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= 007861
(587 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3GI8|C Chain C, Crystal Structure Of Apct K158a Transporter Bound To 7f11
Monoclonal Fab Fragment
Length = 444
Score = 52.0 bits (123), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 55/248 (22%), Positives = 108/248 (43%), Gaps = 22/248 (8%)
Query: 95 VALQISGPSVFISYIIAGISALLSSLCYTEFSVQIPVAGGAFSYLRVTFGEFVGYFAGAN 154
V +I+G ++ ++I++GI ALL + YT+ +I G +++ G+ + A +
Sbjct: 32 VGAKIAGRNLPETFILSGIYALLVAYSYTKLGAKIVSNAGPIAFIHKAIGDNIITGALSI 91
Query: 155 IL-MEYVLSNAAVARSFTDYLCHAVGENDP-NSWRVEVD--GLFKGYNMLDFPXXXXXXX 210
+L M YV+S A A+ F Y + N P N++ + + G+ + L+F
Sbjct: 92 LLWMSYVISIALFAKGFAGYFLPLI--NAPINTFNIAITEIGIVAFFTALNF-------- 141
Query: 211 XXXXXXHGTKESSILNLIMTXXXXXXXXXXXXXXXCNGSVQNLVKPGGLAPFGVKGIVDG 270
G+K + ++ LAP V G++
Sbjct: 142 ------FGSKAVGRAEFFIVLVALLILGLFIFAGLITIHPSYVIPD--LAPSAVSGMIFA 193
Query: 271 AATVYFSYIGYDSVSTLAEEIQNPSKSLPLGIVGSVLIVXXXXXXXXXXXXXMVPYNKIL 330
+A + SY+G+ ++ +E I+NP K++P I S+LIV +P ++++
Sbjct: 194 SAIFFLSYMGFGVITNASEHIENPKKNVPRAIFISILIVMFVYVGVAISAIGNLPIDELI 253
Query: 331 KDASFSMA 338
K + ++A
Sbjct: 254 KASENALA 261
>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 = 52.0 bits (123), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 55/248 (22%), Positives = 108/248 (43%), Gaps = 22/248 (8%)
Query: 95 VALQISGPSVFISYIIAGISALLSSLCYTEFSVQIPVAGGAFSYLRVTFGEFVGYFAGAN 154
V +I+G ++ ++I++GI ALL + YT+ +I G +++ G+ + A +
Sbjct: 32 VGAKIAGRNLPETFILSGIYALLVAYSYTKLGAKIVSNAGPIAFIHKAIGDNIITGALSI 91
Query: 155 IL-MEYVLSNAAVARSFTDYLCHAVGENDP-NSWRVEVD--GLFKGYNMLDFPXXXXXXX 210
+L M YV+S A A+ F Y + N P N++ + + G+ + L+F
Sbjct: 92 LLWMSYVISIALFAKGFAGYFLPLI--NAPINTFNIAITEIGIVAFFTALNF-------- 141
Query: 211 XXXXXXHGTKESSILNLIMTXXXXXXXXXXXXXXXCNGSVQNLVKPGGLAPFGVKGIVDG 270
G+K + ++ LAP V G++
Sbjct: 142 ------FGSKAVGRAEFFIVLVKLLILGLFIFAGLITIHPSYVIPD--LAPSAVSGMIFA 193
Query: 271 AATVYFSYIGYDSVSTLAEEIQNPSKSLPLGIVGSVLIVXXXXXXXXXXXXXMVPYNKIL 330
+A + SY+G+ ++ +E I+NP K++P I S+LIV +P ++++
Sbjct: 194 SAIFFLSYMGFGVITNASEHIENPKKNVPRAIFISILIVMFVYVGVAISAIGNLPIDELI 253
Query: 331 KDASFSMA 338
K + ++A
Sbjct: 254 KASENALA 261
>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 = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 44/189 (23%), Positives = 88/189 (46%), Gaps = 15/189 (7%)
Query: 277 SYIGYDSVSTLAEEIQNPSKSLPLGIVGSVLIVXXXXXXXXXXXXXMVPYNKILKDA--- 333
SY+G ++ +T E+ NP + PL ++ ++ ++P N+I A
Sbjct: 213 SYMGVEASATHVNEMSNPGRDYPLAMLLLMVAAICLSSVGGLSIAMVIPGNEINLSAGVM 272
Query: 334 -SFSMAFRNIG--WAWASNVVGAGASLGIVASLLVAMLGQARYLCVIGRARLVPTWLAKV 390
+F++ ++ W V+ A LG++A + ++G +R + V + L+P AK+
Sbjct: 273 QTFTVLMSHVAPEIEWTVRVISALLLLGVLAEIASWIVGPSRGMYVTAQKNLLPAAFAKM 332
Query: 391 HPSTGTPLNATLFLG-LCTASIALFTELNI-----VLEMISISTLLVFYLVANALIYRRY 444
+ G P+ TL + L SIAL N + +I+++ +V YL A +++ Y
Sbjct: 333 N-KNGVPV--TLVISQLVITSIALIILTNTGGGNNMSFLIALALTVVIYLCAYFMLFIGY 389
Query: 445 VMISNNPPS 453
+++ P
Sbjct: 390 IVLVLKHPD 398
>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 = 37.7 bits (86), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 36/132 (27%), Positives = 58/132 (43%), Gaps = 2/132 (1%)
Query: 276 FSYIGYDSVSTLAEEIQNPSKSLPLGIVGSVLIVXXXXXXXXXXXXXMVPYNKILKDAS- 334
+S+IG +S S A ++NP +++P+ +G VLI M+P + AS
Sbjct: 202 WSFIGVESASVAAGVVKNPKRNVPIATIGGVLIAAVCYVLSTTAIMGMIPNAALRVSASP 261
Query: 335 FSMAFRNIGWAWASNVVGAGASLGIVASLLVAMLGQARYLCVIGRARLVPTWLAKVHPST 394
F A R A +V A+ G + SL L + L P A+V+ +
Sbjct: 262 FGDAARMALGDTAGAIVSFCAAAGCLGSLGGWTLLAGQTAKAAADDGLFPPIFARVNKA- 320
Query: 395 GTPLNATLFLGL 406
GTP+ L +G+
Sbjct: 321 GTPVAGLLIVGV 332
Score = 35.8 bits (81), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 29/56 (51%)
Query: 94 PVALQISGPSVFISYIIAGISALLSSLCYTEFSVQIPVAGGAFSYLRVTFGEFVGY 149
P L +G +++ I AL S+ Y + S P GG+++Y R FG F+GY
Sbjct: 32 PANLAATGGIAIYGWLVTIIGALALSMVYAKMSSLDPSPGGSYAYARRCFGPFLGY 87
>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 = 37.0 bits (84), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 35/132 (26%), Positives = 58/132 (43%), Gaps = 2/132 (1%)
Query: 276 FSYIGYDSVSTLAEEIQNPSKSLPLGIVGSVLIVXXXXXXXXXXXXXMVPYNKILKDAS- 334
+S+IG +S S A ++NP +++P+ +G VLI M+P + AS
Sbjct: 202 WSFIGVESASVAAGVVKNPKRNVPIATIGGVLIAAVCYVLSTTAIMGMIPNAALRVSASP 261
Query: 335 FSMAFRNIGWAWASNVVGAGASLGIVASLLVAMLGQARYLCVIGRARLVPTWLAKVHPST 394
F A R A +V A+ G + SL L + L P A+V+ +
Sbjct: 262 FGDAARMALGDTAGAIVSFCAAAGCLGSLGGWTLLAGQTAKAAADDGLFPPIFARVNKA- 320
Query: 395 GTPLNATLFLGL 406
GTP+ + +G+
Sbjct: 321 GTPVAGLIIVGI 332
Score = 35.0 bits (79), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 29/56 (51%)
Query: 94 PVALQISGPSVFISYIIAGISALLSSLCYTEFSVQIPVAGGAFSYLRVTFGEFVGY 149
P L +G +++ I AL S+ Y + S P GG+++Y R FG F+GY
Sbjct: 32 PANLASTGGIAIYGWLVTIIGALGLSMVYAKMSFLDPSPGGSYAYARRCFGPFLGY 87
>pdb|3L1L|A Chain A, Structure Of Arg-Bound Escherichia Coli Adic
Length = 445
Score = 37.0 bits (84), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 35/132 (26%), Positives = 58/132 (43%), Gaps = 2/132 (1%)
Query: 276 FSYIGYDSVSTLAEEIQNPSKSLPLGIVGSVLIVXXXXXXXXXXXXXMVPYNKILKDAS- 334
+S+IG +S S A ++NP +++P+ +G VLI M+P + AS
Sbjct: 202 WSFIGVESASVAAGVVKNPKRNVPIATIGGVLIAAVCYVLSTTAIMGMIPNAALRVSASP 261
Query: 335 FSMAFRNIGWAWASNVVGAGASLGIVASLLVAMLGQARYLCVIGRARLVPTWLAKVHPST 394
F A R A +V A+ G + SL L + L P A+V+ +
Sbjct: 262 FGDAARMALGDTAGAIVSFCAAAGCLGSLGGWTLLAGQTAKAAADDGLFPPIFARVNKA- 320
Query: 395 GTPLNATLFLGL 406
GTP+ + +G+
Sbjct: 321 GTPVAGLIIVGI 332
Score = 35.0 bits (79), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 29/56 (51%)
Query: 94 PVALQISGPSVFISYIIAGISALLSSLCYTEFSVQIPVAGGAFSYLRVTFGEFVGY 149
P L +G +++ I AL S+ Y + S P GG+++Y R FG F+GY
Sbjct: 32 PANLASTGGIAIYGWLVTIIGALGLSMVYAKMSFLDPSPGGSYAYARRCFGPFLGY 87
>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 = 37.0 bits (84), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 35/132 (26%), Positives = 58/132 (43%), Gaps = 2/132 (1%)
Query: 276 FSYIGYDSVSTLAEEIQNPSKSLPLGIVGSVLIVXXXXXXXXXXXXXMVPYNKILKDAS- 334
+S+IG +S S A ++NP +++P+ +G VLI M+P + AS
Sbjct: 202 WSFIGVESASVAAGVVKNPKRNVPIATIGGVLIAAVCYVLSTTAIMGMIPNAALRVSASP 261
Query: 335 FSMAFRNIGWAWASNVVGAGASLGIVASLLVAMLGQARYLCVIGRARLVPTWLAKVHPST 394
F A R A +V A+ G + SL L + L P A+V+ +
Sbjct: 262 FGDAARMALGDTAGAIVSFCAAAGCLGSLGGWTLLAGQTAKAAADDGLFPPIFARVNKA- 320
Query: 395 GTPLNATLFLGL 406
GTP+ + +G+
Sbjct: 321 GTPVAGLIIVGI 332
Score = 34.7 bits (78), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 29/56 (51%)
Query: 94 PVALQISGPSVFISYIIAGISALLSSLCYTEFSVQIPVAGGAFSYLRVTFGEFVGY 149
P L +G +++ I AL S+ Y + S P GG+++Y R FG F+GY
Sbjct: 32 PANLASTGGIAIYGWLVTIIGALGLSMVYAKMSFLDPSPGGSYAYARRCFGPFLGY 87
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
0.323 0.136 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,231,809
Number of Sequences: 62578
Number of extensions: 496294
Number of successful extensions: 964
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 951
Number of HSP's gapped (non-prelim): 13
length of query: 587
length of database: 14,973,337
effective HSP length: 104
effective length of query: 483
effective length of database: 8,465,225
effective search space: 4088703675
effective search space used: 4088703675
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 54 (25.4 bits)