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= 010375
(512 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4GBY|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
Proton:xylose Symporter Xyle Bound To D-Xylose
pdb|4GBZ|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
Proton:xylose Symporter Xyle Bound To D-Glucose
pdb|4GC0|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
Proton:xylose Symporter Xyle Bound To
6-Bromo-6-Deoxy-D-Glucose
Length = 491
Score = 151 bits (381), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 129/494 (26%), Positives = 210/494 (42%), Gaps = 61/494 (12%)
Query: 32 FVAAIGGSIFGYDIG-ISGGVTSMDAFLKKFFHDVYLKKKHAHENNYCKYDNQGLAAFTS 90
VA +GG +FGYD ISG V S++ V++ ++ E+ N L +
Sbjct: 15 LVATLGGLLFGYDTAVISGTVESLN--------TVFVAPQNLSESA----ANSLLGFCVA 62
Query: 91 SLYLAGLVASFVASPVTRDYGRRASIICGGISFXXX------------------XXXXXX 132
S + ++ + + +GRR S+ + F
Sbjct: 63 SALIGCIIGGALGGYCSNRFGRRDSLKIAAVLFFISGVGSAWPELGFTSINPDNTVPVYL 122
Query: 133 XXXXXXXXTGRILLGVGIGFGNQAVPLYLSEMAPTHLRGGLNMMFQLATTLGIFTANMIN 192
RI+ G+G+G + P+Y++E+AP H+RG L Q A G +N
Sbjct: 123 AGYVPEFVIYRIIGGIGVGLASMLSPMYIAELAPAHIRGKLVSFNQFAIIFGQLLVYCVN 182
Query: 193 YGTQK------LETWGWRLSLGLAAAPALMMTVGGILLPETPNSLIERGKKVEGRRVLEK 246
Y + L T GWR PAL+ + +PE+P L+ RGK+ + +L K
Sbjct: 183 YFIARSGDASWLNTDGWRYMFASECIPALLFLMLLYTVPESPRWLMSRGKQEQAEGILRK 242
Query: 247 IRGTKEVNAEYQDMVDASELANSIKHPFRN--ILERRNRPQLVMAIFMPMFQILTGINSI 304
I G Q E+ +S+ H + L +V+ + + +FQ GIN +
Sbjct: 243 IMGNTLATQAVQ------EIKHSLDHGRKTGGRLLMFGVGVIVIGVMLSIFQQFVGINVV 296
Query: 305 LFYAPVLFQSMGFKGDASLYSSAMTGAVLASSTLISIATVDKLGRRALLISGGIQMITCQ 364
L+YAP +F+++G D +L + + G + + T+++I TVDK GR+ L I G + M
Sbjct: 297 LYYAPEVFKTLGASTDIALLQTIIVGVINLTFTVLAIMTVDKFGRKPLQIIGALGM---- 352
Query: 365 VIVSIILGLKFGPNQELSKXXXXXXXXXXXXXXLAFGWSWGPLGWTVPSEIFPLETRSAG 424
I LG F ++ AF SWGP+ W + SEIFP R
Sbjct: 353 AIGMFSLGTAF-----YTQAPGIVALLSMLFYVAAFAMSWGPVCWVLLSEIFPNAIRGKA 407
Query: 425 QSITVAVNLFFTFVIAQIFLT------LLCSFKFGIFLFFAGWVTIM-TIFVYFFLPETK 477
+I VA + ++ F L+ F G + G + ++ +F++ F+PETK
Sbjct: 408 LAIAVAAQWLANYFVSWTFPMMDKNSWLVAHFHNGFSYWIYGCMGVLAALFMWKFVPETK 467
Query: 478 GVPIEEMILLWRKH 491
G +EE+ LW
Sbjct: 468 GKTLEELEALWEPE 481
>pdb|3G60|A Chain A, Structure Of P-Glycoprotein Reveals A Molecular Basis For
Poly-Specific Drug Binding
pdb|3G60|B Chain B, Structure Of P-Glycoprotein Reveals A Molecular Basis For
Poly-Specific Drug Binding
pdb|3G61|A Chain A, Structure Of P-Glycoprotein Reveals A Molecular Basis For
Poly-Specific Drug Binding
pdb|3G61|B Chain B, Structure Of P-Glycoprotein Reveals A Molecular Basis For
Poly-Specific Drug Binding
Length = 1284
Score = 32.0 bits (71), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 36/182 (19%), Positives = 81/182 (44%), Gaps = 22/182 (12%)
Query: 181 TTLGIFTANMINYGTQKLET--WGWRLSLGLAAAPALMMTVGGILLPETPNSLIERGKKV 238
+ L + N+ N GT + + +GW+L+L L A ++ G + + ++ K++
Sbjct: 827 SRLAVIFQNIANLGTGIIISLIYGWQLTLLLLAIVPIIAIAGVVEMKMLSGQALKDKKEL 886
Query: 239 E--GRRVLEKIRGTKEVNAEYQDMVDASELANSIKHPFRNILERRNRPQLVMAIFMPMF- 295
E G+ E I + V + ++ + A S++ P+RN +++ + + + M
Sbjct: 887 EGSGKIATEAIENFRTVVSLTREQKFETMYAQSLQIPYRNAMKKAHVFGITFSFTQAMMY 946
Query: 296 ----------------QILTGINSILFYAPVLFQSMGFKGDASLYSSAMTGAVLASSTLI 339
Q++T N +L ++ ++F +M G S ++ A +++S +I
Sbjct: 947 FSYAACFRFGAYLVTQQLMTFENVLLVFSAIVFGAMAV-GQVSSFAPDYAKATVSASHII 1005
Query: 340 SI 341
I
Sbjct: 1006 RI 1007
>pdb|3G5U|A Chain A, Structure Of P-Glycoprotein Reveals A Molecular Basis For
Poly-Specific Drug Binding
pdb|3G5U|B Chain B, Structure Of P-Glycoprotein Reveals A Molecular Basis For
Poly-Specific Drug Binding
Length = 1284
Score = 31.6 bits (70), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 36/182 (19%), Positives = 81/182 (44%), Gaps = 22/182 (12%)
Query: 181 TTLGIFTANMINYGTQKLET--WGWRLSLGLAAAPALMMTVGGILLPETPNSLIERGKKV 238
+ L + N+ N GT + + +GW+L+L L A ++ G + + ++ K++
Sbjct: 827 SRLAVIFQNIANLGTGIIISLIYGWQLTLLLLAIVPIIAIAGVVEMKMLSGQALKDKKEL 886
Query: 239 E--GRRVLEKIRGTKEVNAEYQDMVDASELANSIKHPFRNILERRNRPQLVMAIFMPMF- 295
E G+ E I + V + ++ + A S++ P+RN +++ + + + M
Sbjct: 887 EGSGKIATEAIENFRTVVSLTREQKFETMYAQSLQIPYRNAMKKAHVFGITFSFTQAMMY 946
Query: 296 ----------------QILTGINSILFYAPVLFQSMGFKGDASLYSSAMTGAVLASSTLI 339
Q++T N +L ++ ++F +M G S ++ A +++S +I
Sbjct: 947 FSYAAAFRFGAYLVTQQLMTFENVLLVFSAIVFGAMAV-GQVSSFAPDYAKATVSASHII 1005
Query: 340 SI 341
I
Sbjct: 1006 RI 1007
>pdb|4APS|A Chain A, Crystal Structure Of A Pot Family Peptide Transporter In
An Inward Open Conformation.
pdb|4APS|B Chain B, Crystal Structure Of A Pot Family Peptide Transporter In
An Inward Open Conformation
Length = 491
Score = 30.4 bits (67), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 34/130 (26%), Positives = 52/130 (40%), Gaps = 9/130 (6%)
Query: 85 LAAFTSSLYLAGLVASFVASPVTRDYGRRASIICGGISFXXXXXXXXXXXXXXXXXTGRI 144
+A + S +YL+G + FVA R G R ++ GG+ I
Sbjct: 60 MAIYASMVYLSGTIGGFVAD---RIIGARPAVFWGGVLIMLGHIVLALPFGASALFGSII 116
Query: 145 LLGVGIGFGNQAVPLYLSEMAPTHLR---GGLNMMFQLATTLGIFTANMINYGTQKLETW 201
L+ +G GF V + + H R G + +F LG F A +I Q E
Sbjct: 117 LIIIGTGFLKPNVSTLVGTLYDEHDRRRDAGFS-IFVFGINLGAFIAPLIVGAAQ--EAA 173
Query: 202 GWRLSLGLAA 211
G+ ++ LAA
Sbjct: 174 GYHVAFSLAA 183
>pdb|1NKG|A Chain A, Rhamnogalacturonan Lyase From Aspergillus Aculeatus
Length = 508
Score = 28.9 bits (63), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 30/68 (44%), Gaps = 3/68 (4%)
Query: 403 SWGPLGWTVPSEIFPLETRSAGQSITVAVNLFFTFVIAQIFLTLLCSFKFGIFLFFAGWV 462
SWGPL +TV S + +S+ V + FT AQ T + + G L FAG
Sbjct: 373 SWGPLTYTVGSSALTDFPMAVFKSVNNPVTIKFTATSAQ---TGAATLRIGTTLSFAGGR 429
Query: 463 TIMTIFVY 470
TI Y
Sbjct: 430 PQATINSY 437
>pdb|3NJX|A Chain A, Rhamnogalacturonan Lyase From Aspergillus Aculeatus Mutant
H210a
Length = 508
Score = 28.9 bits (63), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 30/68 (44%), Gaps = 3/68 (4%)
Query: 403 SWGPLGWTVPSEIFPLETRSAGQSITVAVNLFFTFVIAQIFLTLLCSFKFGIFLFFAGWV 462
SWGPL +TV S + +S+ V + FT AQ T + + G L FAG
Sbjct: 373 SWGPLTYTVGSSALTDFPMAVFKSVNNPVTIKFTATSAQ---TGAATLRIGTTLSFAGGR 429
Query: 463 TIMTIFVY 470
TI Y
Sbjct: 430 PQATINSY 437
>pdb|2XHN|A Chain A, Rhamnogalacturonan Lyase From Aspergillus Aculeatus K150a
Active Site Mutant
pdb|2XHN|B Chain B, Rhamnogalacturonan Lyase From Aspergillus Aculeatus K150a
Active Site Mutant
pdb|3NJV|A Chain A, Rhamnogalacturonan Lyase From Aspergillus Aculeatus K150a
Substrate Complex
Length = 508
Score = 28.9 bits (63), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 30/68 (44%), Gaps = 3/68 (4%)
Query: 403 SWGPLGWTVPSEIFPLETRSAGQSITVAVNLFFTFVIAQIFLTLLCSFKFGIFLFFAGWV 462
SWGPL +TV S + +S+ V + FT AQ T + + G L FAG
Sbjct: 373 SWGPLTYTVGSSALTDFPMAVFKSVNNPVTIKFTATSAQ---TGAATLRIGTTLSFAGGR 429
Query: 463 TIMTIFVY 470
TI Y
Sbjct: 430 PQATINSY 437
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 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,315,553
Number of Sequences: 62578
Number of extensions: 501251
Number of successful extensions: 1270
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1264
Number of HSP's gapped (non-prelim): 10
length of query: 512
length of database: 14,973,337
effective HSP length: 103
effective length of query: 409
effective length of database: 8,527,803
effective search space: 3487871427
effective search space used: 3487871427
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)