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= psy13307
(286 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4D8B|A Chain A, High Resolution Structure Of Monomeric S. Progenies Speb
Reveals Role Of Glycine-Rich Active Site Loop
pdb|4D8E|A Chain A, High Resolution Structures Of Monomeric S. Pyogenes Speb
Reveals Role Of Glycine-Rich Active Site Loop
pdb|4D8I|A Chain A, High Resolution Structures Of Monomeric S. Pyogenes Speb
Reveals Role Of Glycine-rich Active Site Loop
Length = 261
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 28/71 (39%), Gaps = 4/71 (5%)
Query: 200 GSGKARKQAYNYLSVDGEEEKNINPIRRGWQGFKDGIRFTLSMLSPSNIKQKINEMQQMS 259
G GK A+ +DG + +N + GW G DG F L L+PS +
Sbjct: 188 GVGKVGGHAF---VIDGADGRNFYHVNWGWGGVSDGF-FRLDALNPSALGTGGGAGGFNG 243
Query: 260 IPQLVVGFFKL 270
VVG L
Sbjct: 244 YQSAVVGIKPL 254
>pdb|2UZJ|A Chain A, Crystal Structure Of The Mature Streptococcal Cysteine
Protease, Mspeb
pdb|2UZJ|B Chain B, Crystal Structure Of The Mature Streptococcal Cysteine
Protease, Mspeb
Length = 253
Score = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 27/68 (39%), Gaps = 4/68 (5%)
Query: 200 GSGKARKQAYNYLSVDGEEEKNINPIRRGWQGFKDGIRFTLSMLSPSNIKQKINEMQQMS 259
G GK A+ +DG + +N + GW G DG F L L+PS +
Sbjct: 188 GVGKVGGHAF---VIDGADGRNFYHVNWGWGGVSDGF-FRLDALNPSALGTGGGAGGFNG 243
Query: 260 IPQLVVGF 267
VVG
Sbjct: 244 YQSAVVGI 251
>pdb|2JTC|A Chain A, 3d Structure And Backbone Dynamics Of Spe B
Length = 253
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 27/68 (39%), Gaps = 4/68 (5%)
Query: 200 GSGKARKQAYNYLSVDGEEEKNINPIRRGWQGFKDGIRFTLSMLSPSNIKQKINEMQQMS 259
G GK A+ +DG + +N + GW G DG F L L+PS +
Sbjct: 188 GVGKVGGHAF---VIDGADGRNFYHVNWGWGGVSDGF-FRLDALNPSALGTGGGAGGFNG 243
Query: 260 IPQLVVGF 267
VVG
Sbjct: 244 YQSAVVGI 251
>pdb|1DKI|A Chain A, Crystal Structure Of The Zymogen Form Of Streptococcal
Pyrogenic Exotoxin B Active Site (C47s) Mutant
pdb|1DKI|B Chain B, Crystal Structure Of The Zymogen Form Of Streptococcal
Pyrogenic Exotoxin B Active Site (C47s) Mutant
pdb|1DKI|C Chain C, Crystal Structure Of The Zymogen Form Of Streptococcal
Pyrogenic Exotoxin B Active Site (C47s) Mutant
pdb|1DKI|D Chain D, Crystal Structure Of The Zymogen Form Of Streptococcal
Pyrogenic Exotoxin B Active Site (C47s) Mutant
Length = 371
Score = 28.9 bits (63), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 27/68 (39%), Gaps = 4/68 (5%)
Query: 200 GSGKARKQAYNYLSVDGEEEKNINPIRRGWQGFKDGIRFTLSMLSPSNIKQKINEMQQMS 259
G GK A+ +DG + +N + GW G DG F L L+PS +
Sbjct: 306 GVGKVGGHAF---VIDGADGRNFYHVNWGWGGVSDGF-FRLDALNPSALGTGGGAGGFNG 361
Query: 260 IPQLVVGF 267
VVG
Sbjct: 362 YQSAVVGI 369
>pdb|3BB7|A Chain A, Structure Of Prevotella Intermedia Prointerpain A Fragment
39-359 (Mutant C154a)
Length = 321
Score = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 1/52 (1%)
Query: 197 GGAGSGKARKQAYNYLSVDGEEEKNINPIRRGWQGFKDGIRFTLSMLSPSNI 248
GG G + A + +DG + + + GW G DG + + +L+P N+
Sbjct: 254 GGVSPGSMGQDAGHAFVIDGYNKAGLVSVNWGWNGDVDGY-YKIDLLNPGNM 304
>pdb|3BBA|A Chain A, Structure Of Active Wild-Type Prevotella Intermedia
Interpain A Cysteine Protease
pdb|3BBA|B Chain B, Structure Of Active Wild-Type Prevotella Intermedia
Interpain A Cysteine Protease
Length = 251
Score = 28.9 bits (63), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 1/52 (1%)
Query: 197 GGAGSGKARKQAYNYLSVDGEEEKNINPIRRGWQGFKDGIRFTLSMLSPSNI 248
GG G + A + +DG + + + GW G DG + + +L+P N+
Sbjct: 181 GGVSPGSMGQDAGHAFVIDGYNKAGLVSVNWGWNGDVDGY-YKIDLLNPGNM 231
>pdb|1PVJ|A Chain A, Crystal Structure Of The Streptococcal Pyrogenic Exotoxin
B (Speb)- Inhibitor Complex
pdb|1PVJ|B Chain B, Crystal Structure Of The Streptococcal Pyrogenic Exotoxin
B (Speb)- Inhibitor Complex
pdb|1PVJ|C Chain C, Crystal Structure Of The Streptococcal Pyrogenic Exotoxin
B (Speb)- Inhibitor Complex
pdb|1PVJ|D Chain D, Crystal Structure Of The Streptococcal Pyrogenic Exotoxin
B (Speb)- Inhibitor Complex
Length = 368
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 4/47 (8%)
Query: 200 GSGKARKQAYNYLSVDGEEEKNINPIRRGWQGFKDGIRFTLSMLSPS 246
G GK A+ +DG + +N + GW G DG F L L+PS
Sbjct: 303 GVGKVGGHAF---VIDGADGRNFYHVNWGWGGVSDGF-FRLDALNPS 345
>pdb|3CEQ|A Chain A, The Tpr Domain Of Human Kinesin Light Chain 2 (Hklc2)
pdb|3CEQ|B Chain B, The Tpr Domain Of Human Kinesin Light Chain 2 (Hklc2)
Length = 283
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 19/39 (48%)
Query: 81 NLAVLLTNLSEHMPNEPRLARFLETASSVLNYFHPFLGR 119
NLAVL ++ EP R LE VL FHP + +
Sbjct: 90 NLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAK 128
>pdb|3EDT|B Chain B, Crystal Structure Of The Mutated S328n Hklc2 Tpr Domain
pdb|3EDT|D Chain D, Crystal Structure Of The Mutated S328n Hklc2 Tpr Domain
pdb|3EDT|F Chain F, Crystal Structure Of The Mutated S328n Hklc2 Tpr Domain
pdb|3EDT|H Chain H, Crystal Structure Of The Mutated S328n Hklc2 Tpr Domain
Length = 283
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 19/39 (48%)
Query: 81 NLAVLLTNLSEHMPNEPRLARFLETASSVLNYFHPFLGR 119
NLAVL ++ EP R LE VL FHP + +
Sbjct: 90 NLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAK 128
>pdb|1RQ5|A Chain A, Structural Basis For The Exocellulase Activity Of The
Cellobiohydrolase Cbha From C. Thermocellum
Length = 610
Score = 28.1 bits (61), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 23/54 (42%), Gaps = 9/54 (16%)
Query: 103 LETASSVLNYFHPFLGRIEILGGSKRIERVYFEIKESNI---------EQWEKP 147
L T +S NY HPF R +I K +F K S I EQW +P
Sbjct: 81 LPTVNSPTNYSHPFDIRKDIYTQMKYDALAFFYHKRSGIPIEMPYAGGEQWTRP 134
>pdb|1UT9|A Chain A, Structural Basis For The Exocellulase Activity Of The
Cellobiohydrolase Cbha From C. Thermocellum
Length = 609
Score = 28.1 bits (61), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 23/54 (42%), Gaps = 9/54 (16%)
Query: 103 LETASSVLNYFHPFLGRIEILGGSKRIERVYFEIKESNI---------EQWEKP 147
L T +S NY HPF R +I K +F K S I EQW +P
Sbjct: 81 LPTVNSPTNYSHPFDIRKDIYTQMKYDALAFFYHKRSGIPIEMPYAGGEQWTRP 134
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
0.322 0.139 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,529,696
Number of Sequences: 62578
Number of extensions: 345801
Number of successful extensions: 824
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 822
Number of HSP's gapped (non-prelim): 17
length of query: 286
length of database: 14,973,337
effective HSP length: 98
effective length of query: 188
effective length of database: 8,840,693
effective search space: 1662050284
effective search space used: 1662050284
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: 51 (24.3 bits)