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= 007966
(583 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 80.1 bits (196), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 96/392 (24%), Positives = 180/392 (45%), Gaps = 34/392 (8%)
Query: 49 KNLTIPHLVAIGVGSTIGAGVYILVGTVAREHSGPALALSFLIAGIASAFSAFCYAELAS 108
K L++ V++ VG IGA ++ + G V + +G L +F+++GI + A+ Y +L +
Sbjct: 6 KKLSLWEAVSMAVGVMIGASIFSIFG-VGAKIAGRNLPETFILSGIYALLVAYSYTKLGA 64
Query: 109 RCPSAGSAYHYSYICVGE----GVAWLIGWALILEYTIGGSAVARGISPNLAMLFGSADS 164
+ S + + +G+ G ++ W + Y I + A+G + L +
Sbjct: 65 KIVSNAGPIAFIHKAIGDNIITGALSILLW---MSYVISIALFAKGFAGYFLPLINA--- 118
Query: 165 LPFFMARQQIPGLGIIVDPCAAILVLIVTGLLCVGIKESTIAQAIVTTANVLAMLFVIIA 224
P I +GI V T L G K A+ + +L + I A
Sbjct: 119 -PINTFNIAITEIGI---------VAFFTALNFFGSKAVGRAEFFIVLVKLLILGLFIFA 168
Query: 225 GSYLGFKTGWSGYELPTGYFPFGVNGMLAGSATVFFAFIGFDAVASTAEEVKNPQRDLPL 284
G T Y +P P V+GM+ SA F +++GF + + +E ++NP++++P
Sbjct: 169 G----LITIHPSYVIPD-LAPSAVSGMIFASAIFFLSYMGFGVITNASEHIENPKKNVPR 223
Query: 285 GIGTALSICCALYMLVSIVIVGLVPYYEMDPDTPISSAFASHGM--HWASYVITIGAVTA 342
I ++ I +Y+ V+I +G +P E+ + + A A+ + +I+IGA+ +
Sbjct: 224 AIFISILIVMFVYVGVAISAIGNLPIDELIKASENALAVAAKPFLGNLGFLLISIGALFS 283
Query: 343 LCSTLMGSILPQPRILMAMARDGLLPPFFSDVNKTTQVPVKSTIVTGIVAAALAFFMDVS 402
+ S + +I + ++A+DG LP FF +V KST I +A F +
Sbjct: 284 ISSAMNATIYGGANVAYSLAKDGELPEFFER-----KVWFKSTEGLYITSALGVLFALLF 338
Query: 403 ALAGMVSVGTLLAFTMVAISVLILRYVPPDEV 434
+ G+ S+ T F ++ + V++ Y+ DEV
Sbjct: 339 NMEGVASI-TSAVFMVIYLFVILSHYILIDEV 369
>pdb|3GI8|C Chain C, Crystal Structure Of Apct K158a Transporter Bound To 7f11
Monoclonal Fab Fragment
Length = 444
Score = 79.0 bits (193), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 96/392 (24%), Positives = 180/392 (45%), Gaps = 34/392 (8%)
Query: 49 KNLTIPHLVAIGVGSTIGAGVYILVGTVAREHSGPALALSFLIAGIASAFSAFCYAELAS 108
K L++ V++ VG IGA ++ + G V + +G L +F+++GI + A+ Y +L +
Sbjct: 6 KKLSLWEAVSMAVGVMIGASIFSIFG-VGAKIAGRNLPETFILSGIYALLVAYSYTKLGA 64
Query: 109 RCPSAGSAYHYSYICVGE----GVAWLIGWALILEYTIGGSAVARGISPNLAMLFGSADS 164
+ S + + +G+ G ++ W + Y I + A+G + L +
Sbjct: 65 KIVSNAGPIAFIHKAIGDNIITGALSILLW---MSYVISIALFAKGFAGYFLPLINA--- 118
Query: 165 LPFFMARQQIPGLGIIVDPCAAILVLIVTGLLCVGIKESTIAQAIVTTANVLAMLFVIIA 224
P I +GI V T L G K A+ + +L + I A
Sbjct: 119 -PINTFNIAITEIGI---------VAFFTALNFFGSKAVGRAEFFIVLVALLILGLFIFA 168
Query: 225 GSYLGFKTGWSGYELPTGYFPFGVNGMLAGSATVFFAFIGFDAVASTAEEVKNPQRDLPL 284
G T Y +P P V+GM+ SA F +++GF + + +E ++NP++++P
Sbjct: 169 G----LITIHPSYVIPD-LAPSAVSGMIFASAIFFLSYMGFGVITNASEHIENPKKNVPR 223
Query: 285 GIGTALSICCALYMLVSIVIVGLVPYYEMDPDTPISSAFASHGM--HWASYVITIGAVTA 342
I ++ I +Y+ V+I +G +P E+ + + A A+ + +I+IGA+ +
Sbjct: 224 AIFISILIVMFVYVGVAISAIGNLPIDELIKASENALAVAAKPFLGNLGFLLISIGALFS 283
Query: 343 LCSTLMGSILPQPRILMAMARDGLLPPFFSDVNKTTQVPVKSTIVTGIVAAALAFFMDVS 402
+ S + +I + ++A+DG LP FF +V KST I +A F +
Sbjct: 284 ISSAMNATIYGGANVAYSLAKDGELPEFFER-----KVWFKSTEGLYITSALGVLFALLF 338
Query: 403 ALAGMVSVGTLLAFTMVAISVLILRYVPPDEV 434
+ G+ S+ T F ++ + V++ Y+ DEV
Sbjct: 339 NMEGVASI-TSAVFMVIYLFVILSHYILIDEV 369
>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 = 72.0 bits (175), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 88/343 (25%), Positives = 151/343 (44%), Gaps = 31/343 (9%)
Query: 62 GSTIGAGVYILVGTVAREHSGPALALSFLIAGIASAFSAFCYAELASRCPSAGSAYHYSY 121
G+ +G+GV++L +A +G +L+ I + + YA+++S PS G +Y Y+
Sbjct: 21 GNIMGSGVFLLPANLAA--TGGIAIYGWLVTIIGALALSMVYAKMSSLDPSPGGSYAYAR 78
Query: 122 ICVGEGVAWLIGWALILEYTIGGSAVARGISPNLAMLFGSADSLPFFMARQQIPGLGIIV 181
C G + + L IG N+AM+ L +F + P ++
Sbjct: 79 RCFGPFLGYQTNVLYWLACWIG----------NIAMVVIGVGYLSYFFPILKDPL--VLT 126
Query: 182 DPCAAILVLIVTGLLCVGIKESTIAQAIVTTANVLAMLFVIIAGSYLGFKTGWSGYELPT 241
C A+L + V L VG K T QA+ T VLA++ ++ + GW ++ T
Sbjct: 127 LTCVAVLWIFVL-LNIVGPKMITRVQAVAT---VLALVPIVGIAVF-----GWFWFKGET 177
Query: 242 GYFPFGVNGMLAGSA------TVFFAFIGFDAVASTAEEVKNPQRDLPLGIGTALSICCA 295
+ V+GM A ++FIG ++ + A VKNP+R++P+ + I
Sbjct: 178 YMAAWNVSGMNTFGAIQSTLNVTLWSFIGVESASVAAGVVKNPKRNVPIATIGGVLIAAV 237
Query: 296 LYMLVSIVIVGLVPYYEMD-PDTPISSAFASHGMHWASYVITIGAVTALCSTLMGSILPQ 354
Y+L + I+G++P + +P A A +++ A +L G L
Sbjct: 238 CYVLSTTAIMGMIPNAALRVSASPFGDAARMALGDTAGAIVSFCAAAGCLGSLGGWTLLA 297
Query: 355 PRILMAMARDGLLPPFFSDVNKTTQVPVKSTIVTGIVAAALAF 397
+ A A DGL PP F+ VNK PV ++ G++ F
Sbjct: 298 GQTAKAAADDGLFPPIFARVNK-AGTPVAGLLIVGVLMTIFQF 339
>pdb|3L1L|A Chain A, Structure Of Arg-Bound Escherichia Coli Adic
Length = 445
Score = 67.8 bits (164), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 86/337 (25%), Positives = 147/337 (43%), Gaps = 31/337 (9%)
Query: 62 GSTIGAGVYILVGTVAREHSGPALALSFLIAGIASAFSAFCYAELASRCPSAGSAYHYSY 121
G+ +G+GV++L +A +G +L+ I + + YA+++ PS G +Y Y+
Sbjct: 21 GAIMGSGVFLLPANLAS--TGGIAIYGWLVTIIGALGLSMVYAKMSFLDPSPGGSYAYAR 78
Query: 122 ICVGEGVAWLIGWALILEYTIGGSAVARGISPNLAMLFGSADSLPFFMARQQIPGLGIIV 181
C G + + L IG N+AM+ L +F + P ++
Sbjct: 79 RCFGPFLGYQTNVLYWLACWIG----------NIAMVVIGVGYLSYFFPILKDPW--VLT 126
Query: 182 DPCAAILVLIVTGLLCVGIKESTIAQAIVTTANVLAMLFVIIAGSYLGFKTGWSGYELPT 241
C +L + V L VG K T QA+ T VLA++ ++ + GW + T
Sbjct: 127 ITCVVVLWIFVL-LNIVGPKMITRVQAVAT---VLALIPIVGIAVF-----GWFWFRGET 177
Query: 242 GYFPFGVNGMLAGSA------TVFFAFIGFDAVASTAEEVKNPQRDLPLGIGTALSICCA 295
+ V+G+ A ++FIG ++ + A VKNP+R++P+ + I
Sbjct: 178 YMAAWNVSGLGTFGAIQSTLNVTLWSFIGVESASVAAGVVKNPKRNVPIATIGGVLIAAV 237
Query: 296 LYMLVSIVIVGLVPYYEMD-PDTPISSAFASHGMHWASYVITIGAVTALCSTLMGSILPQ 354
Y+L + I+G++P + +P A A +++ A +L G L
Sbjct: 238 CYVLSTTAIMGMIPNAALRVSASPFGDAARMALGDTAGAIVSFCAAAGCLGSLGGWTLLA 297
Query: 355 PRILMAMARDGLLPPFFSDVNKTTQVPVKSTIVTGIV 391
+ A A DGL PP F+ VNK PV I+ GI+
Sbjct: 298 GQTAKAAADDGLFPPIFARVNK-AGTPVAGLIIVGIL 333
>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 = 67.0 bits (162), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 86/337 (25%), Positives = 147/337 (43%), Gaps = 31/337 (9%)
Query: 62 GSTIGAGVYILVGTVAREHSGPALALSFLIAGIASAFSAFCYAELASRCPSAGSAYHYSY 121
G+ +G+GV++L +A +G +L+ I + + YA+++ PS G +Y Y+
Sbjct: 21 GNIMGSGVFLLPANLAS--TGGIAIYGWLVTIIGALGLSMVYAKMSFLDPSPGGSYAYAR 78
Query: 122 ICVGEGVAWLIGWALILEYTIGGSAVARGISPNLAMLFGSADSLPFFMARQQIPGLGIIV 181
C G + + L IG N+AM+ L +F + P ++
Sbjct: 79 RCFGPFLGYQTNVLYWLACWIG----------NIAMVVIGVGYLSYFFPILKDPL--VLT 126
Query: 182 DPCAAILVLIVTGLLCVGIKESTIAQAIVTTANVLAMLFVIIAGSYLGFKTGWSGYELPT 241
C +L + V L VG K T QA+ T VLA++ ++ + GW + T
Sbjct: 127 ITCVVVLWIFVL-LNIVGPKMITRVQAVAT---VLALIPIVGIAVF-----GWFWFRGET 177
Query: 242 GYFPFGVNGMLAGSA------TVFFAFIGFDAVASTAEEVKNPQRDLPLGIGTALSICCA 295
+ V+G+ A ++FIG ++ + A VKNP+R++P+ + I
Sbjct: 178 YMAAWNVSGLGTFGAIQSTLNVTLWSFIGVESASVAAGVVKNPKRNVPIATIGGVLIAAV 237
Query: 296 LYMLVSIVIVGLVPYYEMD-PDTPISSAFASHGMHWASYVITIGAVTALCSTLMGSILPQ 354
Y+L + I+G++P + +P A A +++ A +L G L
Sbjct: 238 CYVLSTTAIMGMIPNAALRVSASPFGDAARMALGDTAGAIVSFCAAAGCLGSLGGWTLLA 297
Query: 355 PRILMAMARDGLLPPFFSDVNKTTQVPVKSTIVTGIV 391
+ A A DGL PP F+ VNK PV I+ GI+
Sbjct: 298 GQTAKAAADDGLFPPIFARVNK-AGTPVAGLIIVGIL 333
>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 = 64.3 bits (155), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 85/337 (25%), Positives = 146/337 (43%), Gaps = 31/337 (9%)
Query: 62 GSTIGAGVYILVGTVAREHSGPALALSFLIAGIASAFSAFCYAELASRCPSAGSAYHYSY 121
G+ +G+GV++L +A +G +L+ I + + YA+++ PS G +Y Y+
Sbjct: 21 GNIMGSGVFLLPANLAS--TGGIAIYGWLVTIIGALGLSMVYAKMSFLDPSPGGSYAYAR 78
Query: 122 ICVGEGVAWLIGWALILEYTIGGSAVARGISPNLAMLFGSADSLPFFMARQQIPGLGIIV 181
C G + + L IG +AM+ L +F + P ++
Sbjct: 79 RCFGPFLGYQTNVLYWLACWIGA----------IAMVVIGVGYLSYFFPILKDPL--VLT 126
Query: 182 DPCAAILVLIVTGLLCVGIKESTIAQAIVTTANVLAMLFVIIAGSYLGFKTGWSGYELPT 241
C +L + V L VG K T QA+ T VLA++ ++ + GW + T
Sbjct: 127 ITCVVVLWIFVL-LNIVGPKMITRVQAVAT---VLALIPIVGIAVF-----GWFWFRGET 177
Query: 242 GYFPFGVNGMLAGSA------TVFFAFIGFDAVASTAEEVKNPQRDLPLGIGTALSICCA 295
+ V+G+ A ++FIG ++ + A VKNP+R++P+ + I
Sbjct: 178 YMAAWNVSGLGTFGAIQSTLNVTLWSFIGVESASVAAGVVKNPKRNVPIATIGGVLIAAV 237
Query: 296 LYMLVSIVIVGLVPYYEMD-PDTPISSAFASHGMHWASYVITIGAVTALCSTLMGSILPQ 354
Y+L + I+G++P + +P A A +++ A +L G L
Sbjct: 238 CYVLSTTAIMGMIPNAALRVSASPFGDAARMALGDTAGAIVSFCAAAGCLGSLGGWTLLA 297
Query: 355 PRILMAMARDGLLPPFFSDVNKTTQVPVKSTIVTGIV 391
+ A A DGL PP F+ VNK PV I+ GI+
Sbjct: 298 GQTAKAAADDGLFPPIFARVNK-AGTPVAGLIIVGIL 333
>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 = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 39/143 (27%), Positives = 63/143 (44%), Gaps = 11/143 (7%)
Query: 254 GSATVFFAFI----GFDAVASTAEEVKNPQRDLPLGIGTALSICCALYMLVSIVIVGLVP 309
G+ VF AFI G +A A+ E+ NP RD PL + + L + + I ++P
Sbjct: 202 GTLVVFVAFILSYMGVEASATHVNEMSNPGRDYPLAMLLLMVAAICLSSVGGLSIAMVIP 261
Query: 310 YYEMDPDTPISSAFA---SH---GMHWASYVITIGAVTALCSTLMGSILPQPRILMAMAR 363
E++ + F SH + W VI+ + + + + I+ R + A+
Sbjct: 262 GNEINLSAGVMQTFTVLMSHVAPEIEWTVRVISALLLLGVLAEIASWIVGPSRGMYVTAQ 321
Query: 364 DGLLPPFFSDVNKTTQVPVKSTI 386
LLP F+ +NK VPV I
Sbjct: 322 KNLLPAAFAKMNK-NGVPVTLVI 343
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
0.325 0.139 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,468,583
Number of Sequences: 62578
Number of extensions: 536821
Number of successful extensions: 1546
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 1522
Number of HSP's gapped (non-prelim): 21
length of query: 583
length of database: 14,973,337
effective HSP length: 104
effective length of query: 479
effective length of database: 8,465,225
effective search space: 4054842775
effective search space used: 4054842775
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (25.4 bits)