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= psy16399
(165 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2OKC|A Chain A, Crystal Structure Of Type I Restriction Enzyme Stysji M
Protein (np_813429.1) From Bacteroides Thetaiotaomicron
Vpi-5482 At 2.20 A Resolution
pdb|2OKC|B Chain B, Crystal Structure Of Type I Restriction Enzyme Stysji M
Protein (np_813429.1) From Bacteroides Thetaiotaomicron
Vpi-5482 At 2.20 A Resolution
Length = 445
Score = 31.2 bits (69), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 19/27 (70%), Gaps = 1/27 (3%)
Query: 101 CKECFFHAFELEIHHTIVTNKLFEKHH 127
KE +F+ + +I HT+ TNKL E+HH
Sbjct: 360 TKEIWFYDYRTDIKHTLATNKL-ERHH 385
>pdb|1B8P|A Chain A, Malate Dehydrogenase From Aquaspirillum Arcticum
pdb|1B8U|A Chain A, Malate Dehydrogenase From Aquaspirillum Arcticum
pdb|1B8V|A Chain A, Malate Dehydrogenase From Aquaspirillum Arcticum
Length = 329
Score = 30.8 bits (68), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 22/38 (57%)
Query: 128 RIAIAASGGKDSTVLAHVLKVLNEKYQYGLDLVLLSID 165
RIA GKD V+ +L++ NEK Q L V++ ID
Sbjct: 24 RIANGDMLGKDQPVILQLLEIPNEKAQKALQGVMMEID 61
>pdb|2JE8|A Chain A, Structure Of A Beta-Mannosidase From Bacteroides
Thetaiotaomicron
pdb|2JE8|B Chain B, Structure Of A Beta-Mannosidase From Bacteroides
Thetaiotaomicron
Length = 848
Score = 30.4 bits (67), Expect = 0.43, Method: Composition-based stats.
Identities = 19/67 (28%), Positives = 35/67 (52%), Gaps = 6/67 (8%)
Query: 38 KKLVYFSTECIFAPNAYRGHARTFLKHLEKIRPASIMDIIHSESKYIEKNP--ANFNRPK 95
+ L Y+ E F P Y+G + K ++ P+++ + S+ Y+ +P AN+ RP+
Sbjct: 442 EALKYWGFEKKFTPEVYQGLMHGYDKLFRELLPSTVKE-FDSDRFYVHSSPYLANWGRPE 500
Query: 96 ---TGDT 99
TGD+
Sbjct: 501 SWGTGDS 507
>pdb|2WBK|A Chain A, Structure Of The Michaelis Complex Of Beta-Mannosidase,
Man2a, Provides Insight Into The Conformational
Itinerary Of Mannoside Hydrolysis
pdb|2WBK|B Chain B, Structure Of The Michaelis Complex Of Beta-Mannosidase,
Man2a, Provides Insight Into The Conformational
Itinerary Of Mannoside Hydrolysis
Length = 847
Score = 30.4 bits (67), Expect = 0.44, Method: Composition-based stats.
Identities = 19/67 (28%), Positives = 35/67 (52%), Gaps = 6/67 (8%)
Query: 38 KKLVYFSTECIFAPNAYRGHARTFLKHLEKIRPASIMDIIHSESKYIEKNP--ANFNRPK 95
+ L Y+ E F P Y+G + K ++ P+++ + S+ Y+ +P AN+ RP+
Sbjct: 440 EALKYWGFEKKFTPEVYQGLMHGYDKLFRELLPSTVKE-FDSDRFYVHSSPYLANWGRPE 498
Query: 96 ---TGDT 99
TGD+
Sbjct: 499 SWGTGDS 505
>pdb|2VJX|A Chain A, Structural And Biochemical Evidence For A Boat-Like
Transition State In Beta-Mannosidases
pdb|2VJX|B Chain B, Structural And Biochemical Evidence For A Boat-Like
Transition State In Beta-Mannosidases
pdb|2VL4|A Chain A, Structural And Biochemical Evidence For A Boat-Like
Transition State In Beta-Mannosidases
pdb|2VL4|B Chain B, Structural And Biochemical Evidence For A Boat-Like
Transition State In Beta-Mannosidases
pdb|2VMF|A Chain A, Structural And Biochemical Evidence For A Boat-Like
Transition State In Beta-Mannosidases
pdb|2VMF|B Chain B, Structural And Biochemical Evidence For A Boat-Like
Transition State In Beta-Mannosidases
pdb|2VO5|A Chain A, Structural And Biochemical Evidence For A Boat-Like
Transition State In Beta-Mannosidases
pdb|2VO5|B Chain B, Structural And Biochemical Evidence For A Boat-Like
Transition State In Beta-Mannosidases
pdb|2VOT|A Chain A, Structural And Biochemical Evidence For A Boat-like
Transition State In Beta-mannosidases
pdb|2VOT|B Chain B, Structural And Biochemical Evidence For A Boat-like
Transition State In Beta-mannosidases
pdb|2VQT|A Chain A, Structural And Biochemical Evidence For A Boat-Like
Transition State In Beta-Mannosidases
pdb|2VQT|B Chain B, Structural And Biochemical Evidence For A Boat-Like
Transition State In Beta-Mannosidases
pdb|2VR4|A Chain A, Transition-state Mimicry In Mannoside Hydrolysis:
Characterisation Of Twenty Six Inhibitors And Insight
Into Binding From Linear Free Energy Relationships And
3-d Structure
pdb|2VR4|B Chain B, Transition-state Mimicry In Mannoside Hydrolysis:
Characterisation Of Twenty Six Inhibitors And Insight
Into Binding From Linear Free Energy Relationships And
3-d Structure
Length = 846
Score = 30.4 bits (67), Expect = 0.46, Method: Composition-based stats.
Identities = 19/67 (28%), Positives = 35/67 (52%), Gaps = 6/67 (8%)
Query: 38 KKLVYFSTECIFAPNAYRGHARTFLKHLEKIRPASIMDIIHSESKYIEKNP--ANFNRPK 95
+ L Y+ E F P Y+G + K ++ P+++ + S+ Y+ +P AN+ RP+
Sbjct: 440 EALKYWGFEKKFTPEVYQGLMHGYDKLFRELLPSTVKE-FDSDRFYVHSSPYLANWGRPE 498
Query: 96 ---TGDT 99
TGD+
Sbjct: 499 SWGTGDS 505
>pdb|2VQU|A Chain A, Structural And Biochemical Evidence For A Boat-Like
Transition State In Beta-Mannosidases
pdb|2VQU|B Chain B, Structural And Biochemical Evidence For A Boat-Like
Transition State In Beta-Mannosidases
Length = 846
Score = 30.4 bits (67), Expect = 0.46, Method: Composition-based stats.
Identities = 19/67 (28%), Positives = 35/67 (52%), Gaps = 6/67 (8%)
Query: 38 KKLVYFSTECIFAPNAYRGHARTFLKHLEKIRPASIMDIIHSESKYIEKNP--ANFNRPK 95
+ L Y+ E F P Y+G + K ++ P+++ + S+ Y+ +P AN+ RP+
Sbjct: 440 EALKYWGFEKKFTPEVYQGLMHGYDKLFRELLPSTVKE-FDSDRFYVHSSPYLANWGRPE 498
Query: 96 ---TGDT 99
TGD+
Sbjct: 499 SWGTGDS 505
>pdb|1WY5|A Chain A, Crystal Structure Of Isoluecyl-Trna Lysidine Synthetase
pdb|1WY5|B Chain B, Crystal Structure Of Isoluecyl-Trna Lysidine Synthetase
pdb|2E21|A Chain A, Crystal Structure Of Tils In A Complex With Amppnp From
Aquifex Aeolicus.
pdb|2E21|B Chain B, Crystal Structure Of Tils In A Complex With Amppnp From
Aquifex Aeolicus.
pdb|2E21|C Chain C, Crystal Structure Of Tils In A Complex With Amppnp From
Aquifex Aeolicus.
pdb|2E21|D Chain D, Crystal Structure Of Tils In A Complex With Amppnp From
Aquifex Aeolicus.
pdb|2E89|A Chain A, Crystal Structure Of Aquifex Aeolicus Tils In A Complex
With Atp, Magnesium Ion, And L-Lysine
pdb|2E89|C Chain C, Crystal Structure Of Aquifex Aeolicus Tils In A Complex
With Atp, Magnesium Ion, And L-Lysine
pdb|2E89|D Chain D, Crystal Structure Of Aquifex Aeolicus Tils In A Complex
With Atp, Magnesium Ion, And L-Lysine
pdb|2E89|B Chain B, Crystal Structure Of Aquifex Aeolicus Tils In A Complex
With Atp, Magnesium Ion, And L-Lysine
Length = 317
Score = 30.4 bits (67), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 14/26 (53%), Positives = 16/26 (61%)
Query: 121 KLFEKHHRIAIAASGGKDSTVLAHVL 146
K+F R+ IA SGG DS VL VL
Sbjct: 19 KIFSGERRVLIAFSGGVDSVVLTDVL 44
>pdb|1NI5|A Chain A, Structure Of The Mesj Pp-Atpase From Escherichia Coli
Length = 433
Score = 28.9 bits (63), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 18/31 (58%)
Query: 116 TIVTNKLFEKHHRIAIAASGGKDSTVLAHVL 146
T+ N+ +I +A SGG DSTVL H L
Sbjct: 3 TLTLNRQLLTSRQILVAFSGGLDSTVLLHQL 33
>pdb|3S1S|A Chain A, Characterization And Crystal Structure Of The Type Iig
Restriction Endonuclease Bpusi
Length = 878
Score = 27.3 bits (59), Expect = 3.7, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 24/45 (53%), Gaps = 1/45 (2%)
Query: 19 RCKPLKYAYEKEIVMYAYYKKLVYFSTE-CIFAPNAYRGHARTFL 62
+ K K+ KE + YK+ ++S+E +F P A R AR F+
Sbjct: 699 KSKQKKFEKSKEELKEILYKESDFYSSEHTVFIPRALRRSARAFI 743
>pdb|4F82|A Chain A, X-Ray Crystal Structure Of A Putative Thioredoxin
Reductase From Burkholderia Cenocepacia
pdb|4F82|B Chain B, X-Ray Crystal Structure Of A Putative Thioredoxin
Reductase From Burkholderia Cenocepacia
Length = 176
Score = 26.9 bits (58), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 20/39 (51%)
Query: 38 KKLVYFSTECIFAPNAYRGHARTFLKHLEKIRPASIMDI 76
K++V F F P H +++H E++R A I +I
Sbjct: 48 KRVVIFGLPGAFTPTCSAQHVPGYVEHAEQLRAAGIDEI 86
>pdb|1WS7|A Chain A, Crystal Structure Of Mavicyanin From Cucurbita Pepo
Medullosa (Zucchini)
pdb|1WS7|B Chain B, Crystal Structure Of Mavicyanin From Cucurbita Pepo
Medullosa (Zucchini)
pdb|1WS7|C Chain C, Crystal Structure Of Mavicyanin From Cucurbita Pepo
Medullosa (Zucchini)
pdb|1WS7|D Chain D, Crystal Structure Of Mavicyanin From Cucurbita Pepo
Medullosa (Zucchini)
pdb|1WS8|A Chain A, Crystal Structure Of Mavicyanin From Cucurbita Pepo
Medullosa (zucchini)
pdb|1WS8|B Chain B, Crystal Structure Of Mavicyanin From Cucurbita Pepo
Medullosa (zucchini)
pdb|1WS8|C Chain C, Crystal Structure Of Mavicyanin From Cucurbita Pepo
Medullosa (zucchini)
pdb|1WS8|D Chain D, Crystal Structure Of Mavicyanin From Cucurbita Pepo
Medullosa (zucchini)
Length = 109
Score = 26.6 bits (57), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 5 SPPPSFTTGADSIPRCKP 22
SP S+T+GADSIP +P
Sbjct: 62 SPAASYTSGADSIPLKRP 79
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
0.323 0.138 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,408,441
Number of Sequences: 62578
Number of extensions: 209914
Number of successful extensions: 339
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 332
Number of HSP's gapped (non-prelim): 13
length of query: 165
length of database: 14,973,337
effective HSP length: 91
effective length of query: 74
effective length of database: 9,278,739
effective search space: 686626686
effective search space used: 686626686
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 47 (22.7 bits)