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= psy6086
(585 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1U7L|A Chain A, Crystal Structure Of Subunit C (Vma5p) Of The Yeast
V-Atpase
Length = 392
Score = 171 bits (433), Expect = 9e-43, Method: Compositional matrix adjust.
Identities = 99/304 (32%), Positives = 165/304 (54%), Gaps = 37/304 (12%)
Query: 304 ATNSLPFLSSDELGNYITQFQWDMAKYPIKQSLRNIADIINKQIGQIEADLKTKSSAYNN 363
A +LP +++ + Y+ FQW K+ + +S++++ +I+ + Q++AD++ + YN+
Sbjct: 96 AYRTLP-INNMPVPEYLENFQWQTRKFKLDKSIKDLITLISNESSQLDADVRATYANYNS 154
Query: 364 LKSNLQNMEKKQTGSLLTRNLADLVKKEHFILDSEYLTTLLVVVPRNQVTEWVQNYEKLT 423
K+NL E+K+TG L R+L D+VK E F+L+SE+LTT+LV VP++ +++ ++YE L+
Sbjct: 155 AKTNLAAAERKKTGDLSVRSLHDIVKPEDFVLNSEHLTTVLVAVPKSLKSDFEKSYETLS 214
Query: 424 AMIVPRSSQLVSQDQDFALYTVTLFKKVQDEFRHHAREKKYALNSFILPHSFG------- 476
+VP S+ ++++D ++ L+ V LFKK EF AREKK+ +P F
Sbjct: 215 KNVVPASASVIAEDAEYVLFNVHLFKKNVQEFTTAAREKKF------IPREFNYSEELID 268
Query: 477 ------------------PLVRWLKVNFSECFCAWIHVKALRVFVESVLRYGLPVNFQAM 518
LVR K + + F W H+KALRV+VESVLRYGLP +F
Sbjct: 269 QLKKEHDSAASLEQSLRVQLVRLAKTAYVDVFINWFHIKALRVYVESVLRYGLPPHFNIK 328
Query: 519 LLHPNKKNTKRLRDVLQQLYGHLDSSA-----QGGSQHHDSVEIPGLGFGQADYFPYVYY 573
++ KN + + L +G L +A +G D+ +Y P+V Y
Sbjct: 329 IIAVPPKNLSKCKSELIDAFGFLGGNAFMKDKKGKINKQDTSLHQYASLVDTEYEPFVMY 388
Query: 574 KINI 577
IN+
Sbjct: 389 IINL 392
Score = 149 bits (376), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 90/275 (32%), Positives = 155/275 (56%), Gaps = 32/275 (11%)
Query: 7 ISAPGDKTCQQTWENLNNVTSKQNNLSENYKFHIPDLKVGTLDQLVGLSDDLGKLDTFVD 66
++APG KT +W N + + +S+ F IP+ K+G+LD L+ S++L K+
Sbjct: 23 VTAPGSKT--DSWFN-ETLIGGRAFVSD---FKIPEFKIGSLDTLIVESEELSKV----- 71
Query: 67 SVTVGTLDQLVGLSDDLGKLDTFVDSVTHKVAVYLGEVLEDQRDKXXXXXXXXXXXXXXY 126
D +G S +GK+ + + + L + Y
Sbjct: 72 -------DNQIGAS--IGKI------------IEILQGLNETSTNAYRTLPINNMPVPEY 110
Query: 127 ITQFQWDMAKYPIKQSLRNIADIINKQIGQIEADLKTKSSAYNNLKSNLQNMEKKQTGSL 186
+ FQW K+ + +S++++ +I+ + Q++AD++ + YN+ K+NL E+K+TG L
Sbjct: 111 LENFQWQTRKFKLDKSIKDLITLISNESSQLDADVRATYANYNSAKTNLAAAERKKTGDL 170
Query: 187 LTRNLADLVKKEHFILDSEYLTTLLVVVPRNQVTEWVQNYEKLTAMIVPRSSQLVSQDQD 246
R+L D+VK E F+L+SE+LTT+LV VP++ +++ ++YE L+ +VP S+ ++++D +
Sbjct: 171 SVRSLHDIVKPEDFVLNSEHLTTVLVAVPKSLKSDFEKSYETLSKNVVPASASVIAEDAE 230
Query: 247 FALYTVTLFKKVQDEFRHHAREKKFIVREFVYNEE 281
+ L+ V LFKK EF AREKKFI REF Y+EE
Sbjct: 231 YVLFNVHLFKKNVQEFTTAAREKKFIPREFNYSEE 265
>pdb|4DL0|I Chain I, Crystal Structure Of The Heterotrimeric Egchead Peripheral
Stalk Complex Of The Yeast Vacuolar Atpase
pdb|4DL0|C Chain C, Crystal Structure Of The Heterotrimeric Egchead Peripheral
Stalk Complex Of The Yeast Vacuolar Atpase
pdb|4EFA|C Chain C, Crystal Structure Of The Heterotrimeric Egchead Peripheral
Stalk Complex Of The Yeast Vacuolar Atpase - Second
Conformation
Length = 130
Score = 107 bits (268), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 52/108 (48%), Positives = 78/108 (72%)
Query: 174 NLQNMEKKQTGSLLTRNLADLVKKEHFILDSEYLTTLLVVVPRNQVTEWVQNYEKLTAMI 233
NL E+K+TG L R+L D+VK E F+L+SE+LTT+LV VP++ +++ ++YE L+ +
Sbjct: 11 NLAAAERKKTGDLSVRSLHDIVKPEDFVLNSEHLTTVLVAVPKSLKSDFEKSYETLSKNV 70
Query: 234 VPRSSQLVSQDQDFALYTVTLFKKVQDEFRHHAREKKFIVREFVYNEE 281
VP S+ ++++D ++ L+ V LFKK EF AREKKFI REF Y+EE
Sbjct: 71 VPASASVIAEDAEYVLFNVHLFKKNVQEFTTAAREKKFIPREFNYSEE 118
Score = 94.0 bits (232), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 45/103 (43%), Positives = 71/103 (68%)
Query: 367 NLQNMEKKQTGSLLTRNLADLVKKEHFILDSEYLTTLLVVVPRNQVTEWVQNYEKLTAMI 426
NL E+K+TG L R+L D+VK E F+L+SE+LTT+LV VP++ +++ ++YE L+ +
Sbjct: 11 NLAAAERKKTGDLSVRSLHDIVKPEDFVLNSEHLTTVLVAVPKSLKSDFEKSYETLSKNV 70
Query: 427 VPRSSQLVSQDQDFALYTVTLFKKVQDEFRHHAREKKYALNSF 469
VP S+ ++++D ++ L+ V LFKK EF AREKK+ F
Sbjct: 71 VPASASVIAEDAEYVLFNVHLFKKNVQEFTTAAREKKFIPREF 113
>pdb|3IM9|A Chain A, Crystal Structure Of Mcat From Staphylococcus Aureus
Length = 316
Score = 29.6 bits (65), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 22/36 (61%), Gaps = 6/36 (16%)
Query: 307 SLPFLSS------DELGNYITQFQWDMAKYPIKQSL 336
S PF SS ++ +YI QF+W AK+P+ Q++
Sbjct: 203 SGPFHSSLMKVIEEDFSSYINQFEWRDAKFPVVQNV 238
>pdb|2OX7|A Chain A, Crystal Structure Of Protein Ef1440 From Enterococcus
Faecalis
pdb|2OX7|B Chain B, Crystal Structure Of Protein Ef1440 From Enterococcus
Faecalis
pdb|2OX7|C Chain C, Crystal Structure Of Protein Ef1440 From Enterococcus
Faecalis
pdb|2OX7|D Chain D, Crystal Structure Of Protein Ef1440 From Enterococcus
Faecalis
Length = 155
Score = 29.6 bits (65), Expect = 5.5, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 26/62 (41%), Gaps = 6/62 (9%)
Query: 274 REFVYNEEELAAGKNEITKLVTDKKKQFGYATNSLPFLSSDELGNYITQFQWDMAKYPIK 333
+E + N L N ++TD + P S E+G+Y T F WD Y I
Sbjct: 15 KEXLENVTPLFDDSNSXIAIITD------FQIKGSPGTSEIEIGSYDTTFNWDEFPYVIX 68
Query: 334 QS 335
QS
Sbjct: 69 QS 70
>pdb|2GA0|A Chain A, Variable Small Protein 1 Of Borrelia Turicatae (Vspa Or
Vsp1)
pdb|2GA0|B Chain B, Variable Small Protein 1 Of Borrelia Turicatae (Vspa Or
Vsp1)
pdb|2GA0|C Chain C, Variable Small Protein 1 Of Borrelia Turicatae (Vspa Or
Vsp1)
pdb|2GA0|D Chain D, Variable Small Protein 1 Of Borrelia Turicatae (Vspa Or
Vsp1)
pdb|2GA0|E Chain E, Variable Small Protein 1 Of Borrelia Turicatae (Vspa Or
Vsp1)
pdb|2GA0|F Chain F, Variable Small Protein 1 Of Borrelia Turicatae (Vspa Or
Vsp1)
pdb|2GA0|G Chain G, Variable Small Protein 1 Of Borrelia Turicatae (Vspa Or
Vsp1)
pdb|2GA0|H Chain H, Variable Small Protein 1 Of Borrelia Turicatae (Vspa Or
Vsp1)
Length = 181
Score = 28.9 bits (63), Expect = 7.4, Method: Composition-based stats.
Identities = 17/46 (36%), Positives = 26/46 (56%)
Query: 42 DLKVGTLDQLVGLSDDLGKLDTFVDSVTVGTLDQLVGLSDDLGKLD 87
D K+ +L++ VG+SDDL T V + + L + + DLGK D
Sbjct: 73 DTKLASLEKKVGISDDLKGKITTVKNASTSFLTKAKSKTADLGKDD 118
>pdb|1YJG|A Chain A, Variable Small Protein 1 Of Borrelia Turicatae (Vspa Or
Vsp1)
pdb|1YJG|B Chain B, Variable Small Protein 1 Of Borrelia Turicatae (Vspa Or
Vsp1)
pdb|1YJG|D Chain D, Variable Small Protein 1 Of Borrelia Turicatae (Vspa Or
Vsp1)
pdb|1YJG|E Chain E, Variable Small Protein 1 Of Borrelia Turicatae (Vspa Or
Vsp1)
Length = 158
Score = 28.9 bits (63), Expect = 7.6, Method: Composition-based stats.
Identities = 17/46 (36%), Positives = 26/46 (56%)
Query: 42 DLKVGTLDQLVGLSDDLGKLDTFVDSVTVGTLDQLVGLSDDLGKLD 87
D K+ +L++ VG+SDDL T V + + L + + DLGK D
Sbjct: 62 DTKLASLEKKVGISDDLKGKITTVKNASTSFLTKAKSKTADLGKDD 107
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 0.133 0.383
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,294,856
Number of Sequences: 62578
Number of extensions: 632116
Number of successful extensions: 1617
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1602
Number of HSP's gapped (non-prelim): 23
length of query: 585
length of database: 14,973,337
effective HSP length: 104
effective length of query: 481
effective length of database: 8,465,225
effective search space: 4071773225
effective search space used: 4071773225
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: 54 (25.4 bits)