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= psy8503
(421 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1PZD|A Chain A, Structural Identification Of A Conserved Appendage Domain
In The Carboxyl-terminus Of The Copi Gamma-subunit
Length = 322
Score = 59.7 bits (143), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 44/118 (37%), Positives = 58/118 (49%), Gaps = 15/118 (12%)
Query: 241 SIPSLERALHAYNLHPSPTPFDMSSIPLSTITTSDPTEMADRLRTPSGGVASEPTAQATA 300
SIP LERAL Y L PS PFD+ S+PL+T ++ R + A +P A
Sbjct: 2 SIPGLERALQQYTLEPSEKPFDLKSVPLATAPLAE-----QRTESTPVTAAKQPEKVAAT 56
Query: 301 RVESYYEKLSAALPEIANLPGTLFKSAA-PVRRD-------LRSVFHSYAVSMRRQLD 350
R E + E+L AA+PE L G LFKS+ PV +R H++ M Q D
Sbjct: 57 RQEIFQEQL-AAVPEFQGL-GPLFKSSPEPVALTESETEYVIRCTKHTFTDHMVFQFD 112
Score = 51.6 bits (122), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 35/108 (32%), Positives = 59/108 (54%), Gaps = 14/108 (12%)
Query: 318 NLPGTLFKSAAPVRRDLRSVFHSYAVSMRRQL-DVHSASGVG----------LEDLEISL 366
N PGT + A + D +V +++ M+ + D +G LEDLE+++
Sbjct: 149 NQPGTCYTLVALPKEDPTAVACTFSCVMKFTVKDCDPTTGEADDEGYEDEYVLEDLEVTI 208
Query: 367 SDQMAKVNKPNFLALWEEAETDESMNEMEDTFCLSKMESIQEAVASIL 414
+D + KV K NF A W+E DE + E+TF LS +++++EAV +I+
Sbjct: 209 ADHIQKVMKLNFEAAWDEV-GDEF--QKEETFTLSTIKTLEEAVGNIV 253
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/35 (62%), Positives = 27/35 (77%), Gaps = 2/35 (5%)
Query: 78 GVFRGGIDVLVRSKLAVSADTGVTMQLTVRSTSGL 112
GVFRGG D+LVRS+L + DT VTMQ+T RS+ L
Sbjct: 280 GVFRGGHDILVRSRLLL-LDT-VTMQVTARSSEEL 312
>pdb|1R4X|A Chain A, Crystal Structure Analys Of The Gamma-Copi Appendage
Domain
Length = 275
Score = 51.6 bits (122), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 36/108 (33%), Positives = 59/108 (54%), Gaps = 14/108 (12%)
Query: 318 NLPGTLFKSAAPVRRDLRSVFHSYAVSMRRQL-DVHSASG----------VGLEDLEISL 366
N PGT + A + D +V +++ M+ + D +G LEDLE+++
Sbjct: 102 NQPGTCYTLVALPKEDPTAVACTFSCMMKFTVKDCDPTTGETDDEGYEDEYVLEDLEVTV 161
Query: 367 SDQMAKVNKPNFLALWEEAETDESMNEMEDTFCLSKMESIQEAVASIL 414
+D + KV K NF A W+E DE E E+TF LS +++++EAV +I+
Sbjct: 162 ADHIQKVMKLNFEAAWDEV-GDEF--EKEETFTLSTIKTLEEAVGNIV 206
Score = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 21/31 (67%), Positives = 25/31 (80%), Gaps = 2/31 (6%)
Query: 78 GVFRGGIDVLVRSKLAVSADTGVTMQLTVRS 108
GVFRGG D+LVRS+L + DT VTMQ+T RS
Sbjct: 233 GVFRGGHDILVRSRLLL-LDT-VTMQVTARS 261
>pdb|3QAY|A Chain A, Catalytic Domain Of Cd27l Endolysin Targeting Clostridia
Difficile
pdb|3QAY|B Chain B, Catalytic Domain Of Cd27l Endolysin Targeting Clostridia
Difficile
pdb|3QAY|C Chain C, Catalytic Domain Of Cd27l Endolysin Targeting Clostridia
Difficile
pdb|3QAY|D Chain D, Catalytic Domain Of Cd27l Endolysin Targeting Clostridia
Difficile
Length = 180
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 23/49 (46%)
Query: 79 VFRGGIDVLVRSKLAVSADTGVTMQLTVRSTSGLEYKASIADTIITIIE 127
V GG D+L+ L S G ++ S GLEY I D + T+ +
Sbjct: 73 VNSGGYDLLIELHLNASNGQGKGSEVLYYSNKGLEYATRICDKLGTVFK 121
>pdb|3VR6|A Chain A, Crystal Structure Of Amp-pnp Bound Enterococcus Hirae
V1-atpase [bv1]
pdb|3VR6|B Chain B, Crystal Structure Of Amp-pnp Bound Enterococcus Hirae
V1-atpase [bv1]
pdb|3VR6|C Chain C, Crystal Structure Of Amp-pnp Bound Enterococcus Hirae
V1-atpase [bv1]
Length = 600
Score = 29.6 bits (65), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 20/36 (55%)
Query: 285 TPSGGVASEPTAQATARVESYYEKLSAALPEIANLP 320
+PSGG SEP Q T RV + L ++L + + P
Sbjct: 398 SPSGGDISEPVTQNTLRVVKVFWGLDSSLAQKRHFP 433
>pdb|1C3X|A Chain A, Purine Nucleoside Phosphorylase From Cellulomonas Sp. In
Complex With 8-Iodo-Guanine
pdb|1C3X|B Chain B, Purine Nucleoside Phosphorylase From Cellulomonas Sp. In
Complex With 8-Iodo-Guanine
pdb|1C3X|C Chain C, Purine Nucleoside Phosphorylase From Cellulomonas Sp. In
Complex With 8-Iodo-Guanine
pdb|1QE5|A Chain A, Purine Nucleoside Phosphorylase From Cellulomonas Sp. In
Complex With Phosphate
pdb|1QE5|B Chain B, Purine Nucleoside Phosphorylase From Cellulomonas Sp. In
Complex With Phosphate
pdb|1QE5|C Chain C, Purine Nucleoside Phosphorylase From Cellulomonas Sp. In
Complex With Phosphate
Length = 266
Score = 29.3 bits (64), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 41/94 (43%), Gaps = 4/94 (4%)
Query: 301 RVESYYEKLSAALPE--IANLPGTLFKSAAPVRRDLRSVFHSYAVSMRRQLDVHSASGVG 358
R+ ++ LPE A PG +++ A VR + + + V M L+ +A G
Sbjct: 162 RLRELAHRVDPTLPEGVYAQFPGPHYETPAEVR--MAGILGADLVGMSTTLEAIAARHCG 219
Query: 359 LEDLEISLSDQMAKVNKPNFLALWEEAETDESMN 392
LE L +SL +A P L+ E E ++
Sbjct: 220 LEVLGVSLVTNLAAGISPTPLSHAEVIEAGQAAG 253
>pdb|3R2T|A Chain A, 2.2 Angstrom Resolution Crystal Structure Of
Superantigen-Like Protein From Staphylococcus Aureus
Subsp. Aureus Nctc 8325.
pdb|3R2T|B Chain B, 2.2 Angstrom Resolution Crystal Structure Of
Superantigen-Like Protein From Staphylococcus Aureus
Subsp. Aureus Nctc 8325
Length = 249
Score = 29.3 bits (64), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 9/29 (31%), Positives = 20/29 (68%)
Query: 312 ALPEIANLPGTLFKSAAPVRRDLRSVFHS 340
A+PE+ +L G +F + +++++S+F S
Sbjct: 122 AVPELVDLDGRIFSVSGVTKKNVKSIFES 150
>pdb|3VR2|A Chain A, Crystal Structure Of Nucleotide-free A3b3 Complex From
Enterococcus Hirae V-atpase [ea3b3]
pdb|3VR2|B Chain B, Crystal Structure Of Nucleotide-free A3b3 Complex From
Enterococcus Hirae V-atpase [ea3b3]
pdb|3VR2|C Chain C, Crystal Structure Of Nucleotide-free A3b3 Complex From
Enterococcus Hirae V-atpase [ea3b3]
pdb|3VR3|A Chain A, Crystal Structure Of Amp-pnp Bound A3b3 Complex From
Enterococcus Hirae V-atpase [ba3b3]
pdb|3VR3|B Chain B, Crystal Structure Of Amp-pnp Bound A3b3 Complex From
Enterococcus Hirae V-atpase [ba3b3]
pdb|3VR3|C Chain C, Crystal Structure Of Amp-pnp Bound A3b3 Complex From
Enterococcus Hirae V-atpase [ba3b3]
pdb|3VR4|A Chain A, Crystal Structure Of Enterococcus Hirae V1-atpase [ev1]
pdb|3VR4|B Chain B, Crystal Structure Of Enterococcus Hirae V1-atpase [ev1]
pdb|3VR4|C Chain C, Crystal Structure Of Enterococcus Hirae V1-atpase [ev1]
pdb|3VR5|A Chain A, Crystal Structure Of Nucleotide-free Enterococcus Hirae
V1-atpase [ev1(l)]
pdb|3VR5|B Chain B, Crystal Structure Of Nucleotide-free Enterococcus Hirae
V1-atpase [ev1(l)]
pdb|3VR5|C Chain C, Crystal Structure Of Nucleotide-free Enterococcus Hirae
V1-atpase [ev1(l)]
Length = 600
Score = 29.3 bits (64), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 20/36 (55%)
Query: 285 TPSGGVASEPTAQATARVESYYEKLSAALPEIANLP 320
+PSGG SEP Q T RV + L ++L + + P
Sbjct: 398 SPSGGDISEPVTQNTLRVVKVFWGLDSSLAQKRHFP 433
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
0.318 0.131 0.367
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,470,491
Number of Sequences: 62578
Number of extensions: 382371
Number of successful extensions: 865
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 854
Number of HSP's gapped (non-prelim): 12
length of query: 421
length of database: 14,973,337
effective HSP length: 101
effective length of query: 320
effective length of database: 8,652,959
effective search space: 2768946880
effective search space used: 2768946880
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: 53 (25.0 bits)