Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
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= Dr_sW_021_D15
(499 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|P29052|TF2B_DROME Transcription initiation factor IIB (G... 130 2e-30
sp|Q9NHP7|TF2B_DROVI Transcription initiation factor IIB (G... 130 2e-30
sp|O16991|TF2B_CAEEL Transcription initiation factor IIB (G... 124 1e-28
sp|P62916|TF2B_RAT Transcription initiation factor IIB (Gen... 121 1e-27
sp|Q00403|TF2B_HUMAN Transcription initiation factor IIB (G... 120 2e-27
sp|P29054|TF2B_XENLA Transcription initiation factor IIB (G... 119 4e-27
sp|O13749|TF2B_SCHPO Transcription initiation factor IIB (G... 86 6e-17
sp|Q05959|TF2B_KLULA Transcription initiation factor IIB (G... 80 3e-15
sp|O28970|TF2B_ARCFU Transcription initiation factor IIB (T... 78 1e-14
sp|O26971|TF2B_METTH Transcription initiation factor IIB (T... 77 3e-14
>sp|P29052|TF2B_DROME Transcription initiation factor IIB (General transcription factor
TFIIB)
Length = 315
Score = 130 bits (326), Expect = 2e-30
Identities = 67/133 (50%), Positives = 93/133 (69%), Gaps = 1/133 (0%)
Frame = +3
Query: 3 AVSNVSKKDIGKIFKKIVHILSTSVGNATGEDFMARFCYQLGIPKL-EKIAKEISKKALD 179
AVS +SKK+IG+ FK + L TSV T DFM RFC L +P + ++ A I+KKA++
Sbjct: 181 AVSKISKKEIGRCFKLTLKALETSVDLITTADFMCRFCANLDLPNMVQRAATHIAKKAVE 240
Query: 180 DNMVAGRSPVSIAAASIYMASLAMGIKKDKKDIGEVAGVAEGTLNVVYKLMRPHAEKLFP 359
++V GRSP+S+AAA+IYMAS A K+ +K+IG++AGVA+ T+ YKLM PHA KLFP
Sbjct: 241 MDIVPGRSPISVAAAAIYMASQASEHKRSQKEIGDIAGVADVTIRQSYKLMYPHAAKLFP 300
Query: 360 SNITPVVPLNQLP 398
+ P++QLP
Sbjct: 301 EDFKFTTPIDQLP 313
Score = 28.9 bits (63), Expect = 7.0
Identities = 18/71 (25%), Positives = 38/71 (53%), Gaps = 1/71 (1%)
Frame = +3
Query: 120 QLGIPK-LEKIAKEISKKALDDNMVAGRSPVSIAAASIYMASLAMGIKKDKKDIGEVAGV 296
++ +PK + A + K+ D + GRS + A+A +Y+A G+ + K+I V+ +
Sbjct: 126 RINLPKTIVDRANNLFKQVHDGKNLKGRSNDAKASACLYIACRQEGVPRTFKEICAVSKI 185
Query: 297 AEGTLNVVYKL 329
++ + +KL
Sbjct: 186 SKKEIGRCFKL 196
>sp|Q9NHP7|TF2B_DROVI Transcription initiation factor IIB (General transcription factor
TFIIB)
Length = 293
Score = 130 bits (326), Expect = 2e-30
Identities = 67/133 (50%), Positives = 93/133 (69%), Gaps = 1/133 (0%)
Frame = +3
Query: 3 AVSNVSKKDIGKIFKKIVHILSTSVGNATGEDFMARFCYQLGIPKL-EKIAKEISKKALD 179
AVS +SKK+IG+ FK + L TSV T DFM RFC L +P + ++ A I+KKA++
Sbjct: 159 AVSKISKKEIGRCFKLTLKALETSVDLITTADFMCRFCANLDLPNMVQRAATHIAKKAVE 218
Query: 180 DNMVAGRSPVSIAAASIYMASLAMGIKKDKKDIGEVAGVAEGTLNVVYKLMRPHAEKLFP 359
++V GRSP+S+AAA+IYMAS A K+ +K+IG++AGVA+ T+ YKLM PHA KLFP
Sbjct: 219 MDIVPGRSPISVAAAAIYMASQASEHKRSQKEIGDIAGVADVTIRQSYKLMYPHAAKLFP 278
Query: 360 SNITPVVPLNQLP 398
+ P++QLP
Sbjct: 279 EDFKFTTPIDQLP 291
Score = 28.5 bits (62), Expect = 9.2
Identities = 18/71 (25%), Positives = 38/71 (53%), Gaps = 1/71 (1%)
Frame = +3
Query: 120 QLGIPK-LEKIAKEISKKALDDNMVAGRSPVSIAAASIYMASLAMGIKKDKKDIGEVAGV 296
++ +PK + A + K+ D + GRS + A+A +Y+A G+ + K+I V+ +
Sbjct: 104 RINLPKTIVDRANTLFKQVHDGKNLKGRSNDAKASACLYIACRQEGVPRTFKEICAVSKI 163
Query: 297 AEGTLNVVYKL 329
++ + +KL
Sbjct: 164 SKKEIGRCFKL 174
>sp|O16991|TF2B_CAEEL Transcription initiation factor IIB (General transcription factor
TFIIB)
Length = 306
Score = 124 bits (311), Expect = 1e-28
Identities = 67/134 (50%), Positives = 92/134 (68%), Gaps = 1/134 (0%)
Frame = +3
Query: 3 AVSNVSKKDIGKIFKKIVHILSTSVGNATGEDFMARFCYQLGIPK-LEKIAKEISKKALD 179
AVS VSKK+IG+ FK IV L T++ T DFM+RFC L +P ++ A I+K A+D
Sbjct: 172 AVSRVSKKEIGRCFKIIVRSLETNLEQITSADFMSRFCGNLSLPNSIQAAATRIAKCAVD 231
Query: 180 DNMVAGRSPVSIAAASIYMASLAMGIKKDKKDIGEVAGVAEGTLNVVYKLMRPHAEKLFP 359
++VAGR+P+SIAAA+IYMAS A K+ K+IG+VAG AE T+ YKL+ P A +LFP
Sbjct: 232 MDLVAGRTPISIAAAAIYMASQASAEKRSAKEIGDVAGAAEITVRQTYKLLYPKALELFP 291
Query: 360 SNITPVVPLNQLPS 401
+ V P++ LP+
Sbjct: 292 KDFRFVTPIDALPN 305
Score = 29.6 bits (65), Expect = 4.1
Identities = 16/65 (24%), Positives = 35/65 (53%)
Frame = +3
Query: 138 LEKIAKEISKKALDDNMVAGRSPVSIAAASIYMASLAMGIKKDKKDIGEVAGVAEGTLNV 317
++ A I K L+ + G++ + AAA +Y+A G+ + K+I V+ V++ +
Sbjct: 124 IQDSASRIFKDVLESKALRGKNNEAQAAACLYIACRKDGVPRTFKEICAVSRVSKKEIGR 183
Query: 318 VYKLM 332
+K++
Sbjct: 184 CFKII 188
>sp|P62916|TF2B_RAT Transcription initiation factor IIB (General transcription factor
TFIIB) (RNA polymerase II alpha initiation factor)
sp|P62915|TF2B_MOUSE Transcription initiation factor IIB (General transcription factor
TFIIB) (RNA polymerase II alpha initiation factor)
Length = 316
Score = 121 bits (303), Expect = 1e-27
Identities = 64/133 (48%), Positives = 94/133 (70%), Gaps = 1/133 (0%)
Frame = +3
Query: 3 AVSNVSKKDIGKIFKKIVHILSTSVGNATGEDFMARFCYQLGIPK-LEKIAKEISKKALD 179
AVS +SKK+IG+ FK I+ L TSV T DFM+RFC L +PK ++ A I++KA++
Sbjct: 182 AVSRISKKEIGRCFKLILKALETSVDLITTGDFMSRFCSNLCLPKQVQMAATHIARKAVE 241
Query: 180 DNMVAGRSPVSIAAASIYMASLAMGIKKDKKDIGEVAGVAEGTLNVVYKLMRPHAEKLFP 359
++V GRSP+S+AAA+IYMAS A K+ +K+IG++AGVA+ T+ Y+L+ P A LFP
Sbjct: 242 LDLVPGRSPISVAAAAIYMASQASAEKRTQKEIGDIAGVADVTIRQSYRLIYPRAPDLFP 301
Query: 360 SNITPVVPLNQLP 398
S+ P+++LP
Sbjct: 302 SDFKFDTPVDKLP 314
Score = 28.9 bits (63), Expect = 7.0
Identities = 14/56 (25%), Positives = 32/56 (57%)
Frame = +3
Query: 165 KKALDDNMVAGRSPVSIAAASIYMASLAMGIKKDKKDIGEVAGVAEGTLNVVYKLM 332
K+ + + GR+ +IA+A +Y+A G+ + K+I V+ +++ + +KL+
Sbjct: 143 KQVYEQKSLKGRANDAIASACLYIACRQEGVPRTFKEICAVSRISKKEIGRCFKLI 198
>sp|Q00403|TF2B_HUMAN Transcription initiation factor IIB (General transcription factor
TFIIB) (S300-II)
sp|Q5R886|TF2B_PONPY Transcription initiation factor IIB (General transcription factor
TFIIB)
Length = 316
Score = 120 bits (300), Expect = 2e-27
Identities = 63/133 (47%), Positives = 94/133 (70%), Gaps = 1/133 (0%)
Frame = +3
Query: 3 AVSNVSKKDIGKIFKKIVHILSTSVGNATGEDFMARFCYQLGIPK-LEKIAKEISKKALD 179
AVS +SKK+IG+ FK I+ L TSV T DFM+RFC L +PK ++ A I++KA++
Sbjct: 182 AVSRISKKEIGRCFKLILKALETSVDLITTGDFMSRFCSNLCLPKQVQMAATHIARKAVE 241
Query: 180 DNMVAGRSPVSIAAASIYMASLAMGIKKDKKDIGEVAGVAEGTLNVVYKLMRPHAEKLFP 359
++V GRSP+S+AAA+IYMAS A K+ +K+IG++AGVA+ T+ Y+L+ P A LFP
Sbjct: 242 LDLVPGRSPISVAAAAIYMASQASAEKRTQKEIGDIAGVADVTIRQSYRLIYPRAPDLFP 301
Query: 360 SNITPVVPLNQLP 398
++ P+++LP
Sbjct: 302 TDFKFDTPVDKLP 314
Score = 28.9 bits (63), Expect = 7.0
Identities = 14/56 (25%), Positives = 32/56 (57%)
Frame = +3
Query: 165 KKALDDNMVAGRSPVSIAAASIYMASLAMGIKKDKKDIGEVAGVAEGTLNVVYKLM 332
K+ + + GR+ +IA+A +Y+A G+ + K+I V+ +++ + +KL+
Sbjct: 143 KQVYEQKSLKGRANDAIASACLYIACRQEGVPRTFKEICAVSRISKKEIGRCFKLI 198
>sp|P29054|TF2B_XENLA Transcription initiation factor IIB (General transcription factor
TFIIB)
Length = 316
Score = 119 bits (298), Expect = 4e-27
Identities = 62/133 (46%), Positives = 94/133 (70%), Gaps = 1/133 (0%)
Frame = +3
Query: 3 AVSNVSKKDIGKIFKKIVHILSTSVGNATGEDFMARFCYQLGIPK-LEKIAKEISKKALD 179
AVS +SKK+IG+ FK I+ L T+V T DFM+RFC LG+ K ++ A I++KA++
Sbjct: 182 AVSRISKKEIGRCFKLILKALETNVDLITTGDFMSRFCSNLGLTKQVQMAATHIARKAVE 241
Query: 180 DNMVAGRSPVSIAAASIYMASLAMGIKKDKKDIGEVAGVAEGTLNVVYKLMRPHAEKLFP 359
++V GRSP+S+AAA+IYMAS A K+ +K+IG++AGVA+ T+ Y+L+ P A LFP
Sbjct: 242 LDLVPGRSPISVAAAAIYMASQASAEKRTQKEIGDIAGVADVTIRQSYRLIYPRAPDLFP 301
Query: 360 SNITPVVPLNQLP 398
++ P+++LP
Sbjct: 302 ADFKFDTPVDKLP 314
Score = 30.0 bits (66), Expect = 3.2
Identities = 15/56 (26%), Positives = 32/56 (57%)
Frame = +3
Query: 165 KKALDDNMVAGRSPVSIAAASIYMASLAMGIKKDKKDIGEVAGVAEGTLNVVYKLM 332
K+ + + GRS +IA+A +Y+A G+ + K+I V+ +++ + +KL+
Sbjct: 143 KQVYEQKSLKGRSNDAIASACLYIACRQEGVPRTFKEICAVSRISKKEIGRCFKLI 198
>sp|O13749|TF2B_SCHPO Transcription initiation factor IIB (General transcription factor
TFIIB)
Length = 340
Score = 85.5 bits (210), Expect = 6e-17
Identities = 48/133 (36%), Positives = 77/133 (57%), Gaps = 18/133 (13%)
Frame = +3
Query: 6 VSNVSKKDIGKIFKKIVHILSTS-----------------VGNATGEDFMARFCYQLGIP 134
++NV KK+IG+++K + +L+ + + ED M RFC +L +P
Sbjct: 187 LTNVPKKEIGRVYKTLQRMLTEGGALHNSVDALKGHEYIQSSSTSAEDLMVRFCNRLMLP 246
Query: 135 -KLEKIAKEISKKALDDNMVAGRSPVSIAAASIYMASLAMGIKKDKKDIGEVAGVAEGTL 311
++ A E++++A +AGRSP+SIAA+ IYM S MG K K+I EV GV++ T+
Sbjct: 247 MSVQSAAAELARRAGLQGTLAGRSPISIAASGIYMISALMGYPKTPKEISEVTGVSDSTI 306
Query: 312 NVVYKLMRPHAEK 350
+ YKL+ HAE+
Sbjct: 307 RIAYKLL--HAER 317
Score = 33.9 bits (76), Expect = 0.22
Identities = 21/75 (28%), Positives = 38/75 (50%), Gaps = 1/75 (1%)
Frame = +3
Query: 114 CYQLGIPK-LEKIAKEISKKALDDNMVAGRSPVSIAAASIYMASLAMGIKKDKKDIGEVA 290
C + +PK + AK++ K+ D + G+S SI AA IY+A + + +I +
Sbjct: 129 CDAISLPKVIADTAKQLYKRVDDHKALKGKSSQSIIAACIYIACRQGKVPRTFMEICTLT 188
Query: 291 GVAEGTLNVVYKLMR 335
V + + VYK ++
Sbjct: 189 NVPKKEIGRVYKTLQ 203
>sp|Q05959|TF2B_KLULA Transcription initiation factor IIB (General transcription factor
TFIIB)
Length = 357
Score = 79.7 bits (195), Expect = 3e-15
Identities = 52/149 (34%), Positives = 81/149 (54%), Gaps = 17/149 (11%)
Frame = +3
Query: 3 AVSNVSKKDIGKIFKKIVHIL--------------STSVGNATGEDFMARFCYQLGIP-K 137
+++NV KK+IGK F I +IL + + G + E F+ RFC LG+ +
Sbjct: 198 SLTNVRKKEIGKTFTIIKNILREKNDRGFANIDTSNITTGQTSAETFIPRFCSHLGLSVQ 257
Query: 138 LEKIAKEISKKALDDNMVAGRSPVSIAAASIYMASLAMGIKKDKKDIGEVAGVAEGTLNV 317
+ A+ I+K + D N++AGRSP++IAAA+IYMA+L + I + V EGT+
Sbjct: 258 VANAAEYIAKHSKDVNVLAGRSPITIAAAAIYMATLLFKLNISPTRISQTLQVTEGTVKG 317
Query: 318 VYKLMRPHAEKLFPSNI--TPVVPLNQLP 398
YK + H EK+ + + VV + LP
Sbjct: 318 GYKALYEHKEKVVDPQLIESGVVKWDNLP 346
>sp|O28970|TF2B_ARCFU Transcription initiation factor IIB (TFIIB)
Length = 326
Score = 78.2 bits (191), Expect = 1e-14
Identities = 43/116 (37%), Positives = 73/116 (62%), Gaps = 1/116 (0%)
Frame = +3
Query: 9 SNVSKKDIGKIFKKIVHILSTSVGNATGEDFMARFCYQLGIP-KLEKIAKEISKKALDDN 185
S V +K+IG+ ++ I L + + D++ RFC LG+ +++K A EI KKA +
Sbjct: 208 SRVDRKEIGRTYRFITRELGLKLMPTSPADYIPRFCAALGLSGEVQKKAIEIIKKAEERE 267
Query: 186 MVAGRSPVSIAAASIYMASLAMGIKKDKKDIGEVAGVAEGTLNVVYKLMRPHAEKL 353
+ +GR P +AAA++Y+AS+ +G ++ ++++ EVAGV E T+ YK + AEKL
Sbjct: 268 LTSGRGPTGVAAAALYVASILLGERRTQREVAEVAGVTEVTIRNRYKEL---AEKL 320
>sp|O26971|TF2B_METTH Transcription initiation factor IIB (TFIIB)
Length = 310
Score = 76.6 bits (187), Expect = 3e-14
Identities = 38/108 (35%), Positives = 70/108 (64%), Gaps = 1/108 (0%)
Frame = +3
Query: 6 VSNVSKKDIGKIFKKIVHILSTSVGNATGEDFMARFCYQLGIP-KLEKIAKEISKKALDD 182
VS VSKK++G+ ++ + L+ + + D++ RF +LG+ +++ A EI + A+++
Sbjct: 191 VSRVSKKEVGRTYRFLTRELNIKLPPTSPVDYVPRFASELGLSGEVQSKAIEIIEMAMEN 250
Query: 183 NMVAGRSPVSIAAASIYMASLAMGIKKDKKDIGEVAGVAEGTLNVVYK 326
+ +GR P +AAA++Y+AS+ +G K ++D+ EVAGV E T+ YK
Sbjct: 251 GLTSGRGPTGVAAAALYIASVLLGEHKTQRDVAEVAGVTEVTIRNRYK 298
Score = 42.0 bits (97), Expect = 8e-04
Identities = 23/96 (23%), Positives = 50/96 (52%), Gaps = 1/96 (1%)
Frame = +3
Query: 120 QLGIPK-LEKIAKEISKKALDDNMVAGRSPVSIAAASIYMASLAMGIKKDKKDIGEVAGV 296
+LG+P+ + + A + ++A+++ ++ GRS + AAS+Y A + + +I EV+ V
Sbjct: 135 RLGLPRSVREAASMVYRRAVENKLIRGRSIEGVVAASLYAACRKCNVPRTLDEIAEVSRV 194
Query: 297 AEGTLNVVYKLMRPHAEKLFPSNITPVVPLNQLPSF 404
++ + Y+ + P P P++ +P F
Sbjct: 195 SKKEVGRTYRFLTRELNIKLP----PTSPVDYVPRF 226
Database: Non-redundant SwissProt sequences
Posted date: Dec 6, 2005 7:40 AM
Number of letters in database: 68,354,980
Number of sequences in database: 184,735
Database: swissprot.01
Posted date: Dec 6, 2005 8:18 AM
Number of letters in database: 66,202,850
Number of sequences in database: 184,431
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 52,627,914
Number of Sequences: 369166
Number of extensions: 949228
Number of successful extensions: 3204
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 3081
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 3172
length of database: 68,354,980
effective HSP length: 102
effective length of database: 49,512,010
effective search space used: 3119256630
frameshift window, decay const: 40, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)