKKLEEEINRRLETSSSSSSFNSISN 287 (455)
Q Consensus 245 l~~~~~~~~er~~~~~~~~kl~~~i~~r~~~~~sss~f~~is~ 287 (455)
+........ . ... -+..+++++.|..++.
T Consensus 344 ~~~~~~~~~-------~---~~~----~~~~ky~~~~~~~~~~ 372 (391)
T KOG0653|consen 344 LSLSSLQNP-------S---LRA----SVLNKYNSSKFLPASP 372 (391)
T ss_pred HHHHhcccc-------h---hHH----HHHHHhcccccchhhh
Confidence 444332210 0 000 2556888999987775
No 3
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=1e-33 Score=280.21 Aligned_cols=208 Identities=16% Similarity=0.228 Sum_probs=181.9
Q ss_pred cchHHHHHHHHhhhhCCCCCccc---cccHHHHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHhc-CCccccccCCCcc
Q 037214 13 CEQKPSKFFGIEMHWMPAEGYAE---SNKESLRKIAMHQILQISKSNNLDAMIPYAAMNIFDRFIS-RNEVPRMLGGMRE 88 (455)
Q Consensus 13 ~~E~l~~Lle~E~~~~p~~~yl~---~it~~~R~~LVdWL~eV~~~f~L~~eTl~LAV~yLDRFLs-~~~V~~~~~~k~~ 88 (455)
..|++..|+.+|..+..+..++. .+.++||++++|||.+||+.++|++||+||||-||||||. ...+.+ .
T Consensus 113 ~~eVW~lM~kkee~~l~~~~~l~qHpdlqp~mRaILlDWlmEVCEvykLHRETFyLAvDy~DRyl~t~~~v~k------t 186 (408)
T KOG0655|consen 113 SKEVWLLMLKKEERYLRDKHFLEQHPDLQPQMRAILLDWLMEVCEVYKLHRETFYLAVDYFDRYLETQVEVSK------T 186 (408)
T ss_pred HHHHHHHHHccchhhhhhhHHHhhCCCCCHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhh------h
Confidence 35789999999998877777776 7999999999999999999999999999999999999995 457777 9
Q ss_pred chhhhHHHHHHHHhhhccCCCC-hhhhhhccCCceeecCCccccHHHHHHHHHHHHHhcCcccccCChHHHHHHHHHhcC
Q 037214 89 DIVLAADACLTISWSVKSTSFS-YDEFLEADNHEYKDTDARVVRKVQLVAMEQKIDVGVDWRMRVATPISFVEFFVGIIP 167 (455)
Q Consensus 89 ~LQLvgvaCL~IASK~EE~~~P-l~dLqv~~s~~~~~td~~yt~~~eIl~ME~~IL~~L~w~L~~pTP~~FL~~fl~~~~ 167 (455)
++||||+||||||||+||+++| +.+ |.|.||++++- ++|+.||..||+.|+|+|++.|...+|.-|+....
T Consensus 187 ~lQLIGitsLFIAAK~EEIYpPKl~e-------FAyvTDgAcs~-ddIltmE~iilkal~W~l~PiTii~WL~vylQv~~ 258 (408)
T KOG0655|consen 187 NLQLIGITSLFIAAKLEEIYPPKLIE-------FAYVTDGACSE-DDILTMELIILKALKWELSPITIISWLNVYLQVDA 258 (408)
T ss_pred hHHHhhHHHHHHHHHHhhccCccccc-------eeeeccCccch-HHHHHHHHHHHHHhcccccceehHHHHHHHHHHHh
Confidence 9999999999999999999998 667 68999999994 49999999999999999999999999999998876
Q ss_pred CC------------HHHHHHHHHHHHHHHhccccccCcChHHHHHHHHHHHHHHhCCCCchhhHHHHHHHHcCCCCHHHH
Q 037214 168 IG------------RGIKRRTLNEIVIQTQGDISFTRFLPTVIAASAVFTACRVLFNDQYYREKENMIRRVTKYVDEVDL 235 (455)
Q Consensus 168 ~~------------~~l~~~al~~LlelsL~d~~fl~y~PS~IAAAAI~lA~~~l~~~~~~~w~~~Ll~~~s~yv~~~~L 235 (455)
.+ ..+.+. ..|+++++.+...+.|..++||||||+.... .+.+ ++.+|+ .+.+|
T Consensus 259 ~n~~~k~l~Pq~~~~efiqi--aqlLDlc~ldids~~fsYrilaAAal~h~~s----------~e~v-~kaSG~-~w~~i 324 (408)
T KOG0655|consen 259 LNDAPKVLLPQYSQEEFIQI--AQLLDLCILDIDSLEFSYRILAAAALCHFTS----------IEVV-KKASGL-EWDSI 324 (408)
T ss_pred cCCCCceeccccchHHHHHH--HHHHHHHHhccccccchHHHHHHHHHHHHhH----------HHHH-HHcccc-cHHHH
Confidence 52 233444 4899999999999999999999999987653 1223 667887 99999
Q ss_pred HHHHHHHHHHHHh
Q 037214 236 EACLEDTCKMCIE 248 (455)
Q Consensus 236 ~~C~~~L~~l~~~ 248 (455)
.+|+++|.-+++.
T Consensus 325 e~cv~wm~Pf~rv 337 (408)
T KOG0655|consen 325 EECVDWMVPFVRV 337 (408)
T ss_pred HHHHHHHHHHHHH
Confidence 9999999887753
No 4
>COG5024 Cyclin [Cell division and chromosome partitioning]
Probab=100.00 E-value=1.6e-33 Score=292.91 Aligned_cols=220 Identities=18% Similarity=0.207 Sum_probs=200.1
Q ss_pred CCCcchHHHHHHHHhhhhCCCCCccc---cccHHHHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHhcCCccccccCCC
Q 037214 10 EPLCEQKPSKFFGIEMHWMPAEGYAE---SNKESLRKIAMHQILQISKSNNLDAMIPYAAMNIFDRFISRNEVPRMLGGM 86 (455)
Q Consensus 10 ~~~~~E~l~~Lle~E~~~~p~~~yl~---~it~~~R~~LVdWL~eV~~~f~L~~eTl~LAV~yLDRFLs~~~V~~~~~~k 86 (455)
+++.++++..|+.+|..+.|.+.|+. .+...||.++|+|+++||..|++.++|+++||+++||||+...++-
T Consensus 178 ~Ey~~~Ife~l~k~e~~~lp~~~yl~kq~~~~~~mR~~Lv~wlvevH~~F~llpeTL~lainiiDrfLs~~~v~l----- 252 (440)
T COG5024 178 PEYASDIFEYLLKLELIDLPNPNYLIKQSLYEWSMRSILVDWLVEVHGKFGLLPETLFLAINIIDRFLSSRVVSL----- 252 (440)
T ss_pred HHHHHHHHHHHHHHHHHhcCcHHHHhhcchhHHhHHHHHHHHHHHhcccccccchHHHHHHHHHHHHhccCcccH-----
Confidence 46778899999999999999999987 6778999999999999999999999999999999999999999999
Q ss_pred ccchhhhHHHHHHHHhhhccCCCC-hhhhhhccCCceeecCCccccHHHHHHHHHHHHHhcCcccccCChHHHHHHHHHh
Q 037214 87 REDIVLAADACLTISWSVKSTSFS-YDEFLEADNHEYKDTDARVVRKVQLVAMEQKIDVGVDWRMRVATPISFVEFFVGI 165 (455)
Q Consensus 87 ~~~LQLvgvaCL~IASK~EE~~~P-l~dLqv~~s~~~~~td~~yt~~~eIl~ME~~IL~~L~w~L~~pTP~~FL~~fl~~ 165 (455)
..+||+|++||||||||||.++| +.++ .+.+|+.++.+ +|++||+.||.+|+|+++.|+|+.|++++.++
T Consensus 253 -~k~QLvg~s~LfIa~K~EE~~~p~i~~l-------~~~t~g~~t~~-~i~~aE~~ml~~l~f~is~P~P~sFLRriSka 323 (440)
T COG5024 253 -EKYQLVGISALFIASKYEEVNCPSIKDL-------VYATDGAFTRD-DIIRAERYMLEVLDFNISWPSPMSFLRRISKA 323 (440)
T ss_pred -HHHHHHHHHHHHHHHhHhHhcCHHHHHH-------HHHHcccccHH-HHHHHHHHHhhhcccccCCCChHHHHHHHHhh
Confidence 89999999999999999999998 4664 66688888855 99999999999999999999999999999999
Q ss_pred cCCCHHHHHHHHHHHHHHHhccccccCcChHHHHHHHHHHHHHHhCCCCchhhHHHHHHHHcC-CCCHHHHHHHHHHHHH
Q 037214 166 IPIGRGIKRRTLNEIVIQTQGDISFTRFLPTVIAASAVFTACRVLFNDQYYREKENMIRRVTK-YVDEVDLEACLEDTCK 244 (455)
Q Consensus 166 ~~~~~~l~~~al~~LlelsL~d~~fl~y~PS~IAAAAI~lA~~~l~~~~~~~w~~~Ll~~~s~-yv~~~~L~~C~~~L~~ 244 (455)
...+......+ .|+++.+..++.|++++||.+||||.+.++..++..+ |...+ .+|+| | +.+++.+++..+.+
T Consensus 324 ~dyd~~srt~~-k~~~e~s~~~~~f~~~~~S~~~aaa~~~s~~~~~~~~---w~~~l-~~ySg~y-~~~~l~~~~~~~~~ 397 (440)
T COG5024 324 SDYDIFSRTPA-KFSSEISPVDYKFIQISPSWCAAAAMYLSRKILSQNQ---WDRTL-IHYSGNY-TNPDLKPLNESNKE 397 (440)
T ss_pred cccchhhhhhH-hhhCCchHhhhhhccCCchHHHHHHHHHHHhhhccCC---CCccc-cccCCCC-CchhHHHHHHHHHH
Confidence 98877777777 9999999999999999999999999999999999887 55556 67999 6 77799999999888
Q ss_pred HHHhh
Q 037214 245 MCIEK 249 (455)
Q Consensus 245 l~~~~ 249 (455)
+....
T Consensus 398 ~l~~~ 402 (440)
T COG5024 398 NLQNP 402 (440)
T ss_pred Hhccc
Confidence 77543
No 5
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning]
Probab=99.97 E-value=6.9e-31 Score=267.00 Aligned_cols=237 Identities=21% Similarity=0.243 Sum_probs=207.3
Q ss_pred HHHHHHhhh-hCCCCCccc----cccHHHHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHhcCCccccccCCCccchhh
Q 037214 18 SKFFGIEMH-WMPAEGYAE----SNKESLRKIAMHQILQISKSNNLDAMIPYAAMNIFDRFISRNEVPRMLGGMREDIVL 92 (455)
Q Consensus 18 ~~Lle~E~~-~~p~~~yl~----~it~~~R~~LVdWL~eV~~~f~L~~eTl~LAV~yLDRFLs~~~V~~~~~~k~~~LQL 92 (455)
.++..-|.. .+|.++|+. ++++.||.++|||+++|++.+++..+|+|+++++.|||++...+.+ ..+|+
T Consensus 108 ~~~r~~ei~~~rp~~~~~e~vq~d~t~smrgilvdwlvevsee~r~~~e~l~ls~~~~drfl~~~~~~~------~k~ql 181 (359)
T KOG0654|consen 108 NTLRVSDIKSERPLPSKFEFVQADITPSMRGILVDWLVEVSEEYRLTFETLYLSVNYRDRFLSYKEVNK------QKLQL 181 (359)
T ss_pred hcccccchhhccCcccceeeeecCCCcchhhhhhhhhhHHHHHHHhhhhheeecHHHHHHHhccCccHH------HHHHH
Confidence 334556777 889999988 8999999999999999999999999999999999999999999999 89999
Q ss_pred hHHHHHHHHhhhccCCCC-hhhhhhccCCceeecCCccccHHHHHHHHHHHHHhcCcccccCChHHHHHHHHHhcCC-CH
Q 037214 93 AADACLTISWSVKSTSFS-YDEFLEADNHEYKDTDARVVRKVQLVAMEQKIDVGVDWRMRVATPISFVEFFVGIIPI-GR 170 (455)
Q Consensus 93 vgvaCL~IASK~EE~~~P-l~dLqv~~s~~~~~td~~yt~~~eIl~ME~~IL~~L~w~L~~pTP~~FL~~fl~~~~~-~~ 170 (455)
+|.+|++||+|+||...| +.+ |++++||+|+.. ++..||..||+.|.|++..||.-.|+..|+..... .-
T Consensus 182 ~g~s~m~I~sk~ee~~~~~~~e-------f~~itd~ty~~~-qv~~~~~~il~~l~~~~~~pt~~~~l~~~~~~~~~~~~ 253 (359)
T KOG0654|consen 182 VGISAMLIASKYEEIKEPRVEE-------FCYITDNTYTYW-QVLRMEIDILNALTFELVRPTSKTFLRRFLRVAQTPEL 253 (359)
T ss_pred hCcccceeeccchhhcchHHHH-------HHhhhhhhhHHH-HHHHHHHHHHHHhHHHHhCchHHHHHHHHHHhhcchhH
Confidence 999999999999999888 455 699999999966 99999999999999999999999999999888763 45
Q ss_pred HHHHHHHHHHHHHHhccccccCcChHHHHHHHHHHHHHHhCCCCchhhHHHHHHHHcCCCCHHHHHHHHHHHHHHHHhhc
Q 037214 171 GIKRRTLNEIVIQTQGDISFTRFLPTVIAASAVFTACRVLFNDQYYREKENMIRRVTKYVDEVDLEACLEDTCKMCIEKQ 250 (455)
Q Consensus 171 ~l~~~al~~LlelsL~d~~fl~y~PS~IAAAAI~lA~~~l~~~~~~~w~~~Ll~~~s~yv~~~~L~~C~~~L~~l~~~~~ 250 (455)
.+...+ .|+.++++.++.|+.|.||.|||||+++|+.+++..+ |...| +++++| +.+++..|+..|+ ++....
T Consensus 254 ~~e~~~-~yl~elsll~~~~l~y~PSliAasAv~lA~~~~~~~p---W~~~L-~~~T~y-~~edl~~~v~~L~-~~l~~~ 326 (359)
T KOG0654|consen 254 QVEPLA-NYLTELSLLDYIFLKYLPSLIAASAVFLARLTLDFHP---WNQTL-EDYTGY-KAEDLKPCVLDLH-LYLNAS 326 (359)
T ss_pred HHHHHH-HHHHHhhhhhHHHhccChHHHHHHHHHHHHhhccCCC---Cchhh-HHhhcc-cHHHHHHHHHHHh-cccCCC
Confidence 667778 9999999999999999999999999999999999554 77777 889999 9999999999998 554332
Q ss_pred hhhhhhhchhHHHHHHHHHHHHHhccCCCCCCCCCCCCCCC
Q 037214 251 IMLERDLESADWKKLEEEINRRLETSSSSSSFNSISNRDEE 291 (455)
Q Consensus 251 ~~~er~~~~~~~~kl~~~i~~r~~~~~sss~f~~is~~~e~ 291 (455)
.. .+ +.++.+++.++|..++..+.+
T Consensus 327 ~~--------~l--------~air~ky~~~k~~~Va~~~~p 351 (359)
T KOG0654|consen 327 GT--------DL--------PAIREKYKQSKFKEVALLPVP 351 (359)
T ss_pred CC--------ch--------HHHHHHhhhhhhhhhhccCCC
Confidence 21 22 334557778899988887765
No 6
>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=99.87 E-value=6.4e-22 Score=172.20 Aligned_cols=123 Identities=21% Similarity=0.379 Sum_probs=104.8
Q ss_pred hHHHHHHHHhhhhCCCCCccc---cccHHHHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHhcCCccccccCCCccchh
Q 037214 15 QKPSKFFGIEMHWMPAEGYAE---SNKESLRKIAMHQILQISKSNNLDAMIPYAAMNIFDRFISRNEVPRMLGGMREDIV 91 (455)
Q Consensus 15 E~l~~Lle~E~~~~p~~~yl~---~it~~~R~~LVdWL~eV~~~f~L~~eTl~LAV~yLDRFLs~~~V~~~~~~k~~~LQ 91 (455)
|++..++++|.++.|.+.|+. +++..+|..+++||.+++..++++++|+++|+.|+|||+....+.+ .+++
T Consensus 1 ~i~~~~~~~e~~~~~~~~~~~~~~~~~~~~r~~~~~~i~~~~~~~~l~~~~~~~A~~~~dr~~~~~~~~~------~~~~ 74 (127)
T PF00134_consen 1 DIFRYLLEKELKYKPNPDYLEQQPEITPEMRQIIIDWIIELCQRLKLSPETLHLAIYLFDRFLSKRPVNR------SKLQ 74 (127)
T ss_dssp HHHHHHHHHHHHTTCCTTHGTGTSSHHHHHHHHHHHHHHHHHHHTT-BHHHHHHHHHHHHHHHTTS-TTC------CGHH
T ss_pred CHHHHHHHHHHHHCcCccccccChhcCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHhhccccc------chhh
Confidence 578999999999999999997 6899999999999999999999999999999999999999998888 8999
Q ss_pred hhHHHHHHHHhhhccCCCC-hhhhhhccCCceeecCCccccHHHHHHHHHHHHHhcCcccc
Q 037214 92 LAADACLTISWSVKSTSFS-YDEFLEADNHEYKDTDARVVRKVQLVAMEQKIDVGVDWRMR 151 (455)
Q Consensus 92 LvgvaCL~IASK~EE~~~P-l~dLqv~~s~~~~~td~~yt~~~eIl~ME~~IL~~L~w~L~ 151 (455)
++|+|||+||+|++|..+| +.++.. .+++.|+ .++|.+||+.||.+|+|+++
T Consensus 75 li~~~cl~lA~K~~e~~~~~~~~~~~-------~~~~~~~-~~~i~~~E~~iL~~L~f~ln 127 (127)
T PF00134_consen 75 LIALACLFLASKMEEDNPPSISDLIR-------ISDNTFT-KKDILEMEREILSALNFDLN 127 (127)
T ss_dssp HHHHHHHHHHHHHHTSS--HHHHHHH-------HTTTSSH-HHHHHHHHHHHHHHTTT---
T ss_pred hhhhhHHHHhhhhhccccchHHHHHH-------HHcCCCC-HHHHHHHHHHHHHHCCCCcC
Confidence 9999999999999999776 677622 2345555 56999999999999999985
No 7
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=99.86 E-value=2.6e-20 Score=187.79 Aligned_cols=163 Identities=16% Similarity=0.186 Sum_probs=137.5
Q ss_pred cccHHHHHHHHHHHHHHHHHCC--CCchHHHHHHHHHHHHhcCCccccccCCCccchhhhHHHHHHHHhhhccCCCChhh
Q 037214 36 SNKESLRKIAMHQILQISKSNN--LDAMIPYAAMNIFDRFISRNEVPRMLGGMREDIVLAADACLTISWSVKSTSFSYDE 113 (455)
Q Consensus 36 ~it~~~R~~LVdWL~eV~~~f~--L~~eTl~LAV~yLDRFLs~~~V~~~~~~k~~~LQLvgvaCL~IASK~EE~~~Pl~d 113 (455)
+-...+|..-...|.+++.+++ ++++|+++|+.||+||+..+++.. .+.++||+||||||||+||..+++.+
T Consensus 50 eeE~~l~~~y~~~i~~~~~~lkp~Lpq~viaTAivyf~RFy~~~Sv~~------~~p~~Ia~tclfLA~KvEE~~~si~~ 123 (305)
T TIGR00569 50 EEELDLVKYYEKRLLDFCSAFKPTMPTSVVGTAIMYFKRFYLNNSVME------YHPKIIMLTCVFLACKVEEFNVSIDQ 123 (305)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHhHHhccCchhh------cCHHHHHHHHHHHHHhccccCcCHHH
Confidence 3445789999999999999999 999999999999999999999999 89999999999999999999888777
Q ss_pred hhhccCCceeecCCc-cccHHHHHHHHHHHHHhcCcccccCChHHHHHHHHHhcC-------CCHHHHHHHHHHHHHHHh
Q 037214 114 FLEADNHEYKDTDAR-VVRKVQLVAMEQKIDVGVDWRMRVATPISFVEFFVGIIP-------IGRGIKRRTLNEIVIQTQ 185 (455)
Q Consensus 114 Lqv~~s~~~~~td~~-yt~~~eIl~ME~~IL~~L~w~L~~pTP~~FL~~fl~~~~-------~~~~l~~~al~~LlelsL 185 (455)
+... ..+. ....++|++||..||+.|+|++.+++|+.++..|+..+. ..+.+.+.+ +.++..++
T Consensus 124 fv~~-------~~~~~~~~~~~Il~~E~~lL~~L~F~L~V~hPyr~L~~~l~dl~~~l~~~~~~~~l~q~a-~~~lndsl 195 (305)
T TIGR00569 124 FVGN-------LKETPLKALEQVLEYELLLIQQLNFHLIVHNPYRPLEGFLIDIKTRLPGLENPEYLRKHA-DKFLNRTL 195 (305)
T ss_pred HHhh-------ccCCchhhHHHHHHHHHHHHHHCCCcEEeeCccHHHHHHHHHHHHhhccccchHHHHHHH-HHHHHHHH
Confidence 6221 1111 112469999999999999999999999999999885432 134567778 77777777
Q ss_pred ccccccCcChHHHHHHHHHHHHHHhCC
Q 037214 186 GDISFTRFLPTVIAASAVFTACRVLFN 212 (455)
Q Consensus 186 ~d~~fl~y~PS~IAAAAI~lA~~~l~~ 212 (455)
....++.|+||+||+|||++|...++.
T Consensus 196 ~Td~~L~y~Ps~IAlAAI~lA~~~~~~ 222 (305)
T TIGR00569 196 LTDAYLLYTPSQIALAAILHTASRAGL 222 (305)
T ss_pred cCCceecCCHHHHHHHHHHHHHHHhCC
Confidence 777788899999999999999998885
No 8
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=99.80 E-value=1.1e-19 Score=183.83 Aligned_cols=209 Identities=13% Similarity=0.173 Sum_probs=168.5
Q ss_pred cccHHHHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHhcCCccccccCCCccchhhhHHHHHHHHhhhccCCCChhhhh
Q 037214 36 SNKESLRKIAMHQILQISKSNNLDAMIPYAAMNIFDRFISRNEVPRMLGGMREDIVLAADACLTISWSVKSTSFSYDEFL 115 (455)
Q Consensus 36 ~it~~~R~~LVdWL~eV~~~f~L~~eTl~LAV~yLDRFLs~~~V~~~~~~k~~~LQLvgvaCL~IASK~EE~~~Pl~dLq 115 (455)
.-....|...+.||.+++.+++++..|+..|+.|++||+..+++.. .+.+.+|++|||||+|+||...++.|+.
T Consensus 33 ~~E~~~r~~~~~fI~elg~~L~~~~~ti~tA~~~~hRFy~~~s~~~------~~~~~vA~sclfLAgKvEetp~kl~dIi 106 (323)
T KOG0834|consen 33 KKELRLRQEGAKFIQELGVRLKMPQKTIATAIVIFHRFYMFHSFKK------FDPYTVAASCLFLAGKVEETPRKLEDII 106 (323)
T ss_pred hHHHHHHHHHHHHHHHHHHHcCCCccchhhhhhhhhhhhhhccccc------CcHHHHHHHHHHHHhhcccCcccHHHHH
Confidence 5668899999999999999999999999999999999999999999 8889999999999999999988888874
Q ss_pred hccCCceee-----cCCccccHHHHHHHHHHHHHhcCcccccCChHHHHHHHHHhcCCCHH----HHHHHHHHHHHHHhc
Q 037214 116 EADNHEYKD-----TDARVVRKVQLVAMEQKIDVGVDWRMRVATPISFVEFFVGIIPIGRG----IKRRTLNEIVIQTQG 186 (455)
Q Consensus 116 v~~s~~~~~-----td~~yt~~~eIl~ME~~IL~~L~w~L~~pTP~~FL~~fl~~~~~~~~----l~~~al~~LlelsL~ 186 (455)
....++..- .+..-.-.+.|+..|..||++|+|++++-.|+.||..|++.++.+.. +.+.| +.++..++.
T Consensus 107 ~~s~~~~~~~~~~~~~~~~~~~~~Iv~~E~~lL~tl~Fdl~v~hPy~~ll~~~k~l~~~~~~~~~~a~~A-w~~~nD~~~ 185 (323)
T KOG0834|consen 107 KVSYRYLNPKDLELEEVYWELKERIVQLELLLLETLGFDLNVEHPYKYLLKYLKKLKADENLKQPLAQAA-WNFVNDSLR 185 (323)
T ss_pred HHHHHHcCcccccHHHHHHHHHHHHHHHHHHHHHHccCceeccCchHHHHHHHHHhhhhhhccccHHHHH-HHHhchhhe
Confidence 321121221 11112235789999999999999999999999999999999988654 77888 999999999
Q ss_pred cccccCcChHHHHHHHHHHHHHHhCCCCchhhHHH-HHHHHcCCCCHHHHHHHHHHHHHHHHhhchh
Q 037214 187 DISFTRFLPTVIAASAVFTACRVLFNDQYYREKEN-MIRRVTKYVDEVDLEACLEDTCKMCIEKQIM 252 (455)
Q Consensus 187 d~~fl~y~PS~IAAAAI~lA~~~l~~~~~~~w~~~-Ll~~~s~yv~~~~L~~C~~~L~~l~~~~~~~ 252 (455)
..-.++|+|..||+|||++|....+. +++.+... ..+..-.-++.++|.+.+..+.+++......
T Consensus 186 t~~cL~y~p~~IAva~i~lA~~~~~~-~~~~~~~~~w~~~~d~~vt~e~l~~i~~~~l~~y~~~~~~ 251 (323)
T KOG0834|consen 186 TTLCLQYSPHSIAVACIHLAAKLLGV-ELPSDTDKRWWREFDETVTNELLDDICHEFLDLYEQTPQR 251 (323)
T ss_pred eeeeEeecCcEEEeehhhHHHHHcCC-CCCCCcccchhhhhcccCCHHHHHHHHHHHHHHHhhcccc
Confidence 88889999999999999999998875 32221111 0021223368999999999999998755443
No 9
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=99.78 E-value=1.9e-17 Score=164.88 Aligned_cols=200 Identities=14% Similarity=0.192 Sum_probs=164.3
Q ss_pred cccHHHHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHhcCCccccccCCCccchhhhHHHHHHHHhhhccCCCChhhhh
Q 037214 36 SNKESLRKIAMHQILQISKSNNLDAMIPYAAMNIFDRFISRNEVPRMLGGMREDIVLAADACLTISWSVKSTSFSYDEFL 115 (455)
Q Consensus 36 ~it~~~R~~LVdWL~eV~~~f~L~~eTl~LAV~yLDRFLs~~~V~~~~~~k~~~LQLvgvaCL~IASK~EE~~~Pl~dLq 115 (455)
+-....|---++||.+-+--++|++.+.+.+..+|.||+...++.. .++..+++||++||||+||....+.|+.
T Consensus 17 e~e~el~~LG~e~Iqea~ILL~L~q~a~atgqVLFqRf~~~ks~v~------~~~e~vv~ACv~LASKiEE~Prr~rdVi 90 (367)
T KOG0835|consen 17 ETEEELRILGCELIQEAGILLNLPQVAMATGQVLFQRFCYSKSFVR------HDFEIVVMACVLLASKIEEEPRRIRDVI 90 (367)
T ss_pred chHHHHHHHhHHHHHhhhHhhcCcHHHHHHHHHHHHHHHhcccccc------ccHHHHHHHHHHHHhhhccccccHhHHH
Confidence 5668889999999999999999999999999999999999999998 8999999999999999999865555541
Q ss_pred --------hcc---CCceeecCCccccHHHHHHHHHHHHHhcCcccccCChHHHHHHHHHhcCCC--HHHHHHHHHHHHH
Q 037214 116 --------EAD---NHEYKDTDARVVRKVQLVAMEQKIDVGVDWRMRVATPISFVEFFVGIIPIG--RGIKRRTLNEIVI 182 (455)
Q Consensus 116 --------v~~---s~~~~~td~~yt~~~eIl~ME~~IL~~L~w~L~~pTP~~FL~~fl~~~~~~--~~l~~~al~~Lle 182 (455)
... ....+.....+..+.++.++|..||+.|||++++..|+.++-.|+..++.. ..+.+.+ |.++.
T Consensus 91 nVFh~L~~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF~~Hv~hPhklii~YLqtL~~~~~~~l~Q~~-wNfmN 169 (367)
T KOG0835|consen 91 NVFHYLEQRRESEAAEHLILARLYINLKMQVIRAERRILRELGFDVHVEHPHKLIIMYLQTLQLPPNLKLLQAA-WNFMN 169 (367)
T ss_pred HHHHHHHHHHhccCcchhhhhhHHhhhhhHHHHHHHHHHHHhCCeeeeeccHHHHHHHHHHhcCCCchhHHHHH-HHhhh
Confidence 110 011111122333456899999999999999999999999999999999884 4467888 99999
Q ss_pred HHhccccccCcChHHHHHHHHHHHHHHhCC-CC-chhhHHHHHHHHcCCCCHHHHHHHHHHHHHHHHh
Q 037214 183 QTQGDISFTRFLPTVIAASAVFTACRVLFN-DQ-YYREKENMIRRVTKYVDEVDLEACLEDTCKMCIE 248 (455)
Q Consensus 183 lsL~d~~fl~y~PS~IAAAAI~lA~~~l~~-~~-~~~w~~~Ll~~~s~yv~~~~L~~C~~~L~~l~~~ 248 (455)
.++-...|+.|+|+.||||||++|...++. .+ .|.|...+ + .++.+|.+.+-.+..+|..
T Consensus 170 DslRT~v~vry~pe~iACaciyLaAR~~eIpLp~~P~Wf~~F-----d-~~k~eid~ic~~l~~lY~~ 231 (367)
T KOG0835|consen 170 DSLRTDVFVRYSPESIACACIYLAARNLEIPLPFQPHWFKAF-----D-TTKREIDEICYRLIPLYKR 231 (367)
T ss_pred hccccceeeecCHHHHHHHHHHHHHhhhcCCCCCCccHHHHc-----C-CcHHHHHHHHHHHHHHHHh
Confidence 999999999999999999999999999982 11 24565433 3 5899999977777778876
No 10
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=99.72 E-value=4.1e-17 Score=156.01 Aligned_cols=201 Identities=17% Similarity=0.149 Sum_probs=162.6
Q ss_pred HHHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHhcCCccccccCCCccchhhhHHHHHHHHhhhccCCCChhhhhhcc-
Q 037214 40 SLRKIAMHQILQISKSNNLDAMIPYAAMNIFDRFISRNEVPRMLGGMREDIVLAADACLTISWSVKSTSFSYDEFLEAD- 118 (455)
Q Consensus 40 ~~R~~LVdWL~eV~~~f~L~~eTl~LAV~yLDRFLs~~~V~~~~~~k~~~LQLvgvaCL~IASK~EE~~~Pl~dLqv~~- 118 (455)
..+--..+.|..+++++++.+..+.+|+.||-||+.+.++.. -.+.+++.||++||||+||..+....+.+..
T Consensus 39 ~l~i~~~n~I~~lg~~lklRQ~ViATAivY~rRfy~r~S~k~------~~p~lla~TClyLAcKvEE~~i~~~r~l~~~a 112 (264)
T KOG0794|consen 39 KLKIFMANVIQKLGQHLKLRQRVIATAIVYFRRFYLRKSLKE------IEPRLLAPTCLYLACKVEECPIVHIRLLVNEA 112 (264)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc------cCHHHHHHHHHHHHhhhhhcchHHHHHHHHHH
Confidence 444455667889999999999999999999999999999888 8899999999999999999853212221111
Q ss_pred ----CCceeecCCccccHHHHHHHHHHHHHhcCcccccCChHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHhccccccCc
Q 037214 119 ----NHEYKDTDARVVRKVQLVAMEQKIDVGVDWRMRVATPISFVEFFVGIIPI-GRGIKRRTLNEIVIQTQGDISFTRF 193 (455)
Q Consensus 119 ----s~~~~~td~~yt~~~eIl~ME~~IL~~L~w~L~~pTP~~FL~~fl~~~~~-~~~l~~~al~~LlelsL~d~~fl~y 193 (455)
.+|.+-....-+..++|.+||..+|+.|++-|.+-+|+.-+..++..++. ++.+.+.+ +.+.+.++...-.+-|
T Consensus 113 ~~L~~~f~~~~e~~~~~~~~I~e~Ef~llE~Ld~~LIVhHPYrsL~q~~qd~gi~d~~~l~~~-W~ivNDSyr~Dl~Ll~ 191 (264)
T KOG0794|consen 113 KVLKTRFSYWPEKFPYERKDILEMEFYLLEALDCYLIVHHPYRSLLQFVQDMGINDQKLLQLA-WSIVNDSYRMDLCLLY 191 (264)
T ss_pred HHHhhhcccchhhcCCCcCcchhhhhhHHhhhceeEEEecCCccHHHHHHHhcccchhhhhhh-Hhhhcchhhcceeeec
Confidence 22222222222335599999999999999999999999999999999988 67788999 9999999888888899
Q ss_pred ChHHHHHHHHHHHHHHhCCCCchhhHHHHHHHHcCCCCHHHHHHHHHHHHHHHHhhchhh
Q 037214 194 LPTVIAASAVFTACRVLFNDQYYREKENMIRRVTKYVDEVDLEACLEDTCKMCIEKQIML 253 (455)
Q Consensus 194 ~PS~IAAAAI~lA~~~l~~~~~~~w~~~Ll~~~s~yv~~~~L~~C~~~L~~l~~~~~~~~ 253 (455)
+|-+||.|||++|....+......|...+ . +|.+.+.+|++.|.++|..-....
T Consensus 192 PPh~IalAcl~Ia~~~~~k~~~~~w~~el-~-----vD~ekV~~~v~~I~~lYe~wk~~~ 245 (264)
T KOG0794|consen 192 PPHQIALACLYIACVIDEKDIPKAWFAEL-S-----VDMEKVKDIVQEILKLYELWKIFD 245 (264)
T ss_pred CHHHHHHHHHHHHHhhcCCChHHHHHHHH-h-----ccHHHHHHHHHHHHHHHHHHhhhh
Confidence 99999999999999988876545576655 3 699999999999999997554444
No 11
>COG5333 CCL1 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=99.62 E-value=3.2e-15 Score=148.70 Aligned_cols=186 Identities=17% Similarity=0.251 Sum_probs=149.1
Q ss_pred hHHHHHHHHhhh-hCCCCCccc-cccHHHHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHhcCCccccccCCCccchhh
Q 037214 15 QKPSKFFGIEMH-WMPAEGYAE-SNKESLRKIAMHQILQISKSNNLDAMIPYAAMNIFDRFISRNEVPRMLGGMREDIVL 92 (455)
Q Consensus 15 E~l~~Lle~E~~-~~p~~~yl~-~it~~~R~~LVdWL~eV~~~f~L~~eTl~LAV~yLDRFLs~~~V~~~~~~k~~~LQL 92 (455)
+..++..+.... +.| . +. +-....|-.-..|+..++.++++...++.+||.+++||+.+.++.. ..++-
T Consensus 19 ~~~q~~~e~~l~~~~p--~-l~~~~e~~l~i~~~k~i~~l~~~L~lp~~~laTAi~~f~Rf~Lk~sv~e------~~~~~ 89 (297)
T COG5333 19 DSSQNAIELDLLVLEP--E-LTLEKELNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSRFYLKNSVEE------ISLYS 89 (297)
T ss_pred hHHHHHHHhhHhcCCc--c-cchhhhhhHHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHHhhccccc------ccHHH
Confidence 344444455444 333 1 33 4567778888899999999999999999999999999999999998 99999
Q ss_pred hHHHHHHHHhhhccC--CCChhhhhhccCCceeecCCccccHHHHHHHHHHHHHhcCcccccCChHHHHHHHHHhcCCCH
Q 037214 93 AADACLTISWSVKST--SFSYDEFLEADNHEYKDTDARVVRKVQLVAMEQKIDVGVDWRMRVATPISFVEFFVGIIPIGR 170 (455)
Q Consensus 93 vgvaCL~IASK~EE~--~~Pl~dLqv~~s~~~~~td~~yt~~~eIl~ME~~IL~~L~w~L~~pTP~~FL~~fl~~~~~~~ 170 (455)
|+.||++||+|+||+ +..+.-+... . . .++-.....+.|..+|..||+.|+|++.+.+|+..+..|+..+....
T Consensus 90 vv~tcv~LA~K~ed~~~~I~i~~~~~~--~-~-~se~~~~sr~~Il~~E~~lLEaL~fd~~V~hPy~~l~~f~~~~q~~~ 165 (297)
T COG5333 90 VVTTCVYLACKVEDTPRDISIESFEAR--D-L-WSEEPKSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKD 165 (297)
T ss_pred HHHhheeeeeecccccchhhHHHHHhh--c-c-ccccccccHHHHHHHHHHHHHHcccceEeccccHHHHHHHHHHHhcc
Confidence 999999999999995 3222222111 0 1 12333445779999999999999999999999999999999887643
Q ss_pred --HHHHHHHHHHHHHHhccccccCcChHHHHHHHHHHHHHHhCCCC
Q 037214 171 --GIKRRTLNEIVIQTQGDISFTRFLPTVIAASAVFTACRVLFNDQ 214 (455)
Q Consensus 171 --~l~~~al~~LlelsL~d~~fl~y~PS~IAAAAI~lA~~~l~~~~ 214 (455)
++.+.| +.++..++...-++-|+|..||+||+..|...++..-
T Consensus 166 ~~~~~~~a-w~~inDa~~t~~~llypphiIA~a~l~ia~~~~~~~~ 210 (297)
T COG5333 166 KYKLLQIA-WKIINDALRTDLCLLYPPHIIALAALLIACEVLGMPI 210 (297)
T ss_pred HHHHHHHH-HHHHHhhhhceeeeecChHHHHHHHHHHHHHhcCCcc
Confidence 488889 9999999999999999999999999999999877543
No 12
>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=99.61 E-value=2.2e-15 Score=128.81 Aligned_cols=118 Identities=24% Similarity=0.357 Sum_probs=92.9
Q ss_pred CChHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccccccCcChHHHHHHHHHHHHHHhCCCCchhhHHHHHHHHcCCCCH
Q 037214 153 ATPISFVEFFVGIIPIGRGIKRRTLNEIVIQTQGDISFTRFLPTVIAASAVFTACRVLFNDQYYREKENMIRRVTKYVDE 232 (455)
Q Consensus 153 pTP~~FL~~fl~~~~~~~~l~~~al~~LlelsL~d~~fl~y~PS~IAAAAI~lA~~~l~~~~~~~w~~~Ll~~~s~yv~~ 232 (455)
|||++||++|++..+.+..+...+ .+|+++++.++.|++|+||+||+||+++|+..++..+ .|...+ ..++|+ +.
T Consensus 1 PTp~~Fl~~~~~~~~~~~~~~~~a-~~l~el~l~~~~fl~~~PS~iAaAai~lA~~~~~~~~--~~~~~l-~~~t~~-~~ 75 (118)
T PF02984_consen 1 PTPYDFLRRFLKISNADQEVRNLA-RYLLELSLLDYEFLQYPPSVIAAAAILLARKILGKEP--PWPESL-EKLTGY-DK 75 (118)
T ss_dssp --HHHHHHHHHTSSSHHHHHHHHH-HHHHHHHHHSHHHTTS-HHHHHHHHHHHHHHHHHSST--CSHHHH-HHHHTS--H
T ss_pred CcHHHHHHHHHHHcCCcHHHHHHH-HHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhCccc--cCCccc-hhhcCC-CH
Confidence 899999999977766667788888 9999999999999999999999999999999988532 376666 778887 99
Q ss_pred HHHHHHHHHHHHHHHhhchhhhhhhchhHHHHHHHHHHHHHhccCCCCCCCCCCCCCCC
Q 037214 233 VDLEACLEDTCKMCIEKQIMLERDLESADWKKLEEEINRRLETSSSSSSFNSISNRDEE 291 (455)
Q Consensus 233 ~~L~~C~~~L~~l~~~~~~~~er~~~~~~~~kl~~~i~~r~~~~~sss~f~~is~~~e~ 291 (455)
++|.+|++.|.++.......+ ...+..++++++|+.+|...+|
T Consensus 76 ~~l~~c~~~i~~~~~~~~~~~----------------~~ai~~Kys~~~~~~vs~~~~~ 118 (118)
T PF02984_consen 76 EDLKECIELIQELLSKASNSK----------------LQAIRKKYSSQKFSSVSQIPPP 118 (118)
T ss_dssp HHHHHHHHHHHHHHHHCCGSS----------------CTHHHHHTTSGGGTTGGGSS--
T ss_pred HHHHHHHHHHHHHHHhcCCcc----------------chHHHHHhCccccCCccCCCCC
Confidence 999999999999887543221 2334558899999999886643
No 13
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=99.46 E-value=7.6e-12 Score=126.89 Aligned_cols=182 Identities=16% Similarity=0.191 Sum_probs=152.2
Q ss_pred HHHHHHHHHHHHHCCCCchHHHHHHHHHHHHhcCCccccccCCCccchhhhHHHHHHHHhhhccCCCChhhhhhccCCce
Q 037214 43 KIAMHQILQISKSNNLDAMIPYAAMNIFDRFISRNEVPRMLGGMREDIVLAADACLTISWSVKSTSFSYDEFLEADNHEY 122 (455)
Q Consensus 43 ~~LVdWL~eV~~~f~L~~eTl~LAV~yLDRFLs~~~V~~~~~~k~~~LQLvgvaCL~IASK~EE~~~Pl~dLqv~~s~~~ 122 (455)
.....-|.+++..++++..+.-.|..++.++.....+.. .....++++|||+|+|.++.+..+.|+.. ..
T Consensus 123 ~~a~~~I~~~~~~L~Lp~~v~e~A~~iyk~~~~~~~~rg------rs~~~i~AAclYiACR~~~~prtl~eI~~----~~ 192 (310)
T PRK00423 123 AFALSELDRIASQLGLPRSVREEAAVIYRKAVEKGLIRG------RSIEGVVAAALYAACRRCKVPRTLDEIAE----VS 192 (310)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccC------CCHHHHHHHHHHHHHHHcCCCcCHHHHHH----Hh
Confidence 455667889999999999999999999999998876666 77899999999999999999777788721 11
Q ss_pred eecCCccccHHHHHHHHHHHHHhcCcccccCChHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccccccCcChHHHHHHH
Q 037214 123 KDTDARVVRKVQLVAMEQKIDVGVDWRMRVATPISFVEFFVGIIPIGRGIKRRTLNEIVIQTQGDISFTRFLPTVIAASA 202 (455)
Q Consensus 123 ~~td~~yt~~~eIl~ME~~IL~~L~w~L~~pTP~~FL~~fl~~~~~~~~l~~~al~~LlelsL~d~~fl~y~PS~IAAAA 202 (455)
....++|-+.++.|++.|+.++....|.+|+.+|...++.+..+...| .+++..+....-..+.+|..|||||
T Consensus 193 ------~v~~k~i~~~~~~l~k~L~~~~~~~~p~~~i~r~~~~L~L~~~v~~~A-~~i~~~a~~~~l~~Gr~P~sIAAAa 265 (310)
T PRK00423 193 ------RVSRKEIGRCYRFLLRELNLKLPPTDPIDYVPRFASELGLSGEVQKKA-IEILQKAKEKGLTSGKGPTGLAAAA 265 (310)
T ss_pred ------CCCHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCHHHHHHH-HHHHHHHHhcCcccCCCHHHHHHHH
Confidence 123679999999999999999999999999999999999999998888 8888887765555789999999999
Q ss_pred HHHHHHHhCCCCchhhHHHHHHHHcCCCCHHHHHHHHHHHHHHH
Q 037214 203 VFTACRVLFNDQYYREKENMIRRVTKYVDEVDLEACLEDTCKMC 246 (455)
Q Consensus 203 I~lA~~~l~~~~~~~w~~~Ll~~~s~yv~~~~L~~C~~~L~~l~ 246 (455)
||+|....+... ....+ ...++ +++..|..++..|.+..
T Consensus 266 IYlA~~~~g~~~---t~keI-a~v~~-Vs~~tI~~~ykel~~~l 304 (310)
T PRK00423 266 IYIASLLLGERR---TQREV-AEVAG-VTEVTVRNRYKELAEKL 304 (310)
T ss_pred HHHHHHHhCCCC---CHHHH-HHHcC-CCHHHHHHHHHHHHHHh
Confidence 999998877543 33444 54556 79999999999887643
No 14
>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=99.32 E-value=4.1e-12 Score=101.42 Aligned_cols=88 Identities=19% Similarity=0.248 Sum_probs=74.0
Q ss_pred HHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHhcCCccccccCCCccchhhhHHHHHHHHhhhccCCCChhhhhhccCC
Q 037214 41 LRKIAMHQILQISKSNNLDAMIPYAAMNIFDRFISRNEVPRMLGGMREDIVLAADACLTISWSVKSTSFSYDEFLEADNH 120 (455)
Q Consensus 41 ~R~~LVdWL~eV~~~f~L~~eTl~LAV~yLDRFLs~~~V~~~~~~k~~~LQLvgvaCL~IASK~EE~~~Pl~dLqv~~s~ 120 (455)
+|...++||.+++..++++++|.++|+.++|||+....+.. .+++++|++||+||+|++|..+...++...
T Consensus 1 ~~~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~------~~~~~ia~a~l~lA~k~~~~~~~~~~~~~~--- 71 (88)
T cd00043 1 MRPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLG------RSPSLVAAAALYLAAKVEEIPPWLKDLVHV--- 71 (88)
T ss_pred CcchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhccccc------CChHHHHHHHHHHHHHHcCCCCCHHHHhHH---
Confidence 36789999999999999999999999999999999988888 899999999999999999994446776221
Q ss_pred ceeecCCccccHHHHHHHHHHHH
Q 037214 121 EYKDTDARVVRKVQLVAMEQKID 143 (455)
Q Consensus 121 ~~~~td~~yt~~~eIl~ME~~IL 143 (455)
++.. +.++|.+||+.|+
T Consensus 72 ----~~~~--~~~~i~~~e~~il 88 (88)
T cd00043 72 ----TGYA--TEEEILRMEKLLL 88 (88)
T ss_pred ----hCCC--CHHHHHHHHHHhC
Confidence 1111 3669999999875
No 15
>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=99.24 E-value=2e-11 Score=96.54 Aligned_cols=83 Identities=20% Similarity=0.221 Sum_probs=69.8
Q ss_pred HHHHHHHHHCCCCchHHHHHHHHHHHHhcCCccccccCCCccchhhhHHHHHHHHhhhccCCCChhhhhhccCCceeecC
Q 037214 47 HQILQISKSNNLDAMIPYAAMNIFDRFISRNEVPRMLGGMREDIVLAADACLTISWSVKSTSFSYDEFLEADNHEYKDTD 126 (455)
Q Consensus 47 dWL~eV~~~f~L~~eTl~LAV~yLDRFLs~~~V~~~~~~k~~~LQLvgvaCL~IASK~EE~~~Pl~dLqv~~s~~~~~td 126 (455)
+||.+++..+++++++.++|++++|||+....+.+ ...+++|++||+||+|++|..++..++... . +
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~------~~~~~ia~a~l~lA~k~~~~~~~~~~~~~~-~------~ 67 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLK------YSPSLIAAAALYLAAKTEEIPPWTKELVHY-T------G 67 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhccc------CCHHHHHHHHHHHHHHHhcCCCCchhHhHh-h------C
Confidence 59999999999999999999999999999777777 889999999999999999987666665221 1 1
Q ss_pred CccccHHHHHHHHHHHHH
Q 037214 127 ARVVRKVQLVAMEQKIDV 144 (455)
Q Consensus 127 ~~yt~~~eIl~ME~~IL~ 144 (455)
. ++ .++|.+||+.||.
T Consensus 68 ~-~~-~~~i~~~~~~il~ 83 (83)
T smart00385 68 Y-FT-EEEILRMEKLLLE 83 (83)
T ss_pred C-CC-HHHHHHHHHHHhC
Confidence 1 23 6699999999974
No 16
>KOG2496 consensus Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell cycle control, cell division, chromosome partitioning; Transcription; Replication, recombination and repair]
Probab=99.23 E-value=1.4e-10 Score=115.36 Aligned_cols=157 Identities=14% Similarity=0.184 Sum_probs=119.8
Q ss_pred HHHHHHHHHHHHC--CCCchHHHHHHHHHHHHhcCCccccccCCCccchhhhHHHHHHHHhhhccCCCChhhhhhccCCc
Q 037214 44 IAMHQILQISKSN--NLDAMIPYAAMNIFDRFISRNEVPRMLGGMREDIVLAADACLTISWSVKSTSFSYDEFLEADNHE 121 (455)
Q Consensus 44 ~LVdWL~eV~~~f--~L~~eTl~LAV~yLDRFLs~~~V~~~~~~k~~~LQLvgvaCL~IASK~EE~~~Pl~dLqv~~s~~ 121 (455)
.-..-+++.+.+| .+.++++.+|+.+|-||+-..++.. .+.+.|.+||+|+|+|++|.++++.++...
T Consensus 58 ~~E~~l~~f~~k~~p~lp~~Vv~TA~~fFkRffL~nsvme------~~pk~I~~tc~flA~Kieef~ISieqFvkn---- 127 (325)
T KOG2496|consen 58 EEELSLVNFYSKFKPNLPTSVVSTAIEFFKRFFLENSVME------YSPKIIMATCFFLACKIEEFYISIEQFVKN---- 127 (325)
T ss_pred HHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHhcchhh------cChHHHHHHHHHHHhhhHhheecHHHHHhh----
Confidence 3444556666666 6789999999999999999999999 889999999999999999999998887221
Q ss_pred eeecCCccccHHHHHHHHHHHHHhcCcccccCChHHHHHHHHHhcCC------CHHHH-HHHH-HHHHHHHhccccccCc
Q 037214 122 YKDTDARVVRKVQLVAMEQKIDVGVDWRMRVATPISFVEFFVGIIPI------GRGIK-RRTL-NEIVIQTQGDISFTRF 193 (455)
Q Consensus 122 ~~~td~~yt~~~eIl~ME~~IL~~L~w~L~~pTP~~FL~~fl~~~~~------~~~l~-~~al-~~LlelsL~d~~fl~y 193 (455)
+- ...-...+.|+..|..+++.|+|++..-+|+.-++.|+..+.. +.++. .... ..+++.+++...++-|
T Consensus 128 ~~--~~~~k~~e~vLk~E~~llqsL~f~L~vh~PyRPleGFl~D~kt~l~~~~n~d~~~~~~d~~~fl~~~lltDa~lLy 205 (325)
T KOG2496|consen 128 MN--GRKWKTHEIVLKYEFLLLQSLKFSLTVHNPYRPLEGFLLDMKTRLPALENPDILRKHDDSKKFLDRALLTDAYLLY 205 (325)
T ss_pred cc--CcccccHHHHHhchHHHHHhhhhhheecCCCCchHHHHHHHHHHHHhccCHHHHhhhhhHHHHHHHHHHhccceec
Confidence 11 1122336699999999999999999999999999988876643 22221 1110 2456667777777889
Q ss_pred ChHHHHHHHHHHHHHHhCC
Q 037214 194 LPTVIAASAVFTACRVLFN 212 (455)
Q Consensus 194 ~PS~IAAAAI~lA~~~l~~ 212 (455)
.||+||.|||+-|....+.
T Consensus 206 tPsQIALaAil~a~~~~~~ 224 (325)
T KOG2496|consen 206 TPSQIALAAILHAAGRTGE 224 (325)
T ss_pred ChHHHHHHHHHHHhccccc
Confidence 9999999999666544443
No 17
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=98.86 E-value=2.3e-07 Score=93.41 Aligned_cols=182 Identities=17% Similarity=0.241 Sum_probs=150.4
Q ss_pred HHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHhcCCccccccCCCccchhhhHHHHHHHHhhhccCCCChhhhhhccCCc
Q 037214 42 RKIAMHQILQISKSNNLDAMIPYAAMNIFDRFISRNEVPRMLGGMREDIVLAADACLTISWSVKSTSFSYDEFLEADNHE 121 (455)
Q Consensus 42 R~~LVdWL~eV~~~f~L~~eTl~LAV~yLDRFLs~~~V~~~~~~k~~~LQLvgvaCL~IASK~EE~~~Pl~dLqv~~s~~ 121 (455)
-.....-+-.++..++++....-.|..++=+.+...-+.. ...+-++++|+++|++....+..+.++... .+
T Consensus 97 l~~a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~rG------Rsie~v~AA~iY~acR~~~~prtl~eIa~a-~~- 168 (285)
T COG1405 97 LITALEELERIASALGLPESVRETAARIYRKAVDKGLLRG------RSIESVAAACIYAACRINGVPRTLDEIAKA-LG- 168 (285)
T ss_pred HHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcC------CcHHHHHHHHHHHHHHHcCCCccHHHHHHH-HC-
Confidence 3456677788888999999999999998888888776666 889999999999999999986667776322 11
Q ss_pred eeecCCccccHHHHHHHHHHHHHhcCcccccCChHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccccccCcChHHHHHH
Q 037214 122 YKDTDARVVRKVQLVAMEQKIDVGVDWRMRVATPISFVEFFVGIIPIGRGIKRRTLNEIVIQTQGDISFTRFLPTVIAAS 201 (455)
Q Consensus 122 ~~~td~~yt~~~eIl~ME~~IL~~L~w~L~~pTP~~FL~~fl~~~~~~~~l~~~al~~LlelsL~d~~fl~y~PS~IAAA 201 (455)
...++|.++.+.+...|+=.+....|.+|+.+|...++.+.+....+ .+|+..+.....-.+-.|+.||||
T Consensus 169 --------V~~kei~rtyr~~~~~L~l~~~~~~p~~yi~rf~s~L~l~~~v~~~a-~ei~~~~~~~g~~~Gk~P~glAaa 239 (285)
T COG1405 169 --------VSKKEIGRTYRLLVRELKLKIPPVDPSDYIPRFASKLGLSDEVRRKA-IEIVKKAKRAGLTAGKSPAGLAAA 239 (285)
T ss_pred --------CCHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcCCCHHHHHHH-HHHHHHHHHhCcccCCCchhHHHH
Confidence 11569999999999999999999999999999999999998898888 899999988888889999999999
Q ss_pred HHHHHHHHhCCCCchhhHHHHHHHHcCCCCHHHHHHHHHHHHHH
Q 037214 202 AVFTACRVLFNDQYYREKENMIRRVTKYVDEVDLEACLEDTCKM 245 (455)
Q Consensus 202 AI~lA~~~l~~~~~~~w~~~Ll~~~s~yv~~~~L~~C~~~L~~l 245 (455)
|||+|....+....+.. + ...++ +++..|+.-+..|.+.
T Consensus 240 aiy~as~l~~~~~tq~e---v-a~v~~-vtevTIrnrykel~~~ 278 (285)
T COG1405 240 AIYLASLLLGERRTQKE---V-AKVAG-VTEVTIRNRYKELADA 278 (285)
T ss_pred HHHHHHHHhCCchHHHH---H-HHHhC-CeeeHHHHHHHHHHHh
Confidence 99999998885433222 2 44566 6999999999777653
No 18
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=98.58 E-value=2.6e-06 Score=85.09 Aligned_cols=180 Identities=18% Similarity=0.210 Sum_probs=142.3
Q ss_pred HHHHHHHHHHHCCCCchHHHHHHHHHHHHhcCCccccccCCCccchhhhHHHHHHHHhhhccCCCChhhhhhccCCceee
Q 037214 45 AMHQILQISKSNNLDAMIPYAAMNIFDRFISRNEVPRMLGGMREDIVLAADACLTISWSVKSTSFSYDEFLEADNHEYKD 124 (455)
Q Consensus 45 LVdWL~eV~~~f~L~~eTl~LAV~yLDRFLs~~~V~~~~~~k~~~LQLvgvaCL~IASK~EE~~~Pl~dLqv~~s~~~~~ 124 (455)
.+.-|..++...+|.....-.|-.+|-++-..+.... ...+-+++|||+||++-++....+.++... ++
T Consensus 107 a~~~I~~m~d~~~Lp~~I~d~A~~ifk~v~~~k~lrG------ks~eai~AAclyiACRq~~~pRT~kEI~~~-an---- 175 (308)
T KOG1597|consen 107 AFKEITAMCDRLSLPATIKDRANEIFKLVEDSKLLRG------KSVEALAAACLYIACRQEDVPRTFKEISAV-AN---- 175 (308)
T ss_pred HHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhhhhcC------ccHHHHHHHHHHHHHHhcCCCchHHHHHHH-Hc----
Confidence 4455678899999999999999999999986655555 789999999999999988885557777332 11
Q ss_pred cCCccccHHHHHHHHHHHHHhcCcccccCC--hHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccccccCcChHHHHHHH
Q 037214 125 TDARVVRKVQLVAMEQKIDVGVDWRMRVAT--PISFVEFFVGIIPIGRGIKRRTLNEIVIQTQGDISFTRFLPTVIAASA 202 (455)
Q Consensus 125 td~~yt~~~eIl~ME~~IL~~L~w~L~~pT--P~~FL~~fl~~~~~~~~l~~~al~~LlelsL~d~~fl~y~PS~IAAAA 202 (455)
-..++|-+.-+.|+..|+=.+...| ..+|+.+|...+..+......| .++.+.+..-....+-.|=.||||+
T Consensus 176 -----v~kKEIgr~~K~i~~~l~~s~~~~s~~t~~~m~RFCs~L~L~~~~q~aA-~e~a~ka~~~~~~~gRsPiSIAAa~ 249 (308)
T KOG1597|consen 176 -----VSKKEIGRCVKLIGEALETSVDLISISTGDFMPRFCSNLGLPKSAQEAA-TEIAEKAEEMDIRAGRSPISIAAAA 249 (308)
T ss_pred -----CCHHHHHHHHHHHHHHHhccchhhhhhHHHHHHHHHHhcCCCHHHHHHH-HHHHHHHHHhccccCCCchhHHHHH
Confidence 1256999999999999998877776 8899999999999988877777 8888877544444568899999999
Q ss_pred HHHHHHHhCCCCchhhHHHHHHHHcCCCCHHHHHHHHHHHHHHH
Q 037214 203 VFTACRVLFNDQYYREKENMIRRVTKYVDEVDLEACLEDTCKMC 246 (455)
Q Consensus 203 I~lA~~~l~~~~~~~w~~~Ll~~~s~yv~~~~L~~C~~~L~~l~ 246 (455)
||++.+..+.... ...+ ...+| |.+..|+.-+..|....
T Consensus 250 IYmisqls~~kkt---~keI-~~vtg-VaE~TIr~sYK~Lyp~~ 288 (308)
T KOG1597|consen 250 IYMISQLSDEKKT---QKEI-GEVTG-VAEVTIRNSYKDLYPHA 288 (308)
T ss_pred HHHHHHhccCccc---HHHH-HHHhh-hhHHHHHHHHHHHhhch
Confidence 9999988875443 2333 44566 69999999998886544
No 19
>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=98.38 E-value=2.1e-06 Score=67.62 Aligned_cols=82 Identities=15% Similarity=0.176 Sum_probs=70.1
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHHHHHHhccccccCcChHHHHHHHHHHHHHHhCCCCchhhHHHHHHHHcCCCCHHHHH
Q 037214 157 SFVEFFVGIIPIGRGIKRRTLNEIVIQTQGDISFTRFLPTVIAASAVFTACRVLFNDQYYREKENMIRRVTKYVDEVDLE 236 (455)
Q Consensus 157 ~FL~~fl~~~~~~~~l~~~al~~LlelsL~d~~fl~y~PS~IAAAAI~lA~~~l~~~~~~~w~~~Ll~~~s~yv~~~~L~ 236 (455)
+|+..+...++.+..+...+ .++++.++.+..+.+++|+.||+||+++|.+..+..+ |...+ ..++++.+.+++.
T Consensus 1 ~~l~~~~~~~~~~~~~~~~a-~~~~~~~l~~~~~~~~~~~~ia~a~l~lA~k~~~~~~---~~~~~-~~~~~~~~~~~i~ 75 (83)
T smart00385 1 DFLRRVCKALNLDPETLNLA-VNLLDRFLSDYKFLKYSPSLIAAAALYLAAKTEEIPP---WTKEL-VHYTGYFTEEEIL 75 (83)
T ss_pred CHHHHHHHHcCCCHHHHHHH-HHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHhcCCC---CchhH-hHhhCCCCHHHHH
Confidence 48889999999988999999 9999999998999999999999999999999888653 55555 5577755899999
Q ss_pred HHHHHHH
Q 037214 237 ACLEDTC 243 (455)
Q Consensus 237 ~C~~~L~ 243 (455)
+|...|.
T Consensus 76 ~~~~~il 82 (83)
T smart00385 76 RMEKLLL 82 (83)
T ss_pred HHHHHHh
Confidence 9988774
No 20
>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=98.33 E-value=6e-06 Score=65.55 Aligned_cols=86 Identities=17% Similarity=0.152 Sum_probs=73.8
Q ss_pred cCChHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccccccCcChHHHHHHHHHHHHHHhCCCCchhhHHHHHHHHcCCCC
Q 037214 152 VATPISFVEFFVGIIPIGRGIKRRTLNEIVIQTQGDISFTRFLPTVIAASAVFTACRVLFNDQYYREKENMIRRVTKYVD 231 (455)
Q Consensus 152 ~pTP~~FL~~fl~~~~~~~~l~~~al~~LlelsL~d~~fl~y~PS~IAAAAI~lA~~~l~~~~~~~w~~~Ll~~~s~yv~ 231 (455)
.|++.+|+..+...++.+......| .++++.++....+..+.|+.||+||+++|.+..+.. .|...+ ..++++.+
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~~~~~A-~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~~---~~~~~~-~~~~~~~~ 76 (88)
T cd00043 2 RPTPLDFLRRVAKALGLSPETLTLA-VNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEIP---PWLKDL-VHVTGYAT 76 (88)
T ss_pred cchHHHHHHHHHHHcCCCHHHHHHH-HHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCCC---CCHHHH-hHHhCCCC
Confidence 5889999999999999999998889 999999999999999999999999999999988763 466777 55666447
Q ss_pred HHHHHHHHHHH
Q 037214 232 EVDLEACLEDT 242 (455)
Q Consensus 232 ~~~L~~C~~~L 242 (455)
.++|.++...|
T Consensus 77 ~~~i~~~e~~i 87 (88)
T cd00043 77 EEEILRMEKLL 87 (88)
T ss_pred HHHHHHHHHHh
Confidence 88888887654
No 21
>PF08613 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This entry includes cyclin PHO80 and other cyclins that partner with the cyclin-dependent kinase (CDK) PHO85. The PHO80/PHO85 cyclin-cdk complex is used for a regulatory process other than cell-cycle control []. This entry also includes other PHO80-like cyclins that are involved in the cell-cycle control. They belong to the P/U family and interact preferentially with CDKA1 [].; GO: 0019901 protein kinase binding, 0000079 regulation of cyclin-dependent protein kinase activity; PDB: 2PK9_D 2PMI_D.
Probab=97.80 E-value=4.7e-05 Score=69.47 Aligned_cols=93 Identities=14% Similarity=0.101 Sum_probs=63.8
Q ss_pred HHHHHHHHHHHHCCCCchHHHHHHHHHHHHhc---CCccccccCCCccchhhhHHHHHHHHhhhccCCC-ChhhhhhccC
Q 037214 44 IAMHQILQISKSNNLDAMIPYAAMNIFDRFIS---RNEVPRMLGGMREDIVLAADACLTISWSVKSTSF-SYDEFLEADN 119 (455)
Q Consensus 44 ~LVdWL~eV~~~f~L~~eTl~LAV~yLDRFLs---~~~V~~~~~~k~~~LQLvgvaCL~IASK~EE~~~-Pl~dLqv~~s 119 (455)
.+.+|+.++...-+++++++.+|..|+||+.. ...+.- .+...+-+-++||.+|+|+-+... .-...
T Consensus 53 ~i~~fl~ri~~~~~~s~~~~i~aliYl~Rl~~~~~~~~~~~----~~~~~~Rl~l~alilA~K~~~D~~~~n~~~----- 123 (149)
T PF08613_consen 53 SIRDFLSRILKYTQCSPECLILALIYLDRLRQRSRKPNIPL----NSSNIHRLFLTALILASKFLDDNTYSNKSW----- 123 (149)
T ss_dssp -HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH--H-TT-------STTTHHHHHHHHHHHHHHHH-SS---HHHH-----
T ss_pred cHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhccccccc----ccchhHHHHHHHHHHHHhhcccccccHHHH-----
Confidence 37889999999999999999999999999998 222222 125677889999999999976543 22232
Q ss_pred CceeecCCccccHHHHHHHHHHHHHhcCccc
Q 037214 120 HEYKDTDARVVRKVQLVAMEQKIDVGVDWRM 150 (455)
Q Consensus 120 ~~~~~td~~yt~~~eIl~ME~~IL~~L~w~L 150 (455)
.-.+ +.+ .+++.+||+..|..|+|+|
T Consensus 124 --a~v~--gis-~~eln~lE~~fL~~l~~~L 149 (149)
T PF08613_consen 124 --AKVG--GIS-LKELNELEREFLKLLDYNL 149 (149)
T ss_dssp --HHHH--TS--HHHHHHHHHHHHHHTTT--
T ss_pred --Hhhc--CCC-HHHHHHHHHHHHHHCCCcC
Confidence 1111 122 5599999999999999986
No 22
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription]
Probab=97.11 E-value=0.0056 Score=65.97 Aligned_cols=157 Identities=15% Similarity=0.130 Sum_probs=119.7
Q ss_pred HHHHHHHHH----HHHHHHHHCCCCchHHHHHHHHHHHHhcCCccccccCCCccchhhhHHHHHHHHhhhccCCCChhhh
Q 037214 39 ESLRKIAMH----QILQISKSNNLDAMIPYAAMNIFDRFISRNEVPRMLGGMREDIVLAADACLTISWSVKSTSFSYDEF 114 (455)
Q Consensus 39 ~~~R~~LVd----WL~eV~~~f~L~~eTl~LAV~yLDRFLs~~~V~~~~~~k~~~LQLvgvaCL~IASK~EE~~~Pl~dL 114 (455)
.+.|...+. -|-+++..+++.. .+-.|.++|---++..-.+. ...+.|-.+||||++..|-+..-+.|+
T Consensus 60 ~e~r~~t~~n~r~~i~~~~~~l~l~~-~~~~a~~~~k~a~~~nftkG------r~~~~vvasClY~vcR~e~t~hlliDf 132 (521)
T KOG1598|consen 60 LESREKTIYNARRLIEELTERLNLGN-KTEVAFNFFKLAPDRNFTKG------RRSTEVVAACLYLVCRLEKTDHLLIDF 132 (521)
T ss_pred hHHHHHHHHHHHhHHHHHHHhcCcch-HHHHHHHHHHHHhhCCCCCC------cchHHHHHHHHHHHHHhhCCceEEEEe
Confidence 344444443 5788999999999 99999999998888776665 788999999999999998875433444
Q ss_pred hhccCCceeecCCccccHHHHHHHHHHHHHhcCcc---cccCChHHHHHHHHHhcCC---CHHHHHHHHHHHHHHHhccc
Q 037214 115 LEADNHEYKDTDARVVRKVQLVAMEQKIDVGVDWR---MRVATPISFVEFFVGIIPI---GRGIKRRTLNEIVIQTQGDI 188 (455)
Q Consensus 115 qv~~s~~~~~td~~yt~~~eIl~ME~~IL~~L~w~---L~~pTP~~FL~~fl~~~~~---~~~l~~~al~~LlelsL~d~ 188 (455)
+.+.-. + --++=.+=+.+...|.=. +-..-|.-|+.+|...+.. +.++...+ ..|+.....|.
T Consensus 133 ----S~~Lqv--~----Vy~LG~~~l~l~~~L~i~en~~plvDpsL~i~Rfa~~L~~g~~~~~Vv~~a-~~L~~rMkrdw 201 (521)
T KOG1598|consen 133 ----SSYLQV--S----VYDLGSNFLEVTDSLSIGENVSPLVDPSLYIVRFSCRLLFGDKTEDVAKTA-TRLAQRMKRDW 201 (521)
T ss_pred ----ccceEE--e----hhhhhHHHHHHHHHhccccccccccCcceeeechhHhhhcCCchHHHHHHH-HHHHHHHHHHH
Confidence 222221 1 225556667777777766 6677889999999888865 35577777 78888888888
Q ss_pred cccCcChHHHHHHHHHHHHHHhCCC
Q 037214 189 SFTRFLPTVIAASAVFTACRVLFND 213 (455)
Q Consensus 189 ~fl~y~PS~IAAAAI~lA~~~l~~~ 213 (455)
-..+-+|+.|+.|||++|....+..
T Consensus 202 m~tGRRPsglcGAaLliAar~h~~~ 226 (521)
T KOG1598|consen 202 MQTGRRPSGLCGAALLIAARMHGFR 226 (521)
T ss_pred HHhCCCccchhHHHHHHHHHHcCcc
Confidence 8889999999999999999988754
No 23
>KOG4164 consensus Cyclin ik3-1/CABLES [Cell cycle control, cell division, chromosome partitioning]
Probab=97.05 E-value=0.00087 Score=69.54 Aligned_cols=105 Identities=14% Similarity=0.260 Sum_probs=82.9
Q ss_pred cccHHHHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHhcCCccccccCCCccchhhhHHHHHHHHhhhccCCCC-hhhh
Q 037214 36 SNKESLRKIAMHQILQISKSNNLDAMIPYAAMNIFDRFISRNEVPRMLGGMREDIVLAADACLTISWSVKSTSFS-YDEF 114 (455)
Q Consensus 36 ~it~~~R~~LVdWL~eV~~~f~L~~eTl~LAV~yLDRFLs~~~V~~~~~~k~~~LQLvgvaCL~IASK~EE~~~P-l~dL 114 (455)
.++..--+.+=.-|.+++...++..-|+..|..||....-+..+.+ ..-+|.|.|||.+|+|+.+..-. +..+
T Consensus 376 kLTLSKirSlKREMr~l~~d~~id~~TVa~AyVYFEKliLkglisK------~NRKlcAGAclLlaaKmnD~Kks~vKsl 449 (497)
T KOG4164|consen 376 KLTLSKIRSLKREMRELGEDCGIDVVTVAMAYVYFEKLILKGLISK------QNRKLCAGACLLLAAKMNDLKKSTVKSL 449 (497)
T ss_pred EEeHHHHHHHHHHHHHhhhccCccceeehhHHHHHHHHHHhhhhhh------hhhhHHHHHHHHHHHHhhhhhhHHHHHH
Confidence 4444444456667888899999999999999999999998888888 77899999999999999976433 4333
Q ss_pred h-hccCCceeecCCccccHHHHHHHHHHHHHhcCcccccC
Q 037214 115 L-EADNHEYKDTDARVVRKVQLVAMEQKIDVGVDWRMRVA 153 (455)
Q Consensus 115 q-v~~s~~~~~td~~yt~~~eIl~ME~~IL~~L~w~L~~p 153 (455)
+ ..+.+|-.. ..|++..|.-||.+|+|.|+.|
T Consensus 450 Iek~Ee~fR~n-------rrdLia~Ef~VlvaLefaL~~~ 482 (497)
T KOG4164|consen 450 IEKLEEQFRLN-------RRDLIAFEFPVLVALEFALHLP 482 (497)
T ss_pred HHHHHHHhccc-------HHhhhhhhhhHHHhhhhhccCC
Confidence 1 112345554 6699999999999999999965
No 24
>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=95.80 E-value=0.034 Score=44.17 Aligned_cols=60 Identities=17% Similarity=0.206 Sum_probs=49.3
Q ss_pred HHHHHHHCCCCchHHHHHHHHHHHHhcCCccccccCCCccchhhhHHHHHHHHhhhccCCCChhhh
Q 037214 49 ILQISKSNNLDAMIPYAAMNIFDRFISRNEVPRMLGGMREDIVLAADACLTISWSVKSTSFSYDEF 114 (455)
Q Consensus 49 L~eV~~~f~L~~eTl~LAV~yLDRFLs~~~V~~~~~~k~~~LQLvgvaCL~IASK~EE~~~Pl~dL 114 (455)
|-+++..++|+..+.-.|..++++-....-... .....++++|+|+|++.+....++.|+
T Consensus 1 I~r~~~~L~L~~~v~~~A~~i~~~~~~~~~~~G------r~~~~iaAA~iY~acr~~~~~~t~~eI 60 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERAKEIYKKAQERGLLKG------RSPESIAAACIYLACRLNGVPRTLKEI 60 (71)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHHHHTTTSTT------S-HHHHHHHHHHHHHHHTTSSSSHHHH
T ss_pred ChHHHhHcCCCHHHHHHHHHHHHHHHHcCCccc------CCHHHHHHHHHHHHHHHcCCCcCHHHH
Confidence 457899999999999999999999887665554 778999999999999999887777776
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=95.70 E-value=0.11 Score=41.22 Aligned_cols=70 Identities=19% Similarity=0.256 Sum_probs=49.6
Q ss_pred HHHHHHhcCCCHHHHHHHHHHHHHHHhccccccCcChHHHHHHHHHHHHHHhCCCCchhhHHHHHHHHcCCCCHHH
Q 037214 159 VEFFVGIIPIGRGIKRRTLNEIVIQTQGDISFTRFLPTVIAASAVFTACRVLFNDQYYREKENMIRRVTKYVDEVD 234 (455)
Q Consensus 159 L~~fl~~~~~~~~l~~~al~~LlelsL~d~~fl~y~PS~IAAAAI~lA~~~l~~~~~~~w~~~Ll~~~s~yv~~~~ 234 (455)
+.+|...++.+..+...+ .++...+....-..+-+|..|||||||+|....+... ....+ ...++ +++.+
T Consensus 1 I~r~~~~L~L~~~v~~~A-~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~~~~---t~~eI-a~~~~-Vs~~t 70 (71)
T PF00382_consen 1 IPRICSKLGLPEDVRERA-KEIYKKAQERGLLKGRSPESIAAACIYLACRLNGVPR---TLKEI-AEAAG-VSEKT 70 (71)
T ss_dssp HHHHHHHTT--HHHHHHH-HHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTTSSS---SHHHH-HHHCT-SSHHH
T ss_pred ChHHHhHcCCCHHHHHHH-HHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcCCCc---CHHHH-HHHhC-CCCCc
Confidence 467888899988999999 8888888766666778999999999999998877543 23333 33444 45544
No 26
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=91.85 E-value=0.81 Score=46.78 Aligned_cols=90 Identities=12% Similarity=0.121 Sum_probs=68.5
Q ss_pred HHHHHHHHHHHCCCCchHHHHHHHHHHHHhcCCccccccCCCccchhhhHHHHHHHHhhhccCCCChhhhhhccCCceee
Q 037214 45 AMHQILQISKSNNLDAMIPYAAMNIFDRFISRNEVPRMLGGMREDIVLAADACLTISWSVKSTSFSYDEFLEADNHEYKD 124 (455)
Q Consensus 45 LVdWL~eV~~~f~L~~eTl~LAV~yLDRFLs~~~V~~~~~~k~~~LQLvgvaCL~IASK~EE~~~Pl~dLqv~~s~~~~~ 124 (455)
.-++|...+..++++..+.-.|..++.+.....-... ....-+++||+|||++..+...++.++... ..
T Consensus 219 p~~~i~r~~~~L~L~~~v~~~A~~i~~~a~~~~l~~G------r~P~sIAAAaIYlA~~~~g~~~t~keIa~v-~~---- 287 (310)
T PRK00423 219 PIDYVPRFASELGLSGEVQKKAIEILQKAKEKGLTSG------KGPTGLAAAAIYIASLLLGERRTQREVAEV-AG---- 287 (310)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcccC------CCHHHHHHHHHHHHHHHhCCCCCHHHHHHH-cC----
Confidence 3589999999999999999999999998876543333 778999999999999998876666776211 11
Q ss_pred cCCccccHHHHHHHHHHHHHhcCccc
Q 037214 125 TDARVVRKVQLVAMEQKIDVGVDWRM 150 (455)
Q Consensus 125 td~~yt~~~eIl~ME~~IL~~L~w~L 150 (455)
.+...|.+.=+.|++.|+..+
T Consensus 288 -----Vs~~tI~~~ykel~~~l~~~~ 308 (310)
T PRK00423 288 -----VTEVTVRNRYKELAEKLDIKI 308 (310)
T ss_pred -----CCHHHHHHHHHHHHHHhCccc
Confidence 114488888888888776543
No 27
>KOG1674 consensus Cyclin [General function prediction only]
Probab=91.29 E-value=0.55 Score=45.86 Aligned_cols=100 Identities=14% Similarity=0.098 Sum_probs=67.7
Q ss_pred HHHHHHHHHHHCCCCchHHHHHHHHHHHHhcCCc---cccccCCCccc-hhhhHHHHHHHHhhhccCCCChhhhhhccCC
Q 037214 45 AMHQILQISKSNNLDAMIPYAAMNIFDRFISRNE---VPRMLGGMRED-IVLAADACLTISWSVKSTSFSYDEFLEADNH 120 (455)
Q Consensus 45 LVdWL~eV~~~f~L~~eTl~LAV~yLDRFLs~~~---V~~~~~~k~~~-LQLvgvaCL~IASK~EE~~~Pl~dLqv~~s~ 120 (455)
+-+++..+....+.+++++.+|..|||||....+ +.+..--+... ..-+-++|+.+|+|+.+...--+..
T Consensus 78 i~~yleri~k~~~~s~~~lv~al~Yldr~~~~~~~~~~~~~~~i~s~n~vhR~lit~v~vs~kf~~d~~y~n~~------ 151 (218)
T KOG1674|consen 78 IRQYLERIFKYSKCSPECLVLALVYLDRFVKQPQARSVKPQSLINSLNKVHRLLITTVTVSTKFLDDVYYSNAY------ 151 (218)
T ss_pred hHHHHHHHHHHhcCCchhhhhhhhhhhhhhhhhcccccCcccccccchhHHHHHHHHHHHHHhhccchhhhHHH------
Confidence 3467778888899999999999999999998633 22100001123 5557899999999998653211111
Q ss_pred ceeecCCccccHHHHHHHHHHHHHhcCcccccC
Q 037214 121 EYKDTDARVVRKVQLVAMEQKIDVGVDWRMRVA 153 (455)
Q Consensus 121 ~~~~td~~yt~~~eIl~ME~~IL~~L~w~L~~p 153 (455)
|... +..+ .+++..+|...|..++|++.++
T Consensus 152 ~a~v--ggl~-~~eln~lE~~~l~~~~~~l~i~ 181 (218)
T KOG1674|consen 152 YAKV--GGLT-TDELNKLELDLLFLLDFRLIIS 181 (218)
T ss_pred HHHh--CCCC-hHhhhhhhHHHHhhCCeEEEec
Confidence 0000 1122 3488899999999999999986
No 28
>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=83.90 E-value=16 Score=31.18 Aligned_cols=83 Identities=11% Similarity=0.122 Sum_probs=54.0
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccccccCcChHHHHHHHHHHHHHHhCCCCchhhHHHHHHHHcCC-CCHHH
Q 037214 156 ISFVEFFVGIIPIGRGIKRRTLNEIVIQTQGDISFTRFLPTVIAASAVFTACRVLFNDQYYREKENMIRRVTKY-VDEVD 234 (455)
Q Consensus 156 ~~FL~~fl~~~~~~~~l~~~al~~LlelsL~d~~fl~y~PS~IAAAAI~lA~~~l~~~~~~~w~~~Ll~~~s~y-v~~~~ 234 (455)
.+|+.......+.+......| ..+++..+.........+..+|+||+++|.+..+... .+...++. .+++ .+.++
T Consensus 35 ~~~i~~~~~~~~l~~~~~~~A-~~~~dr~~~~~~~~~~~~~li~~~cl~lA~K~~e~~~--~~~~~~~~-~~~~~~~~~~ 110 (127)
T PF00134_consen 35 IDWIIELCQRLKLSPETLHLA-IYLFDRFLSKRPVNRSKLQLIALACLFLASKMEEDNP--PSISDLIR-ISDNTFTKKD 110 (127)
T ss_dssp HHHHHHHHHHTT-BHHHHHHH-HHHHHHHHTTS-TTCCGHHHHHHHHHHHHHHHHTSS----HHHHHHH-HTTTSSHHHH
T ss_pred HHHHHHHHHhcccchhHHHHH-HHHHHHHHhhcccccchhhhhhhhHHHHhhhhhcccc--chHHHHHH-HHcCCCCHHH
Confidence 556777777777777777777 6777777777777889999999999999999877632 24455522 3321 25555
Q ss_pred HHHHHHHH
Q 037214 235 LEACLEDT 242 (455)
Q Consensus 235 L~~C~~~L 242 (455)
+..--..+
T Consensus 111 i~~~E~~i 118 (127)
T PF00134_consen 111 ILEMEREI 118 (127)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHH
Confidence 55444433
No 29
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning]
Probab=77.20 E-value=2.8 Score=43.43 Aligned_cols=63 Identities=14% Similarity=0.164 Sum_probs=46.1
Q ss_pred HHHHHHHHHHHHHCCCCchHHHHHHHHHHHHhcCCccccccCCCccchhhhHHHHHHHHhhhccCCCCh
Q 037214 43 KIAMHQILQISKSNNLDAMIPYAAMNIFDRFISRNEVPRMLGGMREDIVLAADACLTISWSVKSTSFSY 111 (455)
Q Consensus 43 ~~LVdWL~eV~~~f~L~~eTl~LAV~yLDRFLs~~~V~~~~~~k~~~LQLvgvaCL~IASK~EE~~~Pl 111 (455)
.-+++|+..+-..-+........|-+++...+...-+-+ ...+.||++||+||+|+-....|.
T Consensus 153 ~~ll~~~k~l~~~~~~~~~~a~~Aw~~~nD~~~t~~cL~------y~p~~IAva~i~lA~~~~~~~~~~ 215 (323)
T KOG0834|consen 153 KYLLKYLKKLKADENLKQPLAQAAWNFVNDSLRTTLCLQ------YSPHSIAVACIHLAAKLLGVELPS 215 (323)
T ss_pred HHHHHHHHHhhhhhhccccHHHHHHHHhchhheeeeeEe------ecCcEEEeehhhHHHHHcCCCCCC
Confidence 345666666665555555677777777777776555556 778999999999999998886664
No 30
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=76.41 E-value=31 Score=35.21 Aligned_cols=105 Identities=12% Similarity=0.119 Sum_probs=73.1
Q ss_pred HHHHHHhcCcccccC--------ChHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccccccCcChHHHHHHHHHHHHHHh
Q 037214 139 EQKIDVGVDWRMRVA--------TPISFVEFFVGIIPIGRGIKRRTLNEIVIQTQGDISFTRFLPTVIAASAVFTACRVL 210 (455)
Q Consensus 139 E~~IL~~L~w~L~~p--------TP~~FL~~fl~~~~~~~~l~~~al~~LlelsL~d~~fl~y~PS~IAAAAI~lA~~~l 210 (455)
+..-|+..+...... +....+..+...++........+ ..+.-.++...-.-+-....++|||+|.|....
T Consensus 76 ~~~rlr~~~~~~~v~~~~ernl~~a~~~l~~~~~~l~LP~~v~e~A-~~iyr~a~~~~l~rGRsie~v~AA~iY~acR~~ 154 (285)
T COG1405 76 KMYRLRKWQIRIRVSSAKERNLITALEELERIASALGLPESVRETA-ARIYRKAVDKGLLRGRSIESVAAACIYAACRIN 154 (285)
T ss_pred HHHHHHHHHhccccccchhhHHHHHHHHHHHHHHHhCCCchHHHHH-HHHHHHHhhcCCCcCCcHHHHHHHHHHHHHHHc
Confidence 444455444444444 56778888888888888887777 666666655555556779999999999999887
Q ss_pred CCCCchhhHHHHHHHHcCCCCHHHHHHHHHHHHHHHHhh
Q 037214 211 FNDQYYREKENMIRRVTKYVDEVDLEACLEDTCKMCIEK 249 (455)
Q Consensus 211 ~~~~~~~w~~~Ll~~~s~yv~~~~L~~C~~~L~~l~~~~ 249 (455)
+... .+..+ ....+ ++..++..+++.|.......
T Consensus 155 ~~pr---tl~eI-a~a~~-V~~kei~rtyr~~~~~L~l~ 188 (285)
T COG1405 155 GVPR---TLDEI-AKALG-VSKKEIGRTYRLLVRELKLK 188 (285)
T ss_pred CCCc---cHHHH-HHHHC-CCHHHHHHHHHHHHHhcCCC
Confidence 7432 33333 44556 79999999999777655443
No 31
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=66.60 E-value=53 Score=33.78 Aligned_cols=84 Identities=19% Similarity=0.252 Sum_probs=57.4
Q ss_pred hHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccccc-CcChHHHHHHHHHHHHHHhCCCCchhhHHHHHHHHcCCCCHH
Q 037214 155 PISFVEFFVGIIPIGRGIKRRTLNEIVIQTQGDISFT-RFLPTVIAASAVFTACRVLFNDQYYREKENMIRRVTKYVDEV 233 (455)
Q Consensus 155 P~~FL~~fl~~~~~~~~l~~~al~~LlelsL~d~~fl-~y~PS~IAAAAI~lA~~~l~~~~~~~w~~~Ll~~~s~yv~~~ 233 (455)
.+.=+..+...++....+..++ +++....- |...+ +-.--.|||||||.|.+.-+. |+.+..+ ..... ++..
T Consensus 107 a~~~I~~m~d~~~Lp~~I~d~A-~~ifk~v~-~~k~lrGks~eai~AAclyiACRq~~~---pRT~kEI-~~~an-v~kK 179 (308)
T KOG1597|consen 107 AFKEITAMCDRLSLPATIKDRA-NEIFKLVE-DSKLLRGKSVEALAAACLYIACRQEDV---PRTFKEI-SAVAN-VSKK 179 (308)
T ss_pred HHHHHHHHHHHhCCchHHHHHH-HHHHHHHH-HhhhhcCccHHHHHHHHHHHHHHhcCC---CchHHHH-HHHHc-CCHH
Confidence 3445566667777666666777 66655443 44343 466778999999999987653 3344554 55556 7999
Q ss_pred HHHHHHHHHHHH
Q 037214 234 DLEACLEDTCKM 245 (455)
Q Consensus 234 ~L~~C~~~L~~l 245 (455)
+|.+|+..|.+-
T Consensus 180 EIgr~~K~i~~~ 191 (308)
T KOG1597|consen 180 EIGRCVKLIGEA 191 (308)
T ss_pred HHHHHHHHHHHH
Confidence 999999888764
No 32
>TIGR00569 ccl1 cyclin ccl1. University).
Probab=61.03 E-value=18 Score=37.26 Aligned_cols=53 Identities=17% Similarity=0.177 Sum_probs=38.6
Q ss_pred HHHHHHHhcC--CCHHHHHHHHHHHHHHHhccccccCcChHHHHHHHHHHHHHHhC
Q 037214 158 FVEFFVGIIP--IGRGIKRRTLNEIVIQTQGDISFTRFLPTVIAASAVFTACRVLF 211 (455)
Q Consensus 158 FL~~fl~~~~--~~~~l~~~al~~LlelsL~d~~fl~y~PS~IAAAAI~lA~~~l~ 211 (455)
+|..+...++ ..+.....| .-+...-....++..|.|-.||++||++|.+.=+
T Consensus 62 ~i~~~~~~lkp~Lpq~viaTA-ivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE 116 (305)
T TIGR00569 62 RLLDFCSAFKPTMPTSVVGTA-IMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEE 116 (305)
T ss_pred HHHHHHHHhcCCCCchHHHHH-HHHHhHHhccCchhhcCHHHHHHHHHHHHHhccc
Confidence 5555556666 556666666 4455555667788899999999999999997654
No 33
>PF02984 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR004367 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This is the C-terminal domain of cyclins.; GO: 0005634 nucleus; PDB: 3QHR_D 3QHW_B 1W98_B 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D 2IW9_D ....
Probab=58.15 E-value=10 Score=31.76 Aligned_cols=56 Identities=13% Similarity=0.084 Sum_probs=41.9
Q ss_pred HHHHHHHHHHCCCCchHHHHHHHHHHHHhcCCccccccCCCccchhhhHHHHHHHHhhhccC
Q 037214 46 MHQILQISKSNNLDAMIPYAAMNIFDRFISRNEVPRMLGGMREDIVLAADACLTISWSVKST 107 (455)
Q Consensus 46 VdWL~eV~~~f~L~~eTl~LAV~yLDRFLs~~~V~~~~~~k~~~LQLvgvaCL~IASK~EE~ 107 (455)
.+||.......+.+.++..+|-.+++-.+....+-. ..--+||++|+++|.+.-..
T Consensus 4 ~~Fl~~~~~~~~~~~~~~~~a~~l~el~l~~~~fl~------~~PS~iAaAai~lA~~~~~~ 59 (118)
T PF02984_consen 4 YDFLRRFLKISNADQEVRNLARYLLELSLLDYEFLQ------YPPSVIAAAAILLARKILGK 59 (118)
T ss_dssp HHHHHHHHTSSSHHHHHHHHHHHHHHHHHHSHHHTT------S-HHHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhccccC------CCHHHHHHHHHHHHHHHhCc
Confidence 456666644445566788899999998777666666 66789999999999999654
No 34
>KOG1675 consensus Predicted cyclin [General function prediction only]
Probab=42.82 E-value=16 Score=37.64 Aligned_cols=94 Identities=14% Similarity=0.110 Sum_probs=55.1
Q ss_pred CCCCchHHHHHHHHHHHHhcCCccccccCCCccchhhhHHHHHHHHhhhccCCCC--hhhhhhccCCceeecCCccccHH
Q 037214 56 NNLDAMIPYAAMNIFDRFISRNEVPRMLGGMREDIVLAADACLTISWSVKSTSFS--YDEFLEADNHEYKDTDARVVRKV 133 (455)
Q Consensus 56 f~L~~eTl~LAV~yLDRFLs~~~V~~~~~~k~~~LQLvgvaCL~IASK~EE~~~P--l~dLqv~~s~~~~~td~~yt~~~ 133 (455)
..+..+.-.....|++|-+....... -+..-..++....++|+|+-....- +.=.|.. - | .+.+
T Consensus 204 ~qlta~~aiitL~~~erl~~~~e~~~----~p~~w~r~~~g~il~sskv~~dqs~wnvdycqIl-----K--d---~tve 269 (343)
T KOG1675|consen 204 AQLTAECDIITLVYAERLLWLAERDP----CPRNWSRAVLGEILLSSKVYDDQSVWNVDYCEIL-----K--D---QSVD 269 (343)
T ss_pred hhhhhccchHHHHhhHhhhhHhhcCC----CcchhhhhhhhhheehhhhhhhhhcccHHHHHHH-----h--h---ccHh
Confidence 34444444455688888875554431 0144455555679999998654221 1111111 0 0 1145
Q ss_pred HHHHHHHHHHHhcCcccccCChHHHHHHHHH
Q 037214 134 QLVAMEQKIDVGVDWRMRVATPISFVEFFVG 164 (455)
Q Consensus 134 eIl~ME~~IL~~L~w~L~~pTP~~FL~~fl~ 164 (455)
|+..||+.+|..|+|+++.|.. .|..+|..
T Consensus 270 DmNe~ERqfLelLqfNinvp~s-vYAKyYfd 299 (343)
T KOG1675|consen 270 DMNALERQFLELLQFNINVPSS-EYAKYYFD 299 (343)
T ss_pred hHHHHHHHHHHHHhhccCccHH-HHHHHHHH
Confidence 9999999999999999998753 34444433
No 35
>PF03261 CDK5_activator: Cyclin-dependent kinase 5 activator protein; InterPro: IPR004944 These proteins are neuron specific activators of cyclin-dependent kinase 5 (CDK5) []. They form a heterodimer with the catalytic subunit (CDK5) [].; GO: 0016534 cyclin-dependent protein kinase 5 activator activity, 0016533 cyclin-dependent protein kinase 5 holoenzyme complex; PDB: 3O0G_D 1H4L_E 1UNH_D 1UNL_E 1UNG_E.
Probab=35.41 E-value=30 Score=36.19 Aligned_cols=75 Identities=13% Similarity=0.144 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHC---CCCchHHHHHHHHHHHHhcCCccccccCCCccchhhhHHHHHHHHhhhcc--CCCChhhhhhcc
Q 037214 44 IAMHQILQISKSN---NLDAMIPYAAMNIFDRFISRNEVPRMLGGMREDIVLAADACLTISWSVKS--TSFSYDEFLEAD 118 (455)
Q Consensus 44 ~LVdWL~eV~~~f---~L~~eTl~LAV~yLDRFLs~~~V~~~~~~k~~~LQLvgvaCL~IASK~EE--~~~Pl~dLqv~~ 118 (455)
++|-|+..|-..+ |.+...+..-.+++=-||-.+.+-...-....++|-+.++|||||=-|-. +..|+.-|.+..
T Consensus 223 ~~vmWlR~vDRsLLlqgwqd~~fi~pan~vf~yml~r~~~~~~~~~~~~l~~~~l~cly~sysy~gneisyplkpflv~~ 302 (346)
T PF03261_consen 223 DVVMWLRAVDRSLLLQGWQDQAFINPANVVFVYMLCRDVVSGEVSSERELQAIVLTCLYLSYSYMGNEISYPLKPFLVEE 302 (346)
T ss_dssp HHHHHHHHHHHHHHHTTS-SS-S--HHHHHHHHHHHHHHS-TT--SHHHHHHHHHHHHHHHHHHH-SSS---SGGG--SS
T ss_pred ceEeehhhcCHHHHhccccccceeccchhhhhHHHHHHhhccccCCHHHHHHHHHHHHHHHhhhcCcccccccCCeeecc
Confidence 4455555554444 44444444333333334332222111223458899999999999998864 445777775553
No 36
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=25.36 E-value=1.2e+02 Score=31.74 Aligned_cols=23 Identities=13% Similarity=0.040 Sum_probs=19.8
Q ss_pred cchhhhHHHHHHHHhhhccCCCC
Q 037214 88 EDIVLAADACLTISWSVKSTSFS 110 (455)
Q Consensus 88 ~~LQLvgvaCL~IASK~EE~~~P 110 (455)
..-..||++|.++|+..+|+..|
T Consensus 180 y~pe~iACaciyLaAR~~eIpLp 202 (367)
T KOG0835|consen 180 YSPESIACACIYLAARNLEIPLP 202 (367)
T ss_pred cCHHHHHHHHHHHHHhhhcCCCC
Confidence 66689999999999999997554
No 37
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription]
Probab=23.32 E-value=1.3e+02 Score=30.19 Aligned_cols=54 Identities=11% Similarity=0.181 Sum_probs=34.4
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHHHHHHhccccccCcChHHHHHHHHHHHHHHhC
Q 037214 157 SFVEFFVGIIPIGRGIKRRTLNEIVIQTQGDISFTRFLPTVIAASAVFTACRVLF 211 (455)
Q Consensus 157 ~FL~~fl~~~~~~~~l~~~al~~LlelsL~d~~fl~y~PS~IAAAAI~lA~~~l~ 211 (455)
.++..+...++..+.....|+.|+ ...+...++..+.|-.+|..|+++|.+.=+
T Consensus 46 n~I~~lg~~lklRQ~ViATAivY~-rRfy~r~S~k~~~p~lla~TClyLAcKvEE 99 (264)
T KOG0794|consen 46 NVIQKLGQHLKLRQRVIATAIVYF-RRFYLRKSLKEIEPRLLAPTCLYLACKVEE 99 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHhhhccCHHHHHHHHHHHHhhhhh
Confidence 344444444444555555563333 333445568889999999999999997543
Done!