ORF STATUS Function Best COG Functional category Pathways and functional systems
r_klactIII3628 good KL KOG2074 Replication, recombination and repair RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB1
r_klactIII3628 good KL KOG2074 Transcription RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB1
Only best alignment is shown:
BLASTP 2.2.3 [May-13-2002]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= r_klactIII3628 1279776 1277917 -620
(620 letters)
Database: KOG eukaryal database 04/03
60,738 sequences; 30,389,216 total letters
Searching..................................................done
Color Key for Alignment Scores: 
Score E
Sequences producing significant alignments: (bits) Value
YDR311w [KL] KOG2074 RNA polymerase II transcription initiation/... 648 0.0
SPAC16E8.11c [KL] KOG2074 RNA polymerase II transcription initia... 158 3e-38
Hs4885365 [KL] KOG2074 RNA polymerase II transcription initiatio... 78 3e-14
7303190 [KL] KOG2074 RNA polymerase II transcription initiation/... 74 5e-13
At1g55750 [KL] KOG2074 RNA polymerase II transcription initiatio... 64 7e-10
At3g61420 [KL] KOG2074 RNA polymerase II transcription initiatio... 62 2e-09
Hs22061192 [KL] KOG2074 RNA polymerase II transcription initiati... 60 8e-09
>YDR311w [KL] KOG2074 RNA polymerase II transcription initiation/nucleotide
excision repair factor TFIIH subunit TFB1
Length = 642
Score = 648 bits (1672), Expect = 0.0
Identities = 345/636 (54%), Positives = 443/636 (69%), Gaps = 36/636 (5%)
Query: 4 THSGAATYKKVNGMLRVDEDASPANLIWRSTDGDKSTTIELNMVDKLQATPASSDKMMLR 63
+HSGAA ++KV+G++ ++ED SPA L WRSTDGDK T+ L+ +DKLQATPASS+KMMLR
Sbjct: 2 SHSGAAIFEKVSGIIAINEDVSPAELTWRSTDGDKVHTVVLSTIDKLQATPASSEKMMLR 61
Query: 64 IVGKIDSGIKKRKDNEGNEIPIKPPVHMFTFNNRTVMDNIKETLQHIIARYKDEESTQEK 123
++GK+D KKRKDNEGNE+ KP HMF+FNNRTVMDNIK TLQ II+RYKD + +EK
Sbjct: 62 LIGKVDES-KKRKDNEGNEVVPKPQRHMFSFNNRTVMDNIKMTLQQIISRYKDADIYEEK 120
Query: 124 HKNETEISPANTPVASE-----TPQPSHL--PQ-----DLINTAXXXXXXXXXXXXXXXX 171
+ E TP++S TP P HL PQ LINTA
Sbjct: 121 RRREESAQHTETPMSSSSVTAGTPTP-HLDTPQLNNGAPLINTAKLDDSLSKEKLLTNLK 179
Query: 172 XXXXXXXESKELMNIFQDTVIKSGLPPHEFWSTRIPLLRAYALSTSQKIGPYNVLSTIKP 231
+K LM +FQ+TVI +GLPP EFWSTRIPLLRA+ALSTSQK+GPYNVLSTIKP
Sbjct: 180 LQQSLLKGNKVLMKVFQETVINAGLPPSEFWSTRIPLLRAFALSTSQKVGPYNVLSTIKP 239
Query: 232 VASSDNKVNVNVSREKIHTIFQSYPIVKKAYDDNVPKNFKEQEFWARFFSSKLFRKLRGE 291
VASS+NKVNVN+SREKI IF++YPIVKKAY DNVPKNFKE EFWARFFSSKLFRKLRGE
Sbjct: 240 VASSENKVNVNLSREKILNIFENYPIVKKAYTDNVPKNFKEPEFWARFFSSKLFRKLRGE 299
Query: 292 RIMNHDRGDIIIDRYLSLDQEYDRRDDELLQHSVRKTIDIEGNLNDDPVKKGHRPDFTMR 351
+IM +DRGD+IIDRYL+LDQE+DR+DD++L H V+K ID++GN+ DDPV +G+RPDFTM+
Sbjct: 300 KIMQNDRGDVIIDRYLTLDQEFDRKDDDMLLHPVKKIIDLDGNIQDDPVVRGNRPDFTMQ 359
Query: 352 SGIDPNGNSDGGMAILRGMNRLSEKMVESLENEYSRVNL--------PQEDPDKEEREEI 403
G+D NGNSDG + IL+GMNRLSEKM+ +L+NEYSR NL +ED D +ER E+
Sbjct: 360 PGVDINGNSDGTVDILKGMNRLSEKMIMALKNEYSRTNLQNKSNITNDEEDEDNDERNEL 419
Query: 404 LYSDLEKDAPADYAEIKLKRKV------LDAKNQQMHKENSSVSWLEVKNE--ISSITTF 455
DL + +YA I LKR DAK+ +N+ L+V N+ + ++
Sbjct: 420 KIDDLNESYKTNYAIIHLKRNAHEKTTDNDAKSSADSIKNAD---LKVSNQQMLQQLSLV 476
Query: 456 MDKSXXXXXXXXKI-SPEVTRSINQRLMKAVKINAKQSKHMNTDQMLGTTISSTSMFQEA 514
MD + + EV+ IN+R++ A+KINAKQ+KH N + LG+ + +TS E
Sbjct: 477 MDNLINKLDLNQVVPNNEVSNKINKRVITAIKINAKQAKHNNVNSALGSFVDNTSQANEL 536
Query: 515 SKESTSQLPPSILESCRMLNNSCCEFLKHFYINFQSGDPRKTMLIKKLYKNLMDCQEKID 574
+ST LP +LESCRML+ +CCEFLKHFYI+FQSG+ ++ +KKLY +L DC EK++
Sbjct: 537 EVKST--LPIDLLESCRMLHTTCCEFLKHFYIHFQSGEQKQASTVKKLYNHLKDCIEKLN 594
Query: 575 SLLNSVDSEENQEIAKYCKAYLVHVLDSVNLGIHKY 610
L V + + + ++ C AYL VL+S+ L HKY
Sbjct: 595 ELFQDVLNGDGESMSNTCTAYLKPVLNSITLATHKY 630
>SPAC16E8.11c [KL] KOG2074 RNA polymerase II transcription initiation/nucleotide
excision repair factor TFIIH subunit TFB1
Length = 477
Score = 158 bits (399), Expect = 3e-38
Identities = 124/434 (28%), Positives = 213/434 (48%), Gaps = 50/434 (11%)
Query: 182 ELMNIFQDTVIKSGLPPHEFWSTRIPLLRAYALSTSQKIGPYNVLSTIKPVASSDNKVNV 241
+L+ F++ V+K L +FWSTR+ LLRA+A+ SQ+ GPYNVLSTIKP + DN++ V
Sbjct: 82 DLLQTFKEAVMKGHLSNEQFWSTRLHLLRAHAVERSQQRGPYNVLSTIKP-KTVDNQMKV 140
Query: 242 NVSREKIHTIFQSYPIVKKAYDDNVPKNFKEQEFWARFFSSKLFRKLRGERIMNHDRGDI 301
+++ ++IH +F+ +P+++K YD +VP E EFW+RFF SKL +KLRG+RI D D
Sbjct: 141 SLTGQQIHDMFEQHPLLRKVYDKHVPP-LAEGEFWSRFFLSKLCKKLRGDRITPMDPSDD 199
Query: 302 IIDRYLSLDQEYDRRDDELLQHSVRKTIDIEGNLNDDPVKKGHRPDFTMRSGIDPNGNSD 361
I+D+YL ++E + DE + + D+EGN + V RPD TMR ID
Sbjct: 200 IMDKYLKDNEEVTKVSDEPIASHL---FDLEGNDQNANVIAELRPDITMR--IDKE---- 250
Query: 362 GGMAILRGMNRLSEKMVESLENEYSRVNLPQEDPDKEEREEILYSDLEKDAPADYAEIKL 421
+ ++ +N+LSE+++E R N E+ +E + DLE++A
Sbjct: 251 -ALPFMKNINQLSERLLEKSLGNSKRFNNENEETYLKESG---FHDLEEEASD------- 299
Query: 422 KRKVLDAKNQQMHKENSSVSWLEVKNEISSITTFMDKSXXXXXXXXKISPEVTRSINQRL 481
+ VL K Q EN +++ KN++ + P + Q L
Sbjct: 300 SKVVLKIKGQDQLLEN---NFVPSKNQVG------------------LEPLPSLEALQHL 338
Query: 482 MKAVKINAKQSKHMNTDQMLGTTISSTSMFQEASKEST----SQLPPSILESCRMLNNSC 537
+ I+ +H ++D + + T +E + T S LP I + +
Sbjct: 339 YQEDSISLNHIEH-DSDSLAEAAMQLTQSMREKHEFETHGTASNLPIDIKNEIVLCHTVT 397
Query: 538 CEFLKHFYINFQSGDPRKTMLIKKLYKNLMDCQEKIDSLLNSVDSEENQEIAKYCKAYLV 597
EFL F+ + + L L++ +++++++ + ++E K +
Sbjct: 398 IEFLHQFWNALLNTTFPDKKAMAPLQNALLNSKKRVEAIAS--QAQEQNVDPKLVYELVS 455
Query: 598 HVLDSVNLGIHKYR 611
L S++ I +Y+
Sbjct: 456 CTLTSIDTSISEYQ 469
>Hs4885365 [KL] KOG2074 RNA polymerase II transcription initiation/nucleotide
excision repair factor TFIIH subunit TFB1
Length = 548
Score = 78.2 bits (191), Expect = 3e-14
Identities = 91/408 (22%), Positives = 174/408 (42%), Gaps = 50/408 (12%)
Query: 179 ESKELMNIFQDTVIKSGLPPHEFWSTRIPLLRAYALSTS---QKIG-PYNVLSTIKPVAS 234
E L +++D V+ + EFW+ R+ + + STS Q +G L+ ++P
Sbjct: 120 EDPVLFQLYKDLVVSQVISAEEFWANRLNVNATDSSSTSNHKQDVGISAAFLADVRPQTD 179
Query: 235 SDNKVNVNVSREKIHTIFQSYPIVKKAYDDNVPKNFKEQEFWARFFSSKLFRKLRGERIM 294
N + N++ + I +IF++YP VK Y +NVP N E+EFW RFF S F + R +
Sbjct: 180 GCNGLRYNLTSDIIESIFRTYPAVKMKYAENVPHNMTEKEFWTRFFQSHYFHRDR----L 235
Query: 295 NHDRGDIIIDRYLSLDQEYDRRDDELLQHSVRKTIDIEGNLNDDPVKKGHR----PDFTM 350
N D+ + +D++ + ++ V+ + L D P+ +G+ P +
Sbjct: 236 NTGSKDLFAE-CAKIDEKGLK---TMVSLGVKNPLLDLTALEDKPLDEGYGISSVPSASN 291
Query: 351 RSGIDPNGNSDGGMAILRGMNRLSEKMVESLENEYSRVNLPQEDPDKEEREEILYSDLEK 410
I N N+ AI++ N S ++ + L +++ E+ E D
Sbjct: 292 SKSIKENSNA----AIIKRFNHHSAMVLAA--------GLRKQEAQNEQTSEPSNMD-GN 338
Query: 411 DAPADYAEIKLKRKVLDAKNQQMHKENSSVSWLEVKNEISSITTFMDKSXXXXXXXXKI- 469
AD + +KR L +E+ L N + +I + KS I
Sbjct: 339 SGDADCFQPAVKRAKL--------QESIEYEDLGKNNSVKTIALNLKKSDRYYHGPTPIQ 390
Query: 470 ------SPEVTRSINQRLMKAVKINAKQSKHMNTDQMLGTTISSTS----MFQEASKEST 519
S ++ S Q + + ++ + + + +TI++ S + Q ++++
Sbjct: 391 SLQYATSQDIINSF-QSIRQEMEAYTPKLTQVLSSSAASSTITALSPGGALMQGGTQQAI 449
Query: 520 SQLPPSILES-CRMLNNSCCEFLKHFYINFQSGDPRKTMLIKKLYKNL 566
+Q+ P+ ++S + L + E L+HF+ F P + K+ NL
Sbjct: 450 NQMVPNDIQSELKHLYVAVGELLRHFWSCFPVNTPFLEEKVVKMKSNL 497
>7303190 [KL] KOG2074 RNA polymerase II transcription initiation/nucleotide
excision repair factor TFIIH subunit TFB1
Length = 591
Score = 74.3 bits (181), Expect = 5e-13
Identities = 40/114 (35%), Positives = 60/114 (52%), Gaps = 3/114 (2%)
Query: 179 ESKELMNIFQDTVIKSGLPPHEFWSTRIPLLRAYALSTSQKIG---PYNVLSTIKPVASS 235
E+ L+ +++D VI L EFW+T + SQ+IG L+ IKP
Sbjct: 123 ENPNLLQLYKDLVITKVLTSDEFWATHAKDHALKKMGRSQEIGIGVSGAFLADIKPQTDG 182
Query: 236 DNKVNVNVSREKIHTIFQSYPIVKKAYDDNVPKNFKEQEFWARFFSSKLFRKLR 289
N + N++ + IH IF++YP VK+ + +NVP E EFW +FF S F + R
Sbjct: 183 CNGLKYNLTSDVIHCIFKTYPAVKRKHFENVPAKMSEAEFWTKFFQSHYFHRDR 236
>At1g55750 [KL] KOG2074 RNA polymerase II transcription initiation/nucleotide
excision repair factor TFIIH subunit TFB1
Length = 612
Score = 63.9 bits (154), Expect = 7e-10
Identities = 58/223 (26%), Positives = 110/223 (49%), Gaps = 18/223 (8%)
Query: 179 ESKELMNIFQDTVIKSGLPPHEFWSTRIPLLRAYALSTS-QKIGPYNVL-STIKPVASS- 235
E+ EL + + V L EFW+TR LL ++ S Q++G +++ S IKP
Sbjct: 171 ENSELQRLHKQFVESKVLTEDEFWATRKKLLGKDSIRKSKQQLGLKSMMVSGIKPSTDGR 230
Query: 236 DNKVNVNVSREKIHTIFQSYPIVKKAYDDNVPKNFKEQEFWARFFSSKLFRKLRGERIMN 295
N+V N++ E I IF P V++A+ + VP E++FW ++F ++ + +
Sbjct: 231 TNRVTFNLTPEIIFQIFAEKPAVRQAFINYVPSKMTEKDFWTKYFRAEYLYSTKNTAVAA 290
Query: 296 HDRGDIIIDRYLSLDQEYDRRDDELLQHSVRK---TIDIEGNLNDD---PVKKGHRPDFT 349
+ + D L++ + D +H +R+ T+D+E + DD + G + D T
Sbjct: 291 AEAAE---DEELAVFLKPDEILARETRHKIRRVDPTLDMEADQGDDYTHLMDHGIQRDGT 347
Query: 350 MRSGIDPNGNSDGGMAILRGMNRLSEKMVE----SLENEYSRV 388
M ++P N ++L+ +NR + ++E +E+E +R+
Sbjct: 348 M-DVVEPQ-NDQFKRSLLQDLNRHAAVVLEGRSIDVESEDTRI 388
>At3g61420 [KL] KOG2074 RNA polymerase II transcription initiation/nucleotide
excision repair factor TFIIH subunit TFB1
Length = 566
Score = 62.4 bits (150), Expect = 2e-09
Identities = 51/186 (27%), Positives = 91/186 (48%), Gaps = 10/186 (5%)
Query: 179 ESKELMNIFQDTVIKSGLPPHEFWSTRIPLLRAYALSTS-QKIGPYNVL-STIKPVASS- 235
E+ EL + + V L EFWSTR LL ++ S Q++G +++ S IKP
Sbjct: 102 ENSELQKLHKQFVESKVLTEDEFWSTRKKLLGKDSIRKSKQQMGLKSMMVSGIKPSTDGR 161
Query: 236 DNKVNVNVSREKIHTIFQSYPIVKKAYDDNVPKNFKEQEFWARFFSSKLFRKLRGERIMN 295
N+V N++ E I IF P V++A+ + VPK E++FW ++F ++ + +
Sbjct: 162 TNRVTFNLTSEIIFQIFAEKPAVRQAFINYVPKKMTEKDFWTKYFRAEYLYSTKNTAVAA 221
Query: 296 HDRGDIIIDRYLSLDQEYDRRDDELLQHSVRKTIDIEGNLNDDPVKKGHRPDFTMRSGID 355
+ + D L++ + + D+ L Q + +K ++ L+ D +G M GI
Sbjct: 222 AEAAE---DEELAV---FLKPDEILAQEARQKMRRVDPTLDMD-ADEGDDYTHLMDHGIQ 274
Query: 356 PNGNSD 361
+G +D
Sbjct: 275 RDGTND 280
>Hs22061192 [KL] KOG2074 RNA polymerase II transcription initiation/nucleotide
excision repair factor TFIIH subunit TFB1
Length = 478
Score = 60.5 bits (145), Expect = 8e-09
Identities = 35/113 (30%), Positives = 55/113 (47%), Gaps = 4/113 (3%)
Query: 179 ESKELMNIFQDTVIKSGLPPHEFWSTRIPLLRAYALSTS---QKIG-PYNVLSTIKPVAS 234
E L +++D V+ + EFW+ + STS Q +G L+ + P
Sbjct: 119 EDPVLFQLYKDLVVSQVMSAEEFWANHLNGNATENSSTSNHKQDVGISAAYLADVWPETD 178
Query: 235 SDNKVNVNVSREKIHTIFQSYPIVKKAYDDNVPKNFKEQEFWARFFSSKLFRK 287
N + N++ + I IF++YP VK Y ++VP N E+ FW RFF S F +
Sbjct: 179 GCNGLKYNLTSDIIEFIFRTYPAVKMKYAESVPHNMTEKGFWTRFFQSHYFHR 231
Database: KOG eukaryal database 04/03
Posted date: Apr 14, 2003 1:07 PM
Number of letters in database: 30,389,216
Number of sequences in database: 60,738
Lambda K H
0.313 0.130 0.363
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 36,138,912
Number of Sequences: 60738
Number of extensions: 1580745
Number of successful extensions: 4753
Number of sequences better than 1.0e-05: 7
Number of HSP's better than 0.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 4732
Number of HSP's gapped (non-prelim): 9
length of query: 620
length of database: 30,389,216
effective HSP length: 112
effective length of query: 508
effective length of database: 23,586,560
effective search space: 11981972480
effective search space used: 11981972480
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)