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= 011206
(491 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3M66|A Chain A, Crystal Structure Of Human Mitochondrial Transcription
Termination Factor 3
Length = 270
Score = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 68/277 (24%), Positives = 132/277 (47%), Gaps = 27/277 (9%)
Query: 216 ERLEYLLSVGVKQRDVRRILLRQPQILEYTVENNLESHVAFLISLGIPNSKIGQIIAATP 275
E L+ L+ +GV + + +L E +++ + FL +GI ++++G +
Sbjct: 7 ETLQKLVLLGVDLSKIEKHPEAANLLLRLDFEKDIKQMLLFLKDVGIEDNQLGAFLTKNH 66
Query: 276 SLFSYSVENSLKPTVRYLVEEVGINEKSLGKVVQLSPQVL---VQRIDISWNTRCIFLSK 332
++FS +EN LK V YL + ++ + ++V+ +P +L V+R+D R F K
Sbjct: 67 AIFSEDLEN-LKTRVAYLHSK-NFSKADVAQMVRKAPFLLNFSVERLD----NRLGFFQK 120
Query: 333 ELGAPRDDVVKMVTKHPQLLHYSIDDGLLPRINFLRSIGMRNSDILKVLRSLTQVLSLSL 392
EL +V + P+LL S++ + +G ++++I ++ + ++L+ +
Sbjct: 121 ELELSVKKTRDLVVRLPRLLTGSLEPVKENMKVYRLELGFKHNEIQHMITRIPKMLTAN- 179
Query: 393 EDNLKPKYTYLINELHNEV----QSLTKYPMYLSLSLDQRIRPRHRFLVSLKKA---PKG 445
K K T + +HN + + K+P + L +++ RH FL L +A P
Sbjct: 180 ----KMKLTETFDFVHNVMSIPHHIIVKFPQVFNTRL-FKVKERHLFLTYLGRAQYDPAK 234
Query: 446 PFPLSL----FIPTDECFCQKWAGTTVDKYLAFRQKL 478
P +SL IP DE FC++ A +V + F + L
Sbjct: 235 PNYISLDKLVSIP-DEIFCEEIAKASVQDFEKFLKTL 270
>pdb|3OPG|A Chain A, Crystal Structure Of Human Mitochondrial Transcription
Termination Factor 3
Length = 298
Score = 56.6 bits (135), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 68/277 (24%), Positives = 132/277 (47%), Gaps = 27/277 (9%)
Query: 216 ERLEYLLSVGVKQRDVRRILLRQPQILEYTVENNLESHVAFLISLGIPNSKIGQIIAATP 275
E L+ L+ +GV + + +L E +++ + FL +GI ++++G +
Sbjct: 35 ETLQKLVLLGVDLSKIEKHPEAANLLLRLDFEKDIKQMLLFLKDVGIEDNQLGAFLTKNH 94
Query: 276 SLFSYSVENSLKPTVRYLVEEVGINEKSLGKVVQLSPQVL---VQRIDISWNTRCIFLSK 332
++FS +EN LK V YL + ++ + ++V+ +P +L V+R+D R F K
Sbjct: 95 AIFSEDLEN-LKTRVAYLHSK-NFSKADVAQMVRKAPFLLNFSVERLD----NRLGFFQK 148
Query: 333 ELGAPRDDVVKMVTKHPQLLHYSIDDGLLPRINFLRSIGMRNSDILKVLRSLTQVLSLSL 392
EL +V + P+LL S++ + +G ++++I ++ + ++L+ +
Sbjct: 149 ELELSVKKTRDLVVRLPRLLTGSLEPVKENMKVYRLELGFKHNEIQHMITRIPKMLTAN- 207
Query: 393 EDNLKPKYTYLINELHNEV----QSLTKYPMYLSLSLDQRIRPRHRFLVSLKKA---PKG 445
K K T + +HN + + K+P + L +++ RH FL L +A P
Sbjct: 208 ----KMKLTETFDFVHNVMSIPHHIIVKFPQVFNTRL-FKVKERHLFLTYLGRAQYDPAK 262
Query: 446 PFPLSL----FIPTDECFCQKWAGTTVDKYLAFRQKL 478
P +SL IP DE FC++ A +V + F + L
Sbjct: 263 PNYISLDKLVSIP-DEIFCEEIAKASVQDFEKFLKTL 298
>pdb|3MVB|O Chain O, Crystal Structure Of A Triple Rfy Mutant Of Human Mterf1
Bound To The Termination Sequence
Length = 343
Score = 38.1 bits (87), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 53/205 (25%), Positives = 88/205 (42%), Gaps = 11/205 (5%)
Query: 182 LLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLE-YLLSVGVKQRDVRRILLRQPQ 240
LL L T G+ I M + P + + + + L+ +LLS G + + I+ R P+
Sbjct: 22 LLKNLLTMGVD----IDMARKRQPGVFHRMITNEQDLKMFLLSKGASKEVIASIISRYPR 77
Query: 241 ILEYTVENNLESHVAFLISLGIPNSKIGQIIAATPSLFSYSVENSLKPTVRYLVEEVGIN 300
+ T E NL + + +I I+ A+P F S N + VG+
Sbjct: 78 AITRTPE-NLSKRWDLWRKIVTSDLEIVNILEASPESFFRSNNNLNLENNIKFLYSVGLT 136
Query: 301 EKSLGKVVQLSPQVLVQRIDISWNT----RCIFLSKELGAPRDDVVKMVTKHPQLLHYSI 356
K L +++ +P+ +D++ + LS P D V K++ K+P +L S
Sbjct: 137 RKCLCRLLTNAPRTFSNSLDLNKQMVEFLQAAGLSLGHNDPADFVRKIIFKNPAILIQST 196
Query: 357 DDGLLPRINFLRSIGMRNSDILKVL 381
+ I FLRS NS+ L VL
Sbjct: 197 KR-VKANIEFLRSTFNLNSEELLVL 220
>pdb|3N6S|A Chain A, Crystal Structure Of Human Mitochondrial Mterf In Complex
With A 15- Mer Dna Encompassing The Trnaleu(Uur) Binding
Sequence
Length = 353
Score = 35.0 bits (79), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 52/205 (25%), Positives = 87/205 (42%), Gaps = 11/205 (5%)
Query: 182 LLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLE-YLLSVGVKQRDVRRILLRQPQ 240
LL L T G+ I M + P + + + + L+ +LLS G + + I+ R P+
Sbjct: 23 LLKNLLTMGVD----IDMARKRQPGVFHRMITNEQDLKMFLLSKGASKEVIASIISRYPR 78
Query: 241 ILEYTVENNLESHVAFLISLGIPNSKIGQIIAATPSLFSYSVENSLKPTVRYLVEEVGIN 300
+ T E NL + + +I I+ +P F S N + VG+
Sbjct: 79 AITRTPE-NLSKRWDLWRKIVTSDLEIVNILERSPESFFRSNNNLNLENNIKFLYSVGLT 137
Query: 301 EKSLGKVVQLSPQVLVQRIDISWNT----RCIFLSKELGAPRDDVVKMVTKHPQLLHYSI 356
K L +++ +P+ +D++ + LS P D V K++ K+P +L S
Sbjct: 138 RKCLCRLLTNAPRTFSNSLDLNKQMVEFLQAAGLSLGHNDPADFVRKIIFKNPFILIQST 197
Query: 357 DDGLLPRINFLRSIGMRNSDILKVL 381
+ I FLRS NS+ L VL
Sbjct: 198 -KRVKANIEFLRSTFNLNSEELLVL 221
>pdb|3MVA|O Chain O, Crystal Structure Of Human Mterf1 Bound To The Termination
Sequence
Length = 343
Score = 34.7 bits (78), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 52/205 (25%), Positives = 87/205 (42%), Gaps = 11/205 (5%)
Query: 182 LLDYLSTFGLKESHFIQMYERHMPSLQINVCSARERLE-YLLSVGVKQRDVRRILLRQPQ 240
LL L T G+ I M + P + + + + L+ +LLS G + + I+ R P+
Sbjct: 22 LLKNLLTMGVD----IDMARKRQPGVFHRMITNEQDLKMFLLSKGASKEVIASIISRYPR 77
Query: 241 ILEYTVENNLESHVAFLISLGIPNSKIGQIIAATPSLFSYSVENSLKPTVRYLVEEVGIN 300
+ T E NL + + +I I+ +P F S N + VG+
Sbjct: 78 AITRTPE-NLSKRWDLWRKIVTSDLEIVNILERSPESFFRSNNNLNLENNIKFLYSVGLT 136
Query: 301 EKSLGKVVQLSPQVLVQRIDISWNT----RCIFLSKELGAPRDDVVKMVTKHPQLLHYSI 356
K L +++ +P+ +D++ + LS P D V K++ K+P +L S
Sbjct: 137 RKCLCRLLTNAPRTFSNSLDLNKQMVEFLQAAGLSLGHNDPADFVRKIIFKNPFILIQST 196
Query: 357 DDGLLPRINFLRSIGMRNSDILKVL 381
+ I FLRS NS+ L VL
Sbjct: 197 KR-VKANIEFLRSTFNLNSEELLVL 220
>pdb|3N7Q|A Chain A, Crystal Structure Of Human Mitochondrial Mterf Fragment
(Aa 99-399) In Complex With A 12-Mer Dna Encompassing
The Trnaleu(Uur) Binding Sequence
Length = 310
Score = 33.5 bits (75), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 43/168 (25%), Positives = 72/168 (42%), Gaps = 10/168 (5%)
Query: 220 YLLSVGVKQRDVRRILLRQPQILEYTVENNLESHVAFLISLGIPNSKIGQIIAATPSLFS 279
+LLS G + + I+ R P+ + T E NL + + +I I+ +P F
Sbjct: 15 FLLSKGASKEVIASIISRYPRAITRTPE-NLSKRWDLWRKIVTSDLEIVNILERSPESFF 73
Query: 280 YSVENSLKPTVRYLVEEVGINEKSLGKVVQLSPQVLVQRIDISWNTRCIFLSKELGA--- 336
S N + VG+ K L +++ +P+ +D+ N + + + G
Sbjct: 74 RSNNNLNLENNIKFLYSVGLTRKCLCRLLTNAPRTFSNSLDL--NKQMVEFLQAAGLSLG 131
Query: 337 ---PRDDVVKMVTKHPQLLHYSIDDGLLPRINFLRSIGMRNSDILKVL 381
P D V K++ K+P +L S + I FLRS NS+ L VL
Sbjct: 132 HNDPADFVRKIIFKNPFILIQSTKR-VKANIEFLRSTFNLNSEELLVL 178
>pdb|4IF8|A Chain A, Structure Of Vaspin
pdb|4IF8|B Chain B, Structure Of Vaspin
Length = 414
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 29/48 (60%), Gaps = 1/48 (2%)
Query: 393 EDNLKPKYTYLINELHNEVQSLTKYPMYLSLSLDQRIRPRHRFLVSLK 440
E +L + Y+I+EL + Q L K + +L +DQR++P+ +FL K
Sbjct: 109 EKDLHEGFHYIIHELTQKTQDL-KLSIGNTLFIDQRLQPQRKFLEDAK 155
>pdb|4FBE|A Chain A, Crystal Structure Of The C136aC164A VARIANT OF
MITOCHONDRIAL ISOFORM Of Glutaminyl Cyclase From
Drosophila Melanogaster
pdb|4FBE|B Chain B, Crystal Structure Of The C136aC164A VARIANT OF
MITOCHONDRIAL ISOFORM Of Glutaminyl Cyclase From
Drosophila Melanogaster
Length = 330
Score = 28.5 bits (62), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 20/29 (68%), Gaps = 1/29 (3%)
Query: 17 LHSHSLVQT-RPNTPRFVVLSTHSNAKIL 44
LH H+++ T PN R++VLS H ++K +
Sbjct: 91 LHFHNIIATLNPNAERYLVLSAHYDSKYM 119
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
0.320 0.136 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,925,418
Number of Sequences: 62578
Number of extensions: 503468
Number of successful extensions: 1332
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1312
Number of HSP's gapped (non-prelim): 21
length of query: 491
length of database: 14,973,337
effective HSP length: 103
effective length of query: 388
effective length of database: 8,527,803
effective search space: 3308787564
effective search space used: 3308787564
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)