ORF STATUS Function Best COG Functional category Pathways and functional systems
r_klactVI0292 good KL KOG3471 Replication, recombination and repair RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB2
r_klactVI0292 good KL KOG3471 Transcription RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB2
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_klactVI0292 97656 96169 -496
(496 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
YPL122c [KL] KOG3471 RNA polymerase II transcription initiation/... 639 0.0
SPBC13G1.13 [KL] KOG3471 RNA polymerase II transcription initiat... 407 e-113
7294263 [KL] KOG3471 RNA polymerase II transcription initiation/... 303 3e-82
Hs4504201 [KL] KOG3471 RNA polymerase II transcription initiatio... 297 3e-80
CE25592 [KL] KOG3471 RNA polymerase II transcription initiation/... 189 1e-47
ECU01g0670 [KL] KOG3471 RNA polymerase II transcription initiati... 130 6e-30
>YPL122c [KL] KOG3471 RNA polymerase II transcription initiation/nucleotide
excision repair factor TFIIH subunit TFB2
Length = 513
Score = 639 bits (1648), Expect = 0.0
Identities = 328/513 (63%), Positives = 397/513 (76%), Gaps = 19/513 (3%)
Query: 1 MSLNLFKTTVNDYLEGLPEQVQSRLYESPATCLAIYRLLSPMAKFFIMSMLFQDHDVSLR 60
MS K +V YLE +P+QVQ+RLY SPATCLAIYR+L P+AKFFIM+M+F +++V L
Sbjct: 1 MSDYSLKHSVTQYLEEIPQQVQNRLYTSPATCLAIYRILPPLAKFFIMAMVFNENEVPLL 60
Query: 61 DLDKWVKPDAKYQLQYSIKSMKSLNLIIEGESKQPLLIRLNPIFKKSFKNVLTGGEINNS 120
DLDKWV + K Q Q +IKSMKSL+L+I +S L+I LNP FK S +N LTGGE+ NS
Sbjct: 61 DLDKWVNSNGKLQFQNAIKSMKSLHLLIPNKSSGTLMINLNPTFKISLRNALTGGEVQNS 120
Query: 121 FGDVADDDTNPVSTATLDQYSAEKWETILHYMVGTPNTNTPGGKVLDLLQHSGLMEEAEY 180
FG V ++ N VS LD+YSA KWETILH+MVGTP P KVL+LL+HS LMEE
Sbjct: 121 FGVVVEE--NVVSLDLLDEYSANKWETILHFMVGTPLAKIPSEKVLNLLKHSKLMEEVNS 178
Query: 181 -GELKITNQGFQFLLQDVNAQMWTLLLQYLKMAESLQMDPVDVLNFIFMLGALQLGKAYK 239
GE KITN+GFQFLLQ++N+Q+WTLLLQYLKM E+ +MD VDVL+FIFMLGAL++GKAYK
Sbjct: 179 TGEFKITNEGFQFLLQEINSQLWTLLLQYLKMIETSKMDLVDVLHFIFMLGALEVGKAYK 238
Query: 240 CDQLSNTQRTMLQDMRDYGLIYQNQSDYAKFYPTRLATLLTSDTKAFRSASVALDSVLNK 299
D LS TQR MLQDMRDYGL++Q S+ + FYPT+LA +LTSDTK RSAS A+DSVL +
Sbjct: 239 IDALSETQRIMLQDMRDYGLVFQKHSNDSIFYPTKLALMLTSDTKTIRSASNAMDSVLRQ 298
Query: 300 ANETTAVEGDSGQDETT----------------ERTQDGALIIETNFKLYSYSNSPLQIA 343
E +V D ++T + DG+LI+ETNFK+YSYSNSPLQIA
Sbjct: 299 NREEPSVNEDGANGKSTTDITTSDDLNKAGLKNQDIPDGSLIVETNFKIYSYSNSPLQIA 358
Query: 344 ILSLFVHLKSRFANMVTGQLTRESVRNALLNGITAEQIIAYLETHAHPRMRRLAEENLSK 403
+LSLFVHLK+RF NMV GQ+TRES+R AL NGITA+QIIAYLETHAHP+MRRLAEE L K
Sbjct: 359 VLSLFVHLKARFVNMVLGQITRESIRRALTNGITADQIIAYLETHAHPQMRRLAEEKLEK 418
Query: 404 KLELDPTVKETLQVLPPTVVDQIRLWQLELDRIISYDGYLYTDFESYQEYQTVADYAKDI 463
KLELDP KE LQVLPPTVVDQIRLWQLELDR+I+Y+G LY+DFE+ QEY ++ YA+DI
Sbjct: 419 KLELDPNCKEPLQVLPPTVVDQIRLWQLELDRVITYEGSLYSDFETSQEYNLLSKYAQDI 478
Query: 464 GVLLWQNEKKKMFFVSTEGNSQVLDFHRRNFDK 496
GVLLW+++KKK FF+S EGNSQVLDF +R K
Sbjct: 479 GVLLWKDDKKKKFFISKEGNSQVLDFAKRKLKK 511
>SPBC13G1.13 [KL] KOG3471 RNA polymerase II transcription initiation/nucleotide
excision repair factor TFIIH subunit TFB2
Length = 447
Score = 407 bits (1045), Expect = e-113
Identities = 216/489 (44%), Positives = 312/489 (63%), Gaps = 52/489 (10%)
Query: 6 FKTTVNDYLEGLPEQVQSRLYESPATCLAIYRLLSPMAKFFIMSMLFQDHDVSLRDLDKW 65
FK+++ND+LE LP +RLY+ PA CLA++RLL +A+ ++MSMLF V+L D D W
Sbjct: 5 FKSSINDFLEQLPNH--ARLYQKPAACLAVFRLLPILARQYVMSMLFNPMPVALSDFDLW 62
Query: 66 VKPDAKYQLQYSIKSMKSLNLI-IEGESKQPLLIRLNPIFKKSFKNVLTGGEINNSFG-D 123
+K +K S + +++ +G+ I LN F+K F LTGG +NSFG
Sbjct: 63 IKLSSKVYQSESFNKLVRMHIFQFDGQ-----YITLNSEFRKQFITALTGGGNHNSFGVP 117
Query: 124 VADDDTNPVSTATLDQYSAEKWETILHYMVGTPNTNTPGGKVLDLLQHSGLMEEAEYGEL 183
D+D + V+ LD Y+ E WETILH+MVGTP PG VL LL+ GLM + +L
Sbjct: 118 CTDEDKHLVTVDFLDAYAKETWETILHFMVGTPEAKFPGEGVLSLLKRGGLMSGPK-NQL 176
Query: 184 KITNQGFQFLLQDVNAQMWTLLLQYLKMAESLQMDPVDVLNFIFMLGALQLGKAYKCDQL 243
+IT GFQFLLQD+NAQ+WTLLL YLK++E MDPV VL+F+FMLG+L LG+AY D L
Sbjct: 177 RITRAGFQFLLQDINAQIWTLLLDYLKLSEDTHMDPVQVLHFLFMLGSLDLGRAYSVDFL 236
Query: 244 SNTQRTMLQDMRDYGLIYQNQSDYAKFYPTRLATLLTSDTKAFRSASVALDSVLNKANET 303
++TQ+ ML+D+R+YGL+YQ + +FYPTRLAT LT+D ++
Sbjct: 237 TDTQQIMLEDLREYGLVYQRKITSKRFYPTRLATGLTTDYRSLHGK-------------- 282
Query: 304 TAVEGDSGQDETTERTQDGALIIETNFKLYSYSNSPLQIAILSLFVHLKSRFANMVTGQL 363
+ ++ D+ G +I+ETN++LY+Y++SPLQIAI+ LF +L++RF+N+V G +
Sbjct: 283 ---QSENDDDK-------GFIIVETNYRLYAYTSSPLQIAIIGLFANLRARFSNLVVGVI 332
Query: 364 TRESVRNALLNGITAEQIIAYLETHAHPRMRRLAEENLSKKLELDPTVKETLQVLPPTVV 423
TR+S+R AL+NGI AEQII YL THAHP+MR + +LPPT+V
Sbjct: 333 TRDSIRRALMNGIAAEQIITYLTTHAHPQMR------------------SNVPLLPPTLV 374
Query: 424 DQIRLWQLELDRIISYDGYLYTDFESYQEYQTVADYAKDIGVLLWQNEKKKMFFVSTEGN 483
DQI LW+LE +R+ + G L+ DF + + +YAK++GVL+W + K+MFF++T G
Sbjct: 375 DQIYLWELEKNRLRATPGILFRDFLTDSGFDQAVEYAKELGVLVWDSSLKRMFFITTTGA 434
Query: 484 SQVLDFHRR 492
++ + +R
Sbjct: 435 QPMIAYLKR 443
>7294263 [KL] KOG3471 RNA polymerase II transcription initiation/nucleotide
excision repair factor TFIIH subunit TFB2
Length = 499
Score = 303 bits (777), Expect = 3e-82
Identities = 182/486 (37%), Positives = 266/486 (54%), Gaps = 50/486 (10%)
Query: 18 PEQVQSRLYESPATCLAIYRLLSPMAKFFIMSMLFQDHDVSLRDLDKWVKPDAKYQLQYS 77
PE ++ +LY P CLA++R L +A+ FI+ +LF D V + W + +
Sbjct: 47 PESLE-KLYNYPPICLAVFRELPEIARQFIIRILFVDQPVPQAVVTSWGAQRCAKEQAEA 105
Query: 78 IKSMKSLNL-----IIEGESKQPLLIRLNPIFKKSFKNVLTGGEINNSFGDVADDDTNPV 132
+ +LN+ I G S L+P FKKS + VL GG + D D+ P
Sbjct: 106 TSCLTALNVWRVTAIPGGLSAW----ELSPTFKKSVRQVLLGGGKPWPMTNTLDKDSKPR 161
Query: 133 STATLDQYSAEKWETILHYMVGTPNTNTPGGKVLD-----LLQHSGLMEEAEYGELKITN 187
A LD Y+ +W +LHYMVGT N N + + +L H+ LM+ E + IT
Sbjct: 162 DIAFLDTYAMSRWRCVLHYMVGTGNRNGTDAEAISPDAVRILLHANLMKRDERDGITITR 221
Query: 188 QGFQFLLQDVNAQMWTLLLQYLKMAESLQMDPVDVLNFIFMLGALQLGKAYKCDQLSNTQ 247
QGFQFLL D AQ+W +LQYL E + + L+ +F L LG+ Y + +++
Sbjct: 222 QGFQFLLLDTRAQVWHFMLQYLDTCEERGISLPECLSMLFQLSFSTLGRDYSSEGMNSQM 281
Query: 248 RTMLQDMRDYGLIYQNQSDYAKFYPTRLATLLTSDTKAFRSASVALDSVLNKANETTAVE 307
T LQ +R++GL++Q + +FYPTRLA +TS +A +ASVA+D
Sbjct: 282 LTFLQHLREFGLVFQRKRKEGRFYPTRLALNVTSK-EAAATASVAMDE------------ 328
Query: 308 GDSGQDETTERTQD-GALIIETNFKLYSYSNSPLQIAILSLFVHLKSRFANMVTGQLTRE 366
E TQD G +++ETN+++Y+Y++SPLQ+A+L LF L RF N+V G LTR+
Sbjct: 329 ---------EATQDCGYIVVETNYRVYAYTDSPLQVAVLGLFTELLYRFPNLVVGVLTRD 379
Query: 367 SVRNALLNGITAEQIIAYLETHAHPRMRRLAEENLSKKLELDPTVKETLQVLPPTVVDQI 426
SVR AL GITAEQI++YLE +AHP MR + SK LPPTVVDQI
Sbjct: 380 SVRQALRGGITAEQIVSYLEQYAHPNMRMVESAIHSK------------SCLPPTVVDQI 427
Query: 427 RLWQLELDRIISYDGYLYTDFESYQEYQTVADYAKDIGVLLWQNEKKKMFFVSTEGNSQV 486
+LW+LE +R +G LY F S+ ++ T+ DYA+ I +L+WQNE+ + V G+ V
Sbjct: 428 KLWELERNRFTYTEGVLYNQFLSHTDFVTLRDYAQSIHMLVWQNERTRTMVVQKNGHDDV 487
Query: 487 LDFHRR 492
+ ++
Sbjct: 488 KRYWKK 493
>Hs4504201 [KL] KOG3471 RNA polymerase II transcription initiation/nucleotide
excision repair factor TFIIH subunit TFB2
Length = 462
Score = 297 bits (760), Expect = 3e-80
Identities = 183/495 (36%), Positives = 279/495 (55%), Gaps = 68/495 (13%)
Query: 10 VNDYLEGLPEQVQSRLYESPATCLAIYRLLSPMAKFFIMSMLFQDHDVSLRDLDKWVKPD 69
+ ++L GL V RLY PATCLA++R L +AK ++M MLF + + + WVK +
Sbjct: 19 LQEFLGGLSPGVLDRLYGHPATCLAVFRELPSLAKNWVMRMLFLEQPLPQAAVALWVKKE 78
Query: 70 AKYQLQYSIKSMKSLNL----IIEGESKQPLLIRLNPIFKKSFKNVLTGGEINNSFGDVA 125
+ S + L + ++ G Q L+ LNPIF+++ + L GG G
Sbjct: 79 FSKAQEESTGLLSGLRIWHTQLLPG-GLQGLI--LNPIFRQNLRIALLGG------GKAW 129
Query: 126 DDDTNPVS-------TATLDQYSAEKWETILHYMVGTPNTNTPGGKVLDLLQHSGLMEEA 178
DDT+ + +LD+Y+ E+WE +LH+MVG+P+ + LL +GLM+
Sbjct: 130 SDDTSQLGPDKHARDVPSLDKYAEERWEVVLHFMVGSPSAAV-SQDLAQLLSQAGLMKST 188
Query: 179 EYGELK-ITNQGFQFLLQDVNAQMWTLLLQYLKMAESLQMDPVDVLNFIFMLGALQLGKA 237
E GE IT+ GFQFLL D AQ+W +LQYL+ A+S MD V++L+F+F L LGK
Sbjct: 189 EPGEPPCITSAGFQFLLLDTPAQLWYFMLQYLQTAQSRGMDLVEILSFLFQLSFSTLGKD 248
Query: 238 YKCDQLSNTQRTMLQDMRDYGLIYQNQSDYAKFYPTRLATLLTSDTKAFRSASVALDSVL 297
Y + +S++ LQ +R++GL++Q + ++YPTRLA L+S
Sbjct: 249 YSVEGMSDSLLNFLQHLREFGLVFQRKRKSRRYYPTRLAINLSS---------------- 292
Query: 298 NKANETTAVEGDSGQDETTERTQDGALIIETNFKLYSYSNSPLQIAILSLFVHLKSRFAN 357
G SG T Q G +++ETN++LY+Y+ S LQIA+++LF + RF N
Sbjct: 293 ----------GVSGAGGTVH--QPGFIVVETNYRLYAYTESELQIALIALFSEMLYRFPN 340
Query: 358 MVTGQLTRESVRNALLNGITAEQIIAYLETHAHPRMRRLAEENLSKKLELDPTVKETLQV 417
MV Q+TRESV+ A+ +GITA+QII +L T AHP M +K+T V
Sbjct: 341 MVVAQVTRESVQQAIASGITAQQIIHFLRTRAHPVM-----------------LKQT-PV 382
Query: 418 LPPTVVDQIRLWQLELDRIISYDGYLYTDFESYQEYQTVADYAKDIGVLLWQNEKKKMFF 477
LPPT+ DQIRLW+LE DR+ +G LY F S +++ + +A+++GVL+++N K++
Sbjct: 383 LPPTITDQIRLWELERDRLRFTEGVLYNQFLSQVDFELLLAHARELGVLVFENSAKRLMV 442
Query: 478 VSTEGNSQVLDFHRR 492
V+ G+S V F +R
Sbjct: 443 VTPAGHSDVKRFWKR 457
>CE25592 [KL] KOG3471 RNA polymerase II transcription initiation/nucleotide
excision repair factor TFIIH subunit TFB2
Length = 513
Score = 189 bits (479), Expect = 1e-47
Identities = 137/501 (27%), Positives = 246/501 (48%), Gaps = 42/501 (8%)
Query: 12 DYLEGLPEQVQSRLYESPATCLAIYRLLSPMAKFFIMSMLFQDHDVSLRDLDKWVKPDAK 71
D+L +P + + RL + P+ IYR+L P+A+ + ++++ + D+++
Sbjct: 25 DFLITIPPKTRQRLLQKPSCAFFIYRMLPPIAQQTTIQLIWKGSFPTASDVEE------T 78
Query: 72 YQLQYSIKSMKSLNLIIEGESKQPLLIRLNPIFKKSFKNVLTGGEINNSFGDVADDDTNP 131
+++ +K +K L L+ + L I + +K+S+ G S + ++ N
Sbjct: 79 KEIEDQVKLLKDLGLVHRQTTDGKLNIDTD--YKRSYMYAAMLGAAQISSLVLEPNEGNR 136
Query: 132 VSTATLDQYSAEKWETILHYMV--GTPNTNTPGGKVLDLLQHSGLMEEAEYGELKITNQG 189
+++ + E+W+ IL Y+ NT +L + + + +++IT G
Sbjct: 137 RGK-DVEKKAVERWDCILRYLALPSEENTQAVSETTRNLFKKANFTSGGDT-QIEITTFG 194
Query: 190 FQFLLQDVNAQMWTLLLQYLKMAESLQMDPVDVLNFIFMLGALQLGKAYK----CDQL-- 243
FQFLL QMWT +++YLK+ S D V+V+ + + L + +K C Q+
Sbjct: 195 FQFLLLSPVKQMWTYVIEYLKLEMSQGQDIVEVIEPLIQI-VLLANRGFKAERECYQIDA 253
Query: 244 --SNTQRTMLQDMRDYGLIYQNQSDYAKFYPTRLATLLTS-----DTKAFRSASVALDSV 296
+ Q +L +R+ G + Y K + + + + K S D V
Sbjct: 254 NWTEPQNELLNHLRELGKNWIKNYFYQKIFFFQKIKIFSFFGFLIPEKKNEHFSKRKDGV 313
Query: 297 LNKANETTAVE-GDSGQDETTERTQDGALIIETNFKLYSYSNSPLQIAILSLFVHLKSRF 355
T + ++ D + E+ +G +I+ETNF++Y+Y++S LQ+AI++LF + RF
Sbjct: 314 FFLTQLLTHLATNETIDDVSAEKVSNGKVIVETNFRVYAYTSSLLQLAIIALFTEMTYRF 373
Query: 356 ANMVTGQLTRESVRNALLNGITAEQIIAYLETHAHPRMRRLAEENLSKKLELDPTVKETL 415
+M G +TRESVR AL +GITA QII++L +AHP+ +
Sbjct: 374 QDMSVGMITRESVRGALQHGITAAQIISFLRANAHPQC---------------IATSGPV 418
Query: 416 QVLPPTVVDQIRLWQLELDRIISYDGYLYTDFESYQEYQTVADYAKDIGVLLWQNEKKKM 475
LP TV DQIRLW+ E R+ D Y+Y+ FES E+ V +YA+ +LLW + ++K+
Sbjct: 419 NCLPITVADQIRLWEDERRRMNLKDAYIYSHFESEDEFHGVCEYARQQNILLWSDNQQKL 478
Query: 476 FFVSTEGNSQVLDFHRRNFDK 496
V+ +G+ V +++R K
Sbjct: 479 VIVNEDGHELVRQWYKREKSK 499
>ECU01g0670 [KL] KOG3471 RNA polymerase II transcription initiation/nucleotide
excision repair factor TFIIH subunit TFB2
Length = 414
Score = 130 bits (326), Expect = 6e-30
Identities = 118/479 (24%), Positives = 208/479 (42%), Gaps = 87/479 (18%)
Query: 12 DYLEGLPEQVQSRLYESPATCLAIYRLLSPMAKFFIMSMLFQDHDVS-LRDLDKWVKPDA 70
+Y E LP +++LY +P ++ ++ F+ +L + H +S LR+++ +K
Sbjct: 17 EYFEMLPRHSKTQLYGAPIFAVSFLKVFDEKTTKFVFDLLLKSHSISSLREIEG-IKETL 75
Query: 71 KYQLQYSIKSMKSLNLIIEGESKQPLLIRLNPIFKKSFKNVLTGGEINNSFGDVADDDTN 130
K L+ + K N+ ++ ++ L+ +LT S G+ + D
Sbjct: 76 KILLRIQVIGKKGNNIYLDEGFRRSLMDGFC---------MLTMERHYRSIGEKVEMD-- 124
Query: 131 PVSTATLDQYSAEKWETILHYMVGTPNTNTPGGKVLDLLQHSGLMEEAEYGELKITNQGF 190
+ S+ K+E IL +V G V ++L GL+ + ITN+GF
Sbjct: 125 -------ESESSRKFEAILGSVVNRECRIEAFG-VSEVLMFGGLLGR----DRNITNRGF 172
Query: 191 QFLLQDVNAQMWTLLLQYLKMAESLQMDPVDVLNFIFMLGALQLGKAYKCDQLSNTQRTM 250
+FLL+ Q+W L+L LK + + VL +F L A +G Y+ Q+ R +
Sbjct: 173 EFLLKTKKEQLWCLVLLSLKYFLGSVEEEIAVLEALFELSARAVGTVYR--QVDQMDRRL 230
Query: 251 LQDMRDYGLIYQNQSDYAKFYPTRLATLLTSDTKAFRSASVALDSVLNKANETTAVEGDS 310
+ + G++ + Y LA + S + F
Sbjct: 231 FKYLEALGIL--------RLYEKGLA-IGRSFVQLF------------------------ 257
Query: 311 GQDETTERTQDGALIIETNFKLYSYSNSPLQIAILSLFVHLKSRFANMVTGQLTRESVRN 370
E +ER + +I+ETN K+Y+Y+NS + +++ LF ++ N++ G +T ESV
Sbjct: 258 ---EASERNRREFIIVETNNKIYAYTNSEYEKSVIHLFCNVTVNLPNLIKGIITEESVNV 314
Query: 371 ALLNGITAEQIIAYLETHAHPRMRRLAEENLSKKLELDPTVKETLQVLPPTVVDQIRLWQ 430
A GIT +QII +LE LPP + +QI +W+
Sbjct: 315 AFDKGITGKQIIHFLEASVRQGS------------------------LPPAIRNQIVIWE 350
Query: 431 LELDRIISYDGYLYTDFESYQEYQTVADYAKDIGVLLWQNEKKKMFFVSTEGNSQVLDF 489
+ +RI GYLY++F + +YQ V ++ L+ + K+M V EG+S V +F
Sbjct: 351 SKRNRIFMVPGYLYSNFLNLSDYQKVLEFCIRGNHLVESDVDKRMIVVKLEGHSLVKEF 409
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
0.318 0.134 0.378
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 28,595,396
Number of Sequences: 60738
Number of extensions: 1198707
Number of successful extensions: 3157
Number of sequences better than 1.0e-05: 6
Number of HSP's better than 0.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 3126
Number of HSP's gapped (non-prelim): 7
length of query: 496
length of database: 30,389,216
effective HSP length: 110
effective length of query: 386
effective length of database: 23,708,036
effective search space: 9151301896
effective search space used: 9151301896
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)