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= 026489
(238 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 181 AIESEKFQDDFLMEYNDTLLIAYLAMFTNCASTMNELVDKFNTA 224
A+E E+++ D L + DTL I +F N ++ L +K A
Sbjct: 220 AVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREA 263
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 28.5 bits (62), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 181 AIESEKFQDDFLMEYNDTLLIAYLAMFTNCASTMNELVDKFNTA 224
A+E E+++ D L + DTL I +F N ++ L +K A
Sbjct: 220 AVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREA 263
>pdb|2HXY|A Chain A, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|B Chain B, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|C Chain C, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|D Chain D, Crystal Structure Of Human Apo-Eif4aiii
Length = 391
Score = 28.5 bits (62), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 181 AIESEKFQDDFLMEYNDTLLIAYLAMFTNCASTMNELVDKFNTA 224
A+E E+++ D L + DTL I +F N ++ L +K A
Sbjct: 235 AVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREA 278
>pdb|2J0Q|A Chain A, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0Q|B Chain B, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0S|A Chain A, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 410
Score = 28.5 bits (62), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 181 AIESEKFQDDFLMEYNDTLLIAYLAMFTNCASTMNELVDKFNTA 224
A+E E+++ D L + DTL I +F N ++ L +K A
Sbjct: 256 AVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREA 299
>pdb|2VVN|A Chain A, Btgh84 In Complex With Nh-Butylthiazoline
pdb|2VVN|B Chain B, Btgh84 In Complex With Nh-Butylthiazoline
pdb|2VVS|A Chain A, Btgh84 Structure In Complex With Pugnac
pdb|2X0H|A Chain A, Btgh84 Michaelis Complex
pdb|2X0H|B Chain B, Btgh84 Michaelis Complex
pdb|4AIS|A Chain A, A Complex Structure Of Btgh84
pdb|4AIS|B Chain B, A Complex Structure Of Btgh84
Length = 737
Score = 28.5 bits (62), Expect = 3.5, Method: Composition-based stats.
Identities = 17/78 (21%), Positives = 36/78 (46%), Gaps = 2/78 (2%)
Query: 46 SIKLYLMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETVE 105
S + LM+ P+ V + P ++ Q L + E L ++EG + F+R ++ ++
Sbjct: 499 SADILLMNTENKPLIVEITPWVH--QFKLTAEMGEEVLKMVEGRNESYFLRKYNHVKALQ 556
Query: 106 AERISVDHVAHLKPSDGG 123
+ +D ++ P G
Sbjct: 557 QQMFYIDQTSNQNPYQPG 574
>pdb|2WZI|A Chain A, Btgh84 D243n In Complex With 5f-Oxazoline
pdb|2WZI|B Chain B, Btgh84 D243n In Complex With 5f-Oxazoline
Length = 737
Score = 28.5 bits (62), Expect = 3.5, Method: Composition-based stats.
Identities = 17/78 (21%), Positives = 36/78 (46%), Gaps = 2/78 (2%)
Query: 46 SIKLYLMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETVE 105
S + LM+ P+ V + P ++ Q L + E L ++EG + F+R ++ ++
Sbjct: 499 SADILLMNTENKPLIVEITPWVH--QFKLTAEMGEEVLKMVEGRNESYFLRKYNHVKALQ 556
Query: 106 AERISVDHVAHLKPSDGG 123
+ +D ++ P G
Sbjct: 557 QQMFYIDQTSNQNPYQPG 574
>pdb|2WZH|A Chain A, Btgh84 D242n In Complex With Meumb-Derived Oxazoline
pdb|4AIU|A Chain A, A Complex Structure Of Btgh84
Length = 737
Score = 28.5 bits (62), Expect = 3.5, Method: Composition-based stats.
Identities = 17/78 (21%), Positives = 36/78 (46%), Gaps = 2/78 (2%)
Query: 46 SIKLYLMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETVE 105
S + LM+ P+ V + P ++ Q L + E L ++EG + F+R ++ ++
Sbjct: 499 SADILLMNTENKPLIVEITPWVH--QFKLTAEMGEEVLKMVEGRNESYFLRKYNHVKALQ 556
Query: 106 AERISVDHVAHLKPSDGG 123
+ +D ++ P G
Sbjct: 557 QQMFYIDQTSNQNPYQPG 574
>pdb|2CHO|A Chain A, Bacteroides Thetaiotaomicron Hexosaminidase With O-
Glcnacase Activity
pdb|2CHO|B Chain B, Bacteroides Thetaiotaomicron Hexosaminidase With O-
Glcnacase Activity
Length = 716
Score = 28.5 bits (62), Expect = 3.5, Method: Composition-based stats.
Identities = 17/78 (21%), Positives = 36/78 (46%), Gaps = 2/78 (2%)
Query: 46 SIKLYLMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETVE 105
S + LM+ P+ V + P ++ Q L + E L ++EG + F+R ++ ++
Sbjct: 478 SADILLMNTENKPLIVEITPWVH--QFKLTAEMGEEVLKMVEGRNESYFLRKYNHVKALQ 535
Query: 106 AERISVDHVAHLKPSDGG 123
+ +D ++ P G
Sbjct: 536 QQMFYIDQTSNQNPYQPG 553
>pdb|2XB2|A Chain A, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
pdb|2XB2|X Chain X, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
Length = 411
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 181 AIESEKFQDDFLMEYNDTLLIAYLAMFTNCASTMNELVDKFNTA 224
A+E E+++ D L + DTL I +F N ++ L +K A
Sbjct: 257 AVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREA 300
>pdb|2HYI|C Chain C, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|I Chain I, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|3EX7|C Chain C, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|H Chain H, The Crystal Structure Of Ejc In Its Transition State
Length = 413
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 181 AIESEKFQDDFLMEYNDTLLIAYLAMFTNCASTMNELVDKFNTA 224
A+E E+++ D L + DTL I +F N ++ L +K A
Sbjct: 257 AVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREA 300
>pdb|2JIW|A Chain A, Bacteroides Thetaiotaomicron Gh84 O-glcnacase In Complex
With 2-acetylamino-2-deoxy-1-epivalienamine
pdb|2JIW|B Chain B, Bacteroides Thetaiotaomicron Gh84 O-glcnacase In Complex
With 2-acetylamino-2-deoxy-1-epivalienamine
Length = 716
Score = 28.5 bits (62), Expect = 3.5, Method: Composition-based stats.
Identities = 17/78 (21%), Positives = 36/78 (46%), Gaps = 2/78 (2%)
Query: 46 SIKLYLMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETVE 105
S + LM+ P+ V + P ++ Q L + E L ++EG + F+R ++ ++
Sbjct: 478 SADILLMNTENKPLIVEITPWVH--QFKLTAEMGEEVLKMVEGRNESYFLRKYNHVKALQ 535
Query: 106 AERISVDHVAHLKPSDGG 123
+ +D ++ P G
Sbjct: 536 QQMFYIDQTSNQNPYQPG 553
>pdb|2J4G|A Chain A, Bacteroides Thetaiotaomicron Gh84 O-Glcnacase In Complex
With N-Butyl-Thiazoline Inhibitor
pdb|2J4G|B Chain B, Bacteroides Thetaiotaomicron Gh84 O-Glcnacase In Complex
With N-Butyl-Thiazoline Inhibitor
Length = 715
Score = 28.5 bits (62), Expect = 3.5, Method: Composition-based stats.
Identities = 17/78 (21%), Positives = 36/78 (46%), Gaps = 2/78 (2%)
Query: 46 SIKLYLMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETVE 105
S + LM+ P+ V + P ++ Q L + E L ++EG + F+R ++ ++
Sbjct: 477 SADILLMNTENKPLIVEITPWVH--QFKLTAEMGEEVLKMVEGRNESYFLRKYNHVKALQ 534
Query: 106 AERISVDHVAHLKPSDGG 123
+ +D ++ P G
Sbjct: 535 QQMFYIDQTSNQNPYQPG 552
>pdb|2J47|A Chain A, Bacteroides Thetaiotaomicron Gh84 O-Glcnacase In Complex
With A Imidazole-Pugnac Hybrid Inhibitor
pdb|2W4X|A Chain A, Btgh84 In Complex With Stz
pdb|2W66|A Chain A, Btgh84 In Complex With Hq602
pdb|2W66|B Chain B, Btgh84 In Complex With Hq602
pdb|2W67|A Chain A, Btgh84 In Complex With Fma34
pdb|2W67|B Chain B, Btgh84 In Complex With Fma34
pdb|2WCA|A Chain A, Btgh84 In Complex With N-Butyl Pugnac
pdb|2XJ7|A Chain A, Btgh84 In Complex With 6-Acetamido-6-Deoxy-Castanospermine
pdb|2XJ7|B Chain B, Btgh84 In Complex With 6-Acetamido-6-Deoxy-Castanospermine
pdb|2XM1|A Chain A, Btgh84 In Complex With N-Acetyl Gluconolactam
pdb|2XM1|B Chain B, Btgh84 In Complex With N-Acetyl Gluconolactam
pdb|2XM2|A Chain A, Btgh84 In Complex With Lognac
pdb|2XM2|B Chain B, Btgh84 In Complex With Lognac
Length = 716
Score = 28.5 bits (62), Expect = 3.5, Method: Composition-based stats.
Identities = 17/78 (21%), Positives = 36/78 (46%), Gaps = 2/78 (2%)
Query: 46 SIKLYLMDINESPVYVLLNPSINPAQKDLPVTIFESELHVIEGIPQLIFVRSSYTIETVE 105
S + LM+ P+ V + P ++ Q L + E L ++EG + F+R ++ ++
Sbjct: 478 SADILLMNTENKPLIVEITPWVH--QFKLTAEMGEEVLKMVEGRNESYFLRKYNHVKALQ 535
Query: 106 AERISVDHVAHLKPSDGG 123
+ +D ++ P G
Sbjct: 536 QQMFYIDQTSNQNPYQPG 553
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 0.134 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,337,344
Number of Sequences: 62578
Number of extensions: 229293
Number of successful extensions: 416
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 408
Number of HSP's gapped (non-prelim): 14
length of query: 238
length of database: 14,973,337
effective HSP length: 96
effective length of query: 142
effective length of database: 8,965,849
effective search space: 1273150558
effective search space used: 1273150558
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: 50 (23.9 bits)