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= 048653
(124 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1N5B|A Chain A, Crystal Structure Of The Yersinia Enterocolitica Molecular
Chaperone Syce
pdb|1N5B|B Chain B, Crystal Structure Of The Yersinia Enterocolitica Molecular
Chaperone Syce
pdb|1N5B|C Chain C, Crystal Structure Of The Yersinia Enterocolitica Molecular
Chaperone Syce
pdb|1N5B|D Chain D, Crystal Structure Of The Yersinia Enterocolitica Molecular
Chaperone Syce
Length = 132
Score = 29.6 bits (65), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 34/67 (50%), Gaps = 3/67 (4%)
Query: 54 SCPGLLVSILGSAFEELALNVLEARVSCTDTFSLQAIGGKNEEQGETIDAH-VVKQALLQ 112
S P + ++G E A ++ E V F+L ++ NE+ ET+ +H + Q +L+
Sbjct: 18 SIPDTIEPVIGVKVGEFACHITEHPVGQILMFTLPSLDNNNEK--ETLLSHNIFSQDILK 75
Query: 113 VIRNWSE 119
I +W E
Sbjct: 76 PILSWDE 82
>pdb|1A2Z|A Chain A, Pyrrolidone Carboxyl Peptidase From Thermococcus Litoralis
pdb|1A2Z|B Chain B, Pyrrolidone Carboxyl Peptidase From Thermococcus Litoralis
pdb|1A2Z|C Chain C, Pyrrolidone Carboxyl Peptidase From Thermococcus Litoralis
pdb|1A2Z|D Chain D, Pyrrolidone Carboxyl Peptidase From Thermococcus Litoralis
Length = 220
Score = 29.3 bits (64), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 40/83 (48%), Gaps = 15/83 (18%)
Query: 31 VDASNYIEELKQKGFMINLFSKKSCPGLLVSILGSAFEELALNVLEARVSCTDTFSLQAI 90
++ Y+EE+K + +INL GL + E +A+N+++AR+ D + Q I
Sbjct: 51 IELKRYLEEIKPE-IVINL-------GLAPTYSNITVERIAVNIIDARIPDNDGY--QPI 100
Query: 91 GGKNEEQGETIDAHVVKQALLQV 113
K EE DA + A L V
Sbjct: 101 DEKIEE-----DAPLAYMATLPV 118
>pdb|3FVZ|A Chain A, Structure Of Peptidyl-Alpha-Hydroxyglycine Alpha-Amidating
Lyase (Pal)
pdb|3FW0|A Chain A, Structure Of Peptidyl-Alpha-Hydroxyglycine Alpha-Amidating
Lyase (Pal) Bound To Alpha-Hydroxyhippuric Acid (Non-
Peptidic Substrate)
Length = 329
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 10/36 (27%), Positives = 18/36 (50%)
Query: 32 DASNYIEELKQKGFMINLFSKKSCPGLLVSILGSAF 67
D ++ E+K F N+F+ PG L ++ G +
Sbjct: 226 DTKEFVREIKHASFGRNVFAISYIPGFLFAVNGKPY 261
>pdb|3TIV|A Chain A, Crystal Structure Of Subunit B Mutant N157a Of The A1ao
Atp Synthase
pdb|3TIV|B Chain B, Crystal Structure Of Subunit B Mutant N157a Of The A1ao
Atp Synthase
Length = 460
Score = 27.7 bits (60), Expect = 1.6, Method: Composition-based stats.
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 1/52 (1%)
Query: 22 HALSKTSIIVDASNYIEELKQKGFMIN-LFSKKSCPGLLVSILGSAFEELAL 72
H + I+ D +NY E L+Q G N + ++ PG + + L + +E +
Sbjct: 238 HGMHVLVILTDITNYAEALRQMGAARNEVPGRRGYPGYMYTDLATLYERAGI 289
>pdb|3TGW|A Chain A, Crystal Structure Of Subunit B Mutant H156a Of The A1ao
Atp Synthase
pdb|3TGW|B Chain B, Crystal Structure Of Subunit B Mutant H156a Of The A1ao
Atp Synthase
Length = 460
Score = 27.7 bits (60), Expect = 1.6, Method: Composition-based stats.
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 1/52 (1%)
Query: 22 HALSKTSIIVDASNYIEELKQKGFMIN-LFSKKSCPGLLVSILGSAFEELAL 72
H + I+ D +NY E L+Q G N + ++ PG + + L + +E +
Sbjct: 238 HGMHVLVILTDITNYAEALRQMGAARNEVPGRRGYPGYMYTDLATLYERAGI 289
>pdb|3SSA|A Chain A, Crystal Structure Of Subunit B Mutant N157t Of The A1ao
Atp Synthase
pdb|3SSA|B Chain B, Crystal Structure Of Subunit B Mutant N157t Of The A1ao
Atp Synthase
Length = 460
Score = 27.7 bits (60), Expect = 1.6, Method: Composition-based stats.
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 1/52 (1%)
Query: 22 HALSKTSIIVDASNYIEELKQKGFMIN-LFSKKSCPGLLVSILGSAFEELAL 72
H + I+ D +NY E L+Q G N + ++ PG + + L + +E +
Sbjct: 238 HGMHVLVILTDITNYAEALRQMGAARNEVPGRRGYPGYMYTDLATLYERAGI 289
>pdb|2RKW|A Chain A, Intermediate Position Of Atp On Its Trail To The Binding
Pocket Inside The Subunit B Mutant R416w Of The Energy
Converter A1ao Atp Synthase
pdb|2RKW|B Chain B, Intermediate Position Of Atp On Its Trail To The Binding
Pocket Inside The Subunit B Mutant R416w Of The Energy
Converter A1ao Atp Synthase
pdb|3B2Q|A Chain A, Intermediate Position Of Atp On Its Trail To The Binding
Pocket Inside The Subunit B Mutant R416w Of The Energy
Converter A1ao Atp Synthase
pdb|3B2Q|B Chain B, Intermediate Position Of Atp On Its Trail To The Binding
Pocket Inside The Subunit B Mutant R416w Of The Energy
Converter A1ao Atp Synthase
pdb|3EIU|A Chain A, A Second Transient Position Of Atp On Its Trail To The
Nucleotide- Binding Site Of Subunit B Of The Motor
Protein A1ao Atp Synthase
pdb|3EIU|B Chain B, A Second Transient Position Of Atp On Its Trail To The
Nucleotide- Binding Site Of Subunit B Of The Motor
Protein A1ao Atp Synthase
Length = 469
Score = 27.7 bits (60), Expect = 1.6, Method: Composition-based stats.
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 1/52 (1%)
Query: 22 HALSKTSIIVDASNYIEELKQKGFMIN-LFSKKSCPGLLVSILGSAFEELAL 72
H + I+ D +NY E L+Q G N + ++ PG + + L + +E +
Sbjct: 247 HGMHVLVILTDITNYAEALRQMGAARNEVPGRRGYPGYMYTDLATLYERAGI 298
>pdb|2C61|A Chain A, Crystal Structure Of The Non-Catalytic B Subunit Of A-Type
Atpase From M. Mazei Go1
pdb|2C61|B Chain B, Crystal Structure Of The Non-Catalytic B Subunit Of A-Type
Atpase From M. Mazei Go1
pdb|3DSR|A Chain A, Adp In Transition Binding Site In The Subunit B Of The
Energy Converter A1ao Atp Synthase
pdb|3DSR|B Chain B, Adp In Transition Binding Site In The Subunit B Of The
Energy Converter A1ao Atp Synthase
Length = 469
Score = 27.7 bits (60), Expect = 1.6, Method: Composition-based stats.
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 1/52 (1%)
Query: 22 HALSKTSIIVDASNYIEELKQKGFMIN-LFSKKSCPGLLVSILGSAFEELAL 72
H + I+ D +NY E L+Q G N + ++ PG + + L + +E +
Sbjct: 247 HGMHVLVILTDITNYAEALRQMGAARNEVPGRRGYPGYMYTDLATLYERAGI 298
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
0.314 0.128 0.344
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,125,438
Number of Sequences: 62578
Number of extensions: 102064
Number of successful extensions: 305
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 303
Number of HSP's gapped (non-prelim): 14
length of query: 124
length of database: 14,973,337
effective HSP length: 85
effective length of query: 39
effective length of database: 9,654,207
effective search space: 376514073
effective search space used: 376514073
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 45 (21.9 bits)