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= 009714
(528 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3NCY|A Chain A, X-Ray Crystal Structure Of An Arginine Agmatine Antiporter
(Adic) In Complex With A Fab Fragment
pdb|3NCY|B Chain B, X-Ray Crystal Structure Of An Arginine Agmatine Antiporter
(Adic) In Complex With A Fab Fragment
pdb|3NCY|C Chain C, X-Ray Crystal Structure Of An Arginine Agmatine Antiporter
(Adic) In Complex With A Fab Fragment
pdb|3NCY|D Chain D, X-Ray Crystal Structure Of An Arginine Agmatine Antiporter
(Adic) In Complex With A Fab Fragment
Length = 445
Score = 52.8 bits (125), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 41/162 (25%), Positives = 69/162 (42%), Gaps = 2/162 (1%)
Query: 194 EVDVSNWSPFAPNGFKEILTGATVVFFAYVGFDAVANSAEESKKPQRDLPIGILGSLLIC 253
E ++ W+ N F I + V ++++G ++ + +A K P+R++PI +G +LI
Sbjct: 176 ETYMAAWNVSGMNTFGAIQSTLNVTLWSFIGVESASVAAGVVKNPKRNVPIATIGGVLIA 235
Query: 254 AALYVGVSLVLTGMVPYKFLDEDA-PLSDAFASRGLKYVSVLISFXXXXXXXXXXXXXXY 312
A YV + + GM+P L A P DA ++SF
Sbjct: 236 AVCYVLSTTAIMGMIPNAALRVSASPFGDAARMALGDTAGAIVSFCAAAGCLGSLGGWTL 295
Query: 313 VQSXXXXXXXXXXXXPSIFAKVHPKRHTPVHSQVWVGIVAGI 354
+ P IFA+V+ K TPV + VG++ I
Sbjct: 296 LAGQTAKAAADDGLFPPIFARVN-KAGTPVAGLLIVGVLMTI 336
>pdb|3OB6|A Chain A, Structure Of Adic(N101a) In The Open-To-Out Arg+ Bound
Conformation
pdb|3OB6|B Chain B, Structure Of Adic(N101a) In The Open-To-Out Arg+ Bound
Conformation
Length = 445
Score = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 41/162 (25%), Positives = 68/162 (41%), Gaps = 2/162 (1%)
Query: 194 EVDVSNWSPFAPNGFKEILTGATVVFFAYVGFDAVANSAEESKKPQRDLPIGILGSLLIC 253
E ++ W+ F I + V ++++G ++ + +A K P+R++PI +G +LI
Sbjct: 176 ETYMAAWNVSGLGTFGAIQSTLNVTLWSFIGVESASVAAGVVKNPKRNVPIATIGGVLIA 235
Query: 254 AALYVGVSLVLTGMVPYKFLDEDA-PLSDAFASRGLKYVSVLISFXXXXXXXXXXXXXXY 312
A YV + + GM+P L A P DA ++SF
Sbjct: 236 AVCYVLSTTAIMGMIPNAALRVSASPFGDAARMALGDTAGAIVSFCAAAGCLGSLGGWTL 295
Query: 313 VQSXXXXXXXXXXXXPSIFAKVHPKRHTPVHSQVWVGIVAGI 354
+ P IFA+V+ K TPV + VGI+ I
Sbjct: 296 LAGQTAKAAADDGLFPPIFARVN-KAGTPVAGLIIVGILMTI 336
>pdb|3LRB|A Chain A, Structure Of E. Coli Adic
pdb|3LRB|B Chain B, Structure Of E. Coli Adic
pdb|3LRC|A Chain A, Structure Of E. Coli Adic (P1)
pdb|3LRC|B Chain B, Structure Of E. Coli Adic (P1)
pdb|3LRC|C Chain C, Structure Of E. Coli Adic (P1)
pdb|3LRC|D Chain D, Structure Of E. Coli Adic (P1)
Length = 445
Score = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 41/162 (25%), Positives = 68/162 (41%), Gaps = 2/162 (1%)
Query: 194 EVDVSNWSPFAPNGFKEILTGATVVFFAYVGFDAVANSAEESKKPQRDLPIGILGSLLIC 253
E ++ W+ F I + V ++++G ++ + +A K P+R++PI +G +LI
Sbjct: 176 ETYMAAWNVSGLGTFGAIQSTLNVTLWSFIGVESASVAAGVVKNPKRNVPIATIGGVLIA 235
Query: 254 AALYVGVSLVLTGMVPYKFLDEDA-PLSDAFASRGLKYVSVLISFXXXXXXXXXXXXXXY 312
A YV + + GM+P L A P DA ++SF
Sbjct: 236 AVCYVLSTTAIMGMIPNAALRVSASPFGDAARMALGDTAGAIVSFCAAAGCLGSLGGWTL 295
Query: 313 VQSXXXXXXXXXXXXPSIFAKVHPKRHTPVHSQVWVGIVAGI 354
+ P IFA+V+ K TPV + VGI+ I
Sbjct: 296 LAGQTAKAAADDGLFPPIFARVN-KAGTPVAGLIIVGILMTI 336
>pdb|3L1L|A Chain A, Structure Of Arg-Bound Escherichia Coli Adic
Length = 445
Score = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 41/162 (25%), Positives = 68/162 (41%), Gaps = 2/162 (1%)
Query: 194 EVDVSNWSPFAPNGFKEILTGATVVFFAYVGFDAVANSAEESKKPQRDLPIGILGSLLIC 253
E ++ W+ F I + V ++++G ++ + +A K P+R++PI +G +LI
Sbjct: 176 ETYMAAWNVSGLGTFGAIQSTLNVTLWSFIGVESASVAAGVVKNPKRNVPIATIGGVLIA 235
Query: 254 AALYVGVSLVLTGMVPYKFLDEDA-PLSDAFASRGLKYVSVLISFXXXXXXXXXXXXXXY 312
A YV + + GM+P L A P DA ++SF
Sbjct: 236 AVCYVLSTTAIMGMIPNAALRVSASPFGDAARMALGDTAGAIVSFCAAAGCLGSLGGWTL 295
Query: 313 VQSXXXXXXXXXXXXPSIFAKVHPKRHTPVHSQVWVGIVAGI 354
+ P IFA+V+ K TPV + VGI+ I
Sbjct: 296 LAGQTAKAAADDGLFPPIFARVN-KAGTPVAGLIIVGILMTI 336
>pdb|3GI9|C Chain C, Crystal Structure Of Apct Transporter Bound To 7f11
Monoclonal Fab Fragment
pdb|3GIA|A Chain A, Crystal Structure Of Apct Transporter
Length = 444
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 51/94 (54%), Gaps = 4/94 (4%)
Query: 189 FAGAFEVDVSNWSP-FAPNGFKEILTGATVVFFAYVGFDAVANSAEESKKPQRDLPIGIL 247
FAG + S P AP+ ++ + + F +Y+GF + N++E + P++++P I
Sbjct: 167 FAGLITIHPSYVIPDLAPSAVSGMIFASAIFFLSYMGFGVITNASEHIENPKKNVPRAIF 226
Query: 248 GSLLICAALYVGVSLVLTGMVPYKFLDEDAPLSD 281
S+LI +YVGV++ G +P +DE S+
Sbjct: 227 ISILIVMFVYVGVAISAIGNLP---IDELIKASE 257
>pdb|3GI8|C Chain C, Crystal Structure Of Apct K158a Transporter Bound To 7f11
Monoclonal Fab Fragment
Length = 444
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 51/94 (54%), Gaps = 4/94 (4%)
Query: 189 FAGAFEVDVSNWSP-FAPNGFKEILTGATVVFFAYVGFDAVANSAEESKKPQRDLPIGIL 247
FAG + S P AP+ ++ + + F +Y+GF + N++E + P++++P I
Sbjct: 167 FAGLITIHPSYVIPDLAPSAVSGMIFASAIFFLSYMGFGVITNASEHIENPKKNVPRAIF 226
Query: 248 GSLLICAALYVGVSLVLTGMVPYKFLDEDAPLSD 281
S+LI +YVGV++ G +P +DE S+
Sbjct: 227 ISILIVMFVYVGVAISAIGNLP---IDELIKASE 257
>pdb|4DJI|A Chain A, Structure Of Glutamate-Gaba Antiporter Gadc
pdb|4DJI|B Chain B, Structure Of Glutamate-Gaba Antiporter Gadc
pdb|4DJK|A Chain A, Structure Of Glutamate-Gaba Antiporter Gadc
pdb|4DJK|B Chain B, Structure Of Glutamate-Gaba Antiporter Gadc
Length = 511
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 34/69 (49%), Gaps = 12/69 (17%)
Query: 192 AFEVDVSNWSPFAPNGFKEILTGATVVFFA----YVGFDAVANSAEESKKPQRDLPIGIL 247
A E+D + P F ++ G VVF A Y+G +A A E P RD P+ +L
Sbjct: 186 AIEMDSKTFFP----DFSKV--GTLVVFVAFILSYMGVEASATHVNEMSNPGRDYPLAML 239
Query: 248 GSLLICAAL 256
LL+ AA+
Sbjct: 240 --LLMVAAI 246
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
0.326 0.140 0.439
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,071,357
Number of Sequences: 62578
Number of extensions: 457171
Number of successful extensions: 932
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 922
Number of HSP's gapped (non-prelim): 16
length of query: 528
length of database: 14,973,337
effective HSP length: 103
effective length of query: 425
effective length of database: 8,527,803
effective search space: 3624316275
effective search space used: 3624316275
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 54 (25.4 bits)