BLASTP 2.2.26 [Sep-21-2011]
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.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 046187
(510 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1C9B|A Chain A, Crystal Structure Of A Human Tbp Core Domain-Human Tfiib
Core Domain Complex Bound To An Extended, Modified
Adenoviral Major Late Promoter (Admlp)
pdb|1C9B|E Chain E, Crystal Structure Of A Human Tbp Core Domain-Human Tfiib
Core Domain Complex Bound To An Extended, Modified
Adenoviral Major Late Promoter (Admlp)
pdb|1C9B|I Chain I, Crystal Structure Of A Human Tbp Core Domain-Human Tfiib
Core Domain Complex Bound To An Extended, Modified
Adenoviral Major Late Promoter (Admlp)
pdb|1C9B|M Chain M, Crystal Structure Of A Human Tbp Core Domain-Human Tfiib
Core Domain Complex Bound To An Extended, Modified
Adenoviral Major Late Promoter (Admlp)
pdb|1C9B|Q Chain Q, Crystal Structure Of A Human Tbp Core Domain-Human Tfiib
Core Domain Complex Bound To An Extended, Modified
Adenoviral Major Late Promoter (Admlp)
Length = 207
Score = 114 bits (286), Expect = 9e-26, Method: Compositional matrix adjust.
Identities = 66/200 (33%), Positives = 112/200 (56%), Gaps = 2/200 (1%)
Query: 133 LRAYLQIIDVASILGLDYDICDHAFQLFRDCCSATCLRNRSVEALATAALVQAIREAQEP 192
+ A+ +I +A + L +I D LF+ L+ R+ +A+A+A L A R+ P
Sbjct: 6 MNAFKEITTMADRINLPRNIVDRTNNLFKQVYEQKSLKGRANDAIASACLYIACRQEGVP 65
Query: 193 RTLQEISIAANVPQKEIGKYIKILGEALQLSQPINSNSIAVHMPRFCTLLQLNKSAQVLA 252
RT +EI + + +KEIG+ K++ +AL+ S ++ + M RFC+ L L K Q+ A
Sbjct: 66 RTFKEICAVSRISKKEIGRCFKLILKALETS--VDLITTGDFMSRFCSNLCLPKQVQMAA 123
Query: 253 THIGEVVINKCFCTRRNPISISAAAIYLACQLEDKRKTQAEICKVTGLTEVTLRKVYKEL 312
THI + R+PIS++AAAIY+A Q +++TQ EI + G+ +VT+R+ Y+ +
Sbjct: 124 THIARKAVELDLVPGRSPISVAAAAIYMASQASAEKRTQKEIGDIAGVADVTIRQSYRLI 183
Query: 313 LENWDDLLPSNYTPAVPPEK 332
DL P+++ P +K
Sbjct: 184 YPRAPDLFPTDFKFDTPVDK 203
>pdb|1TFB|A Chain A, Nmr Studies Of Human General Transcription Factor Tfiib:
Dynamics And Interaction With Vp16 Activation Domain, 20
Structures
Length = 208
Score = 114 bits (286), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 66/200 (33%), Positives = 112/200 (56%), Gaps = 2/200 (1%)
Query: 133 LRAYLQIIDVASILGLDYDICDHAFQLFRDCCSATCLRNRSVEALATAALVQAIREAQEP 192
+ A+ +I +A + L +I D LF+ L+ R+ +A+A+A L A R+ P
Sbjct: 7 MNAFKEITTMADRINLPRNIVDRTNNLFKQVYEQKSLKGRANDAIASACLYIACRQEGVP 66
Query: 193 RTLQEISIAANVPQKEIGKYIKILGEALQLSQPINSNSIAVHMPRFCTLLQLNKSAQVLA 252
RT +EI + + +KEIG+ K++ +AL+ S ++ + M RFC+ L L K Q+ A
Sbjct: 67 RTFKEICAVSRISKKEIGRCFKLILKALETS--VDLITTGDFMSRFCSNLCLPKQVQMAA 124
Query: 253 THIGEVVINKCFCTRRNPISISAAAIYLACQLEDKRKTQAEICKVTGLTEVTLRKVYKEL 312
THI + R+PIS++AAAIY+A Q +++TQ EI + G+ +VT+R+ Y+ +
Sbjct: 125 THIARKAVELDLVPGRSPISVAAAAIYMASQASAEKRTQKEIGDIAGVADVTIRQSYRLI 184
Query: 313 LENWDDLLPSNYTPAVPPEK 332
DL P+++ P +K
Sbjct: 185 YPRAPDLFPTDFKFDTPVDK 204
>pdb|2PHG|A Chain A, Model For Vp16 Binding To Tfiib
Length = 206
Score = 114 bits (286), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 66/200 (33%), Positives = 112/200 (56%), Gaps = 2/200 (1%)
Query: 133 LRAYLQIIDVASILGLDYDICDHAFQLFRDCCSATCLRNRSVEALATAALVQAIREAQEP 192
+ A+ +I +A + L +I D LF+ L+ R+ +A+A+A L A R+ P
Sbjct: 5 MNAFKEITTMADRINLPRNIVDRTNNLFKQVYEQKSLKGRANDAIASACLYIACRQEGVP 64
Query: 193 RTLQEISIAANVPQKEIGKYIKILGEALQLSQPINSNSIAVHMPRFCTLLQLNKSAQVLA 252
RT +EI + + +KEIG+ K++ +AL+ S ++ + M RFC+ L L K Q+ A
Sbjct: 65 RTFKEICAVSRISKKEIGRCFKLILKALETS--VDLITTGDFMSRFCSNLCLPKQVQMAA 122
Query: 253 THIGEVVINKCFCTRRNPISISAAAIYLACQLEDKRKTQAEICKVTGLTEVTLRKVYKEL 312
THI + R+PIS++AAAIY+A Q +++TQ EI + G+ +VT+R+ Y+ +
Sbjct: 123 THIARKAVELDLVPGRSPISVAAAAIYMASQASAEKRTQKEIGDIAGVADVTIRQSYRLI 182
Query: 313 LENWDDLLPSNYTPAVPPEK 332
DL P+++ P +K
Sbjct: 183 YPRAPDLFPTDFKFDTPVDK 202
>pdb|1VOL|A Chain A, Tfiib (Human Core Domain)TBP (A.THALIANA)TATA ELEMENT
Ternary Complex
Length = 204
Score = 113 bits (283), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 66/200 (33%), Positives = 111/200 (55%), Gaps = 2/200 (1%)
Query: 133 LRAYLQIIDVASILGLDYDICDHAFQLFRDCCSATCLRNRSVEALATAALVQAIREAQEP 192
+ A+ +I +A + L + D LFR L+ R+ +A+A+A L A R+ P
Sbjct: 3 MNAFKEITTMADRINLPRNKVDRTNNLFRQAYEQKSLKGRANDAIASACLYIACRQEGVP 62
Query: 193 RTLQEISIAANVPQKEIGKYIKILGEALQLSQPINSNSIAVHMPRFCTLLQLNKSAQVLA 252
RT +EI + + +KEIG+ K++ +AL+ S ++ + M RFC+ L L K Q+ A
Sbjct: 63 RTFKEICAVSRISKKEIGRCFKLILKALETS--VDLITTGDFMSRFCSNLCLPKQVQMAA 120
Query: 253 THIGEVVINKCFCTRRNPISISAAAIYLACQLEDKRKTQAEICKVTGLTEVTLRKVYKEL 312
THI + R+PIS++AAAIY+A Q +++TQ EI + G+ +VT+R+ Y+ +
Sbjct: 121 THIARKAVELDLVPGRSPISVAAAAIYMASQASAEKRTQKEIGDIAGVADVTIRQSYRLI 180
Query: 313 LENWDDLLPSNYTPAVPPEK 332
DL P+++ P +K
Sbjct: 181 YPRAPDLFPTDFKFDTPVDK 200
>pdb|1D3U|B Chain B, Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BBRE+TATA-
Box Complex From Pyrococcus Woesei
Length = 201
Score = 85.9 bits (211), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 55/182 (30%), Positives = 97/182 (53%), Gaps = 12/182 (6%)
Query: 146 LGLDYDICDHAFQLFRDCCSATCLRNRSVEALATAALVQAIREAQEPRTLQEISIAANVP 205
L L + + A +L+R+ +R RS+E++ A + A R + PRTL EI+ A V
Sbjct: 24 LKLPRHVEEEAARLYREAVRKGLIRGRSIESVMAACVYAACRLLKVPRTLDEIADIARVD 83
Query: 206 QKEIGKYIKILGEALQLS------QPINSNSIAVHMPRFCTLLQLNKSAQVLATHIGEVV 259
+KEIG+ + + L L+ +P + ++ +F L L++ + A I +
Sbjct: 84 KKEIGRSYRFIARNLNLTPKKLFVKPTD------YVNKFADELGLSEKVRRRAIEILDEA 137
Query: 260 INKCFCTRRNPISISAAAIYLACQLEDKRKTQAEICKVTGLTEVTLRKVYKELLENWDDL 319
+ + ++P + AAA+Y+A LE +++TQ E+ +V +TEVT+R YKEL+E
Sbjct: 138 YKRGLTSGKSPAGLVAAALYIASLLEGEKRTQREVAEVARVTEVTVRNRYKELVEKLKIK 197
Query: 320 LP 321
+P
Sbjct: 198 VP 199
>pdb|1AIS|B Chain B, Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BTATA-Box
Complex From Pyrococcus Woesei
Length = 200
Score = 85.9 bits (211), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 55/182 (30%), Positives = 97/182 (53%), Gaps = 12/182 (6%)
Query: 146 LGLDYDICDHAFQLFRDCCSATCLRNRSVEALATAALVQAIREAQEPRTLQEISIAANVP 205
L L + + A +L+R+ +R RS+E++ A + A R + PRTL EI+ A V
Sbjct: 23 LKLPRHVEEEAARLYREAVRKGLIRGRSIESVMAACVYAACRLLKVPRTLDEIADIARVD 82
Query: 206 QKEIGKYIKILGEALQLS------QPINSNSIAVHMPRFCTLLQLNKSAQVLATHIGEVV 259
+KEIG+ + + L L+ +P + ++ +F L L++ + A I +
Sbjct: 83 KKEIGRSYRFIARNLNLTPKKLFVKPTD------YVNKFADELGLSEKVRRRAIEILDEA 136
Query: 260 INKCFCTRRNPISISAAAIYLACQLEDKRKTQAEICKVTGLTEVTLRKVYKELLENWDDL 319
+ + ++P + AAA+Y+A LE +++TQ E+ +V +TEVT+R YKEL+E
Sbjct: 137 YKRGLTSGKSPAGLVAAALYIASLLEGEKRTQREVAEVARVTEVTVRNRYKELVEKLKIK 196
Query: 320 LP 321
+P
Sbjct: 197 VP 198
>pdb|3K7A|M Chain M, Crystal Structure Of An Rna Polymerase Ii-Tfiib Complex
pdb|4BBR|M Chain M, Structure Of Rna Polymerase Ii-tfiib Complex
pdb|4BBS|M Chain M, Structure Of An Initially Transcribing Rna Polymerase Ii-
Tfiib Complex
Length = 345
Score = 62.8 bits (151), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 49/181 (27%), Positives = 91/181 (50%), Gaps = 18/181 (9%)
Query: 154 DHAFQLFRDCCSATCLRNRSVEALATAALVQAIREAQEPRTLQEISIAANVPQKEIGKYI 213
D A + ++ C L+ +S+E++ A+++ R A+ RT +EI +V KE GK +
Sbjct: 148 DCAKEAYKLCHDEKTLKGKSMESIMAASILIGCRRAEVARTFKEIQSLIHVKTKEFGKTL 207
Query: 214 KILGEALQLSQ-----PINSNSIA-----VHMPRFCTLL----QLNKSAQVLATHIGEVV 259
I+ L+ I++++++ ++PRFC+ L Q+ SA+ A E+
Sbjct: 208 NIMKNILRGKSEDGFLKIDTDNMSGAQNLTYIPRFCSHLGLPMQVTTSAEYTAKKCKEIK 267
Query: 260 INKCFCTRRNPISISAAAIYLACQLEDKRKTQAEICKVTGLTEVTLRKVYKELLENWDDL 319
++PI+I+ +IYL L T A++ + +TE T++ YK L E+ D L
Sbjct: 268 ----EIAGKSPITIAVVSIYLNILLFQIPITAAKVGQTLQVTEGTIKSGYKILYEHRDKL 323
Query: 320 L 320
+
Sbjct: 324 V 324
>pdb|4DKC|A Chain A, Crystal Structure Of Human Interleukin-34
pdb|4DKC|B Chain B, Crystal Structure Of Human Interleukin-34
pdb|4DKE|A Chain A, Crystal Structure Of Human Interleukin-34 Bound To Fab1.1
pdb|4DKE|B Chain B, Crystal Structure Of Human Interleukin-34 Bound To Fab1.1
pdb|4DKF|A Chain A, Crystal Structure Of Human Interleukin-34 Bound To Fab2
pdb|4DKF|B Chain B, Crystal Structure Of Human Interleukin-34 Bound To Fab2
Length = 190
Score = 30.8 bits (68), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 23/51 (45%), Gaps = 2/51 (3%)
Query: 290 TQAEICKVTGLTEVTLRKVYKELLENWDDLLPSNYTPAVPPEKAFPTTTIT 340
TQ E C VTG L+ Y+ L+ P NY +VP E F +T
Sbjct: 13 TQNEECTVTGFLRDKLQ--YRSRLQYMKHYFPINYKISVPYEGVFRIANVT 61
>pdb|4DKD|A Chain A, Crystal Structure Of Human Interleukin-34 Bound To Human
Csf-1r
pdb|4DKD|B Chain B, Crystal Structure Of Human Interleukin-34 Bound To Human
Csf-1r
Length = 185
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 23/51 (45%), Gaps = 2/51 (3%)
Query: 290 TQAEICKVTGLTEVTLRKVYKELLENWDDLLPSNYTPAVPPEKAFPTTTIT 340
TQ E C VTG L+ Y+ L+ P NY +VP E F +T
Sbjct: 13 TQNEECTVTGFLRDKLQ--YRSRLQYMKHYFPINYKISVPYEGVFRIANVT 61
>pdb|1TT4|A Chain A, Structure Of Np459575, A Predicted Glutathione Synthase
From Salmonella Typhimurium
pdb|1TT4|B Chain B, Structure Of Np459575, A Predicted Glutathione Synthase
From Salmonella Typhimurium
Length = 396
Score = 30.0 bits (66), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 19/41 (46%)
Query: 459 TPVSTVTSLTWPFRPPPSMATASFQVVDPPKLQPGHIELKG 499
T + ++ L W RP P+ T +V+D P I + G
Sbjct: 239 TMIDSIKDLHWDIRPSPAFGTVEVRVMDTPLTLDHAINMAG 279
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.317 0.131 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,418,370
Number of Sequences: 62578
Number of extensions: 565636
Number of successful extensions: 1380
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 1360
Number of HSP's gapped (non-prelim): 20
length of query: 510
length of database: 14,973,337
effective HSP length: 103
effective length of query: 407
effective length of database: 8,527,803
effective search space: 3470815821
effective search space used: 3470815821
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)