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= 012131
(470 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 = 61.6 bits (148), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 71/328 (21%), Positives = 125/328 (38%), Gaps = 18/328 (5%)
Query: 23 QKVSVIPLVFLIFYEVSGGPFGVEDSVMAAGPLLALIGFLFFPFIWSIPEALITAEMGTM 82
KV +IP+ ++ + G + + +AA +A+ G+L I ++ +++ A+M ++
Sbjct: 8 HKVGLIPVTLMVSGNIMGSGVFLLPANLAATGGIAIYGWLV-TIIGALALSMVYAKMSSL 66
Query: 83 FPENGGYVVWVASALGPHWGFQQGWMKWLSGVIDNALYPVLFLDYLKSAIPALEGGFPRI 142
P GG + GP G+Q + WL+ I N V+ + YL P L+
Sbjct: 67 DPSPGGSYAYARRCFGPFLGYQTNVLYWLACWIGNIAMVVIGVGYLSYFFPILKDPLVLT 126
Query: 143 XXXXXXXXXXXYMNYRGLTIVGWVAIVLGVFSLVPFALMGLIAIPRLKPWRWCMVDLKNV 202
+N G ++ V V V +LVP + + W W +
Sbjct: 127 LTCVAVLWIFVLLNIVGPKMITRVQAVATVLALVPIVGIAVFG------WFWFKGETYMA 180
Query: 203 NWGL-----------YLNTLFWNLNYWDSISTLVGEVEDPGKTLPRALFYALILVVFAYF 251
W + LN W+ +S S G V++P + +P A +++ Y
Sbjct: 181 AWNVSGMNTFGAIQSTLNVTLWSFIGVESASVAAGVVKNPKRNVPIATIGGVLIAAVCYV 240
Query: 252 FPLLIGTGAAPVHRELWSDGYFSVIAKLIGGVWLRTWIQGASAVSNMGMFIAEMSSDSFQ 311
G P S F A++ G + +A +G
Sbjct: 241 LSTTAIMGMIPNAALRVSASPFGDAARMALGDTAGAIVSFCAAAGCLGSLGGWTLLAGQT 300
Query: 312 LLGMAERGMLPEIFARRSQYGTPLVGIL 339
A+ G+ P IFAR ++ GTP+ G+L
Sbjct: 301 AKAAADDGLFPPIFARVNKAGTPVAGLL 328
>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 = 56.2 bits (134), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 72/331 (21%), Positives = 126/331 (38%), Gaps = 24/331 (7%)
Query: 23 QKVSVIPLVFLIFYEVSGGPFGVEDSVMAAGPLLALIGFLFFPFIWSIPEALITAEMGTM 82
KV +IP+ ++ + G + + +A+ +A+ G+L I ++ +++ A+M +
Sbjct: 8 HKVGLIPVTLMVSGNIMGSGVFLLPANLASTGGIAIYGWLV-TIIGALGLSMVYAKMSFL 66
Query: 83 FPENGGYVVWVASALGPHWGFQQGWMKWLSGVIDNALYPVLFLDYLKSAIPALEGGFPRI 142
P GG + GP G+Q + WL+ I N V+ + YL P L+
Sbjct: 67 DPSPGGSYAYARRCFGPFLGYQTNVLYWLACWIGNIAMVVIGVGYLSYFFPILKDPLVLT 126
Query: 143 XXXXXXXXXXXYMNYRG---LTIVGWVAIVLGVFSLVPFALMGLIAIPRLKPWRWCMVDL 199
+N G +T V VA VL + +V A+ G W W +
Sbjct: 127 ITCVVVLWIFVLLNIVGPKMITRVQAVATVLALIPIVGIAVFG---------WFWFRGET 177
Query: 200 KNVNWGL-----------YLNTLFWNLNYWDSISTLVGEVEDPGKTLPRALFYALILVVF 248
W + LN W+ +S S G V++P + +P A +++
Sbjct: 178 YMAAWNVSGLGTFGAIQSTLNVTLWSFIGVESASVAAGVVKNPKRNVPIATIGGVLIAAV 237
Query: 249 AYFFPLLIGTGAAPVHRELWSDGYFSVIAKLIGGVWLRTWIQGASAVSNMGMFIAEMSSD 308
Y G P S F A++ G + +A +G
Sbjct: 238 CYVLSTTAIMGMIPNAALRVSASPFGDAARMALGDTAGAIVSFCAAAGCLGSLGGWTLLA 297
Query: 309 SFQLLGMAERGMLPEIFARRSQYGTPLVGIL 339
A+ G+ P IFAR ++ GTP+ G++
Sbjct: 298 GQTAKAAADDGLFPPIFARVNKAGTPVAGLI 328
>pdb|3L1L|A Chain A, Structure Of Arg-Bound Escherichia Coli Adic
Length = 445
Score = 55.5 bits (132), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 72/331 (21%), Positives = 127/331 (38%), Gaps = 24/331 (7%)
Query: 23 QKVSVIPLVFLIFYEVSGGPFGVEDSVMAAGPLLALIGFLFFPFIWSIPEALITAEMGTM 82
KV +IP+ ++ + G + + +A+ +A+ G+L I ++ +++ A+M +
Sbjct: 8 HKVGLIPVTLMVSGAIMGSGVFLLPANLASTGGIAIYGWLV-TIIGALGLSMVYAKMSFL 66
Query: 83 FPENGGYVVWVASALGPHWGFQQGWMKWLSGVIDNALYPVLFLDYLKSAIPALEGGFPRI 142
P GG + GP G+Q + WL+ I N V+ + YL P L+ +
Sbjct: 67 DPSPGGSYAYARRCFGPFLGYQTNVLYWLACWIGNIAMVVIGVGYLSYFFPILKDPWVLT 126
Query: 143 XXXXXXXXXXXYMNYRG---LTIVGWVAIVLGVFSLVPFALMGLIAIPRLKPWRWCMVDL 199
+N G +T V VA VL + +V A+ G W W +
Sbjct: 127 ITCVVVLWIFVLLNIVGPKMITRVQAVATVLALIPIVGIAVFG---------WFWFRGET 177
Query: 200 KNVNWGL-----------YLNTLFWNLNYWDSISTLVGEVEDPGKTLPRALFYALILVVF 248
W + LN W+ +S S G V++P + +P A +++
Sbjct: 178 YMAAWNVSGLGTFGAIQSTLNVTLWSFIGVESASVAAGVVKNPKRNVPIATIGGVLIAAV 237
Query: 249 AYFFPLLIGTGAAPVHRELWSDGYFSVIAKLIGGVWLRTWIQGASAVSNMGMFIAEMSSD 308
Y G P S F A++ G + +A +G
Sbjct: 238 CYVLSTTAIMGMIPNAALRVSASPFGDAARMALGDTAGAIVSFCAAAGCLGSLGGWTLLA 297
Query: 309 SFQLLGMAERGMLPEIFARRSQYGTPLVGIL 339
A+ G+ P IFAR ++ GTP+ G++
Sbjct: 298 GQTAKAAADDGLFPPIFARVNKAGTPVAGLI 328
>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 = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 71/331 (21%), Positives = 125/331 (37%), Gaps = 24/331 (7%)
Query: 23 QKVSVIPLVFLIFYEVSGGPFGVEDSVMAAGPLLALIGFLFFPFIWSIPEALITAEMGTM 82
KV +IP+ ++ + G + + +A+ +A+ G+L I ++ +++ A+M +
Sbjct: 8 HKVGLIPVTLMVSGNIMGSGVFLLPANLASTGGIAIYGWLV-TIIGALGLSMVYAKMSFL 66
Query: 83 FPENGGYVVWVASALGPHWGFQQGWMKWLSGVIDNALYPVLFLDYLKSAIPALEGGFPRI 142
P GG + GP G+Q + WL+ I V+ + YL P L+
Sbjct: 67 DPSPGGSYAYARRCFGPFLGYQTNVLYWLACWIGAIAMVVIGVGYLSYFFPILKDPLVLT 126
Query: 143 XXXXXXXXXXXYMNYRG---LTIVGWVAIVLGVFSLVPFALMGLIAIPRLKPWRWCMVDL 199
+N G +T V VA VL + +V A+ G W W +
Sbjct: 127 ITCVVVLWIFVLLNIVGPKMITRVQAVATVLALIPIVGIAVFG---------WFWFRGET 177
Query: 200 KNVNWGL-----------YLNTLFWNLNYWDSISTLVGEVEDPGKTLPRALFYALILVVF 248
W + LN W+ +S S G V++P + +P A +++
Sbjct: 178 YMAAWNVSGLGTFGAIQSTLNVTLWSFIGVESASVAAGVVKNPKRNVPIATIGGVLIAAV 237
Query: 249 AYFFPLLIGTGAAPVHRELWSDGYFSVIAKLIGGVWLRTWIQGASAVSNMGMFIAEMSSD 308
Y G P S F A++ G + +A +G
Sbjct: 238 CYVLSTTAIMGMIPNAALRVSASPFGDAARMALGDTAGAIVSFCAAAGCLGSLGGWTLLA 297
Query: 309 SFQLLGMAERGMLPEIFARRSQYGTPLVGIL 339
A+ G+ P IFAR ++ GTP+ G++
Sbjct: 298 GQTAKAAADDGLFPPIFARVNKAGTPVAGLI 328
>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 = 52.0 bits (123), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 91/364 (25%), Positives = 163/364 (44%), Gaps = 43/364 (11%)
Query: 67 IWSIPEALITAEMGTMFP-ENGGYVVWVASALGPHWGFQQ---GWMKWLSGVIDNALYPV 122
+W IP L AEM T+ E GG WV++ LGP WGF G+++ G I + +
Sbjct: 52 LWFIPVGLCAAEMATVDGWEEGGVFAWVSNTLGPRWGFAAISFGYLQIAIGFIPMLYFVL 111
Query: 123 LFLDYLKSAIPAL-EGGFPRIXXXXXXXXXXXYMNYRGLTIVGWVAIVLGVFS--LVP-F 178
L Y+ PAL E + + G +A V G F+ L+P F
Sbjct: 112 GALSYILKW-PALNEDPITKTIAALIILWALALTQFGGTKYTARIAKV-GFFAGILLPAF 169
Query: 179 ALMGLIAIPRLKPWRWCMVDLKNVNW-------GLYLNTLFWNLNYW--DSISTLVGEVE 229
L+ L AI L +++ + + G + + + L+Y ++ +T V E+
Sbjct: 170 ILIALAAI-YLHSGAPVAIEMDSKTFFPDFSKVGTLVVFVAFILSYMGVEASATHVNEMS 228
Query: 230 DPGKTLPRALFYALILVVFAYFFPLLIGTGAA---PVHRELWSDGYFSVIAKLIGGVW-- 284
+PG+ P A+ L+L+V A + G A P + S G L+ V
Sbjct: 229 NPGRDYPLAM---LLLMVAAICLSSVGGLSIAMVIPGNEINLSAGVMQTFTVLMSHVAPE 285
Query: 285 LRTWIQGASAVSNMGMFIAEMSS----DSFQLLGMAERGMLPEIFARRSQYGTPLV---- 336
+ ++ SA+ +G+ +AE++S S + A++ +LP FA+ ++ G P+
Sbjct: 286 IEWTVRVISALLLLGV-LAEIASWIVGPSRGMYVTAQKNLLPAAFAKMNKNGVPVTLVIS 344
Query: 337 GILFSASGVILLS------WLSFQEIVAAENFLYCFAMIMEFIAFVKLRMQYPEAIRPYK 390
++ ++ +I+L+ +SF +A +Y A M FI ++ L +++P+ R +
Sbjct: 345 QLVITSIALIILTNTGGGNNMSFLIALALTVVIYLCAYFMLFIGYIVLVLKHPDLKRTFN 404
Query: 391 VPLG 394
+P G
Sbjct: 405 IPGG 408
>pdb|3GI8|C Chain C, Crystal Structure Of Apct K158a Transporter Bound To 7f11
Monoclonal Fab Fragment
Length = 444
Score = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 69/293 (23%), Positives = 126/293 (43%), Gaps = 25/293 (8%)
Query: 67 IWSIPEALITAEMGTMFPENGGYVVWVASALGPHWGFQQGWMK---WLSGVIDNALYPVL 123
I+++ A ++G N G + ++ A+G + G + W+S VI AL+
Sbjct: 50 IYALLVAYSYTKLGAKIVSNAGPIAFIHKAIGDN--IITGALSILLWMSYVISIALFAKG 107
Query: 124 FLDYLKSAIPALEGGFPRIXXXXXXXXXXXYMNYRGLTIVGWVAIVLGVFSLVPFALMGL 183
F Y I A F +N+ G VG + + +L+ L
Sbjct: 108 FAGYFLPLINAPINTFNIAITEIGIVAFFTALNFFGSKAVGRAEFFIVLVALLILGLFIF 167
Query: 184 IAIPRLKPWRWCMVDL--KNVNWGLYLNTLFWNLNY--WDSISTLVGEVEDPGKTLPRAL 239
+ + P + + DL V+ ++ + +F+ L+Y + I+ +E+P K +PRA+
Sbjct: 168 AGLITIHP-SYVIPDLAPSAVSGMIFASAIFF-LSYMGFGVITNASEHIENPKKNVPRAI 225
Query: 240 FYALILVVFAYFFPLLIGTGAAPVHREL-WSDGYFSVIAK-LIGGVWLRTWIQGA--SAV 295
F ++++V+F Y + G P+ + S+ +V AK +G + GA S
Sbjct: 226 FISILIVMFVYVGVAISAIGNLPIDELIKASENALAVAAKPFLGNLGFLLISIGALFSIS 285
Query: 296 SNMGMFIAEMSSDSFQLLGMAERGMLPEIFARR-------SQYGTPLVGILFS 341
S M I ++ ++ L A+ G LPE F R+ Y T +G+LF+
Sbjct: 286 SAMNATIYGGANVAYSL---AKDGELPEFFERKVWFKSTEGLYITSALGVLFA 335
>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 = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 69/293 (23%), Positives = 125/293 (42%), Gaps = 25/293 (8%)
Query: 67 IWSIPEALITAEMGTMFPENGGYVVWVASALGPHWGFQQGWMK---WLSGVIDNALYPVL 123
I+++ A ++G N G + ++ A+G + G + W+S VI AL+
Sbjct: 50 IYALLVAYSYTKLGAKIVSNAGPIAFIHKAIGDN--IITGALSILLWMSYVISIALFAKG 107
Query: 124 FLDYLKSAIPALEGGFPRIXXXXXXXXXXXYMNYRGLTIVGWVAIVLGVFSLVPFALMGL 183
F Y I A F +N+ G VG + + L+ L
Sbjct: 108 FAGYFLPLINAPINTFNIAITEIGIVAFFTALNFFGSKAVGRAEFFIVLVKLLILGLFIF 167
Query: 184 IAIPRLKPWRWCMVDL--KNVNWGLYLNTLFWNLNY--WDSISTLVGEVEDPGKTLPRAL 239
+ + P + + DL V+ ++ + +F+ L+Y + I+ +E+P K +PRA+
Sbjct: 168 AGLITIHP-SYVIPDLAPSAVSGMIFASAIFF-LSYMGFGVITNASEHIENPKKNVPRAI 225
Query: 240 FYALILVVFAYFFPLLIGTGAAPVHREL-WSDGYFSVIAK-LIGGVWLRTWIQGA--SAV 295
F ++++V+F Y + G P+ + S+ +V AK +G + GA S
Sbjct: 226 FISILIVMFVYVGVAISAIGNLPIDELIKASENALAVAAKPFLGNLGFLLISIGALFSIS 285
Query: 296 SNMGMFIAEMSSDSFQLLGMAERGMLPEIFARR-------SQYGTPLVGILFS 341
S M I ++ ++ L A+ G LPE F R+ Y T +G+LF+
Sbjct: 286 SAMNATIYGGANVAYSL---AKDGELPEFFERKVWFKSTEGLYITSALGVLFA 335
>pdb|3P2N|A Chain A, Discovery And Structural Characterization Of A New
Glycoside Hydrolase Family Abundant In Coastal Waters
That Was Annotated As 'hypothetical Protein'
pdb|3P2N|B Chain B, Discovery And Structural Characterization Of A New
Glycoside Hydrolase Family Abundant In Coastal Waters
That Was Annotated As 'hypothetical Protein'
Length = 408
Score = 32.7 bits (73), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 24/51 (47%), Gaps = 6/51 (11%)
Query: 53 GPLLALIGFLFFPFIWSIPEALITAEMGTMFPENGGYVVWVASALGPHWGF 103
GPL L G L + E ++ + + ENG Y VW + + GP GF
Sbjct: 78 GPLQPLKGDLAYE------EGVVRRDPSAIIKENGKYYVWYSKSTGPTQGF 122
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
0.327 0.142 0.458
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,405,205
Number of Sequences: 62578
Number of extensions: 535350
Number of successful extensions: 1232
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1209
Number of HSP's gapped (non-prelim): 11
length of query: 470
length of database: 14,973,337
effective HSP length: 102
effective length of query: 368
effective length of database: 8,590,381
effective search space: 3161260208
effective search space used: 3161260208
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: 53 (25.0 bits)