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= 012626
(459 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 = 147 bits (372), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 106/368 (28%), Positives = 169/368 (45%), Gaps = 38/368 (10%)
Query: 90 RILLGVGIGFGNQAVPLYLSEMAPTHLRGGLNMMFQLATTLGIFTANMINYGTQK----- 144
RI+ G+G+G + P+Y++E+AP H+RG L Q A G +NY +
Sbjct: 133 RIIGGIGVGLASMLSPMYIAELAPAHIRGKLVSFNQFAIIFGQLLVYCVNYFIARSGDAS 192
Query: 145 -LETWGWRLSLGLAAAPALMMTVGGILLPETPNSLIERGKKVEGRRVLEKIRGTKEVNAE 203
L T GWR PAL+ + +PE+P L+ RGK+ + +L KI G
Sbjct: 193 WLNTDGWRYMFASECIPALLFLMLLYTVPESPRWLMSRGKQEQAEGILRKIMGNTL---- 248
Query: 204 YQDMVDASELANSIKHPFRNILERRNR------PQLVMAIFMPMFQILTGINSILFYAPV 257
A++ IKH + + R +V+ + + +FQ GIN +L+YAP
Sbjct: 249 ------ATQAVQEIKHSLDHGRKTGGRLLMFGVGVIVIGVMLSIFQQFVGINVVLYYAPE 302
Query: 258 LFQSMGFKGDASLYSSAMTGAVLASSTLISIATVDKLGRRALLISGGIQMITCQVIVSII 317
+F+++G D +L + + G + + T+++I TVDK GR+ L I G + M I
Sbjct: 303 VFKTLGASTDIALLQTIIVGVINLTFTVLAIMTVDKFGRKPLQIIGALGM----AIGMFS 358
Query: 318 LGLKFGPNQELSKXXXXXXXXXXXXXXLAFGWSWGPLGWTVPSEIFPLETRSAGQSITVA 377
LG F ++ AF SWGP+ W + SEIFP R +I VA
Sbjct: 359 LGTAF-----YTQAPGIVALLSMLFYVAAFAMSWGPVCWVLLSEIFPNAIRGKALAIAVA 413
Query: 378 VNLFFTFVIAQIFLT------LLCSFKFGIFLFFAGWVTIM-TIFVYFFLPETKGVPIEE 430
+ ++ F L+ F G + G + ++ +F++ F+PETKG +EE
Sbjct: 414 AQWLANYFVSWTFPMMDKNSWLVAHFHNGFSYWIYGCMGVLAALFMWKFVPETKGKTLEE 473
Query: 431 MILLWRKH 438
+ LW
Sbjct: 474 LEALWEPE 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 = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 36/182 (19%), Positives = 81/182 (44%), Gaps = 22/182 (12%)
Query: 128 TTLGIFTANMINYGTQKLET--WGWRLSLGLAAAPALMMTVGGILLPETPNSLIERGKKV 185
+ L + N+ N GT + + +GW+L+L L A ++ G + + ++ K++
Sbjct: 827 SRLAVIFQNIANLGTGIIISLIYGWQLTLLLLAIVPIIAIAGVVEMKMLSGQALKDKKEL 886
Query: 186 E--GRRVLEKIRGTKEVNAEYQDMVDASELANSIKHPFRNILERRNRPQLVMAIFMPMF- 242
E G+ E I + V + ++ + A S++ P+RN +++ + + + M
Sbjct: 887 EGSGKIATEAIENFRTVVSLTREQKFETMYAQSLQIPYRNAMKKAHVFGITFSFTQAMMY 946
Query: 243 ----------------QILTGINSILFYAPVLFQSMGFKGDASLYSSAMTGAVLASSTLI 286
Q++T N +L ++ ++F +M G S ++ A +++S +I
Sbjct: 947 FSYAACFRFGAYLVTQQLMTFENVLLVFSAIVFGAMAV-GQVSSFAPDYAKATVSASHII 1005
Query: 287 SI 288
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 = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 34/130 (26%), Positives = 52/130 (40%), Gaps = 9/130 (6%)
Query: 32 LAAFTSSLYLAGLVASFVASPVTRDYGRRASIICGGISFXXXXXXXXXXXXXXXXXTGRI 91
+A + S +YL+G + FVA R G R ++ GG+ I
Sbjct: 60 MAIYASMVYLSGTIGGFVAD---RIIGARPAVFWGGVLIMLGHIVLALPFGASALFGSII 116
Query: 92 LLGVGIGFGNQAVPLYLSEMAPTHLR---GGLNMMFQLATTLGIFTANMINYGTQKLETW 148
L+ +G GF V + + H R G + +F LG F A +I Q E
Sbjct: 117 LIIIGTGFLKPNVSTLVGTLYDEHDRRRDAGFS-IFVFGINLGAFIAPLIVGAAQ--EAA 173
Query: 149 GWRLSLGLAA 158
G+ ++ LAA
Sbjct: 174 GYHVAFSLAA 183
>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 = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 36/182 (19%), Positives = 81/182 (44%), Gaps = 22/182 (12%)
Query: 128 TTLGIFTANMINYGTQKLET--WGWRLSLGLAAAPALMMTVGGILLPETPNSLIERGKKV 185
+ L + N+ N GT + + +GW+L+L L A ++ G + + ++ K++
Sbjct: 827 SRLAVIFQNIANLGTGIIISLIYGWQLTLLLLAIVPIIAIAGVVEMKMLSGQALKDKKEL 886
Query: 186 E--GRRVLEKIRGTKEVNAEYQDMVDASELANSIKHPFRNILERRNRPQLVMAIFMPMF- 242
E G+ E I + V + ++ + A S++ P+RN +++ + + + M
Sbjct: 887 EGSGKIATEAIENFRTVVSLTREQKFETMYAQSLQIPYRNAMKKAHVFGITFSFTQAMMY 946
Query: 243 ----------------QILTGINSILFYAPVLFQSMGFKGDASLYSSAMTGAVLASSTLI 286
Q++T N +L ++ ++F +M G S ++ A +++S +I
Sbjct: 947 FSYAAAFRFGAYLVTQQLMTFENVLLVFSAIVFGAMAV-GQVSSFAPDYAKATVSASHII 1005
Query: 287 SI 288
I
Sbjct: 1006 RI 1007
>pdb|1NKG|A Chain A, Rhamnogalacturonan Lyase From Aspergillus Aculeatus
Length = 508
Score = 29.3 bits (64), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 33/71 (46%), Gaps = 9/71 (12%)
Query: 350 SWGPLGWTVPSEI---FPLETRSAGQSITVAVNLFFTFVIAQIFLTLLCSFKFGIFLFFA 406
SWGPL +TV S FP+ + +S+ V + FT AQ T + + G L FA
Sbjct: 373 SWGPLTYTVGSSALTDFPM---AVFKSVNNPVTIKFTATSAQ---TGAATLRIGTTLSFA 426
Query: 407 GWVTIMTIFVY 417
G TI Y
Sbjct: 427 GGRPQATINSY 437
>pdb|3NJX|A Chain A, Rhamnogalacturonan Lyase From Aspergillus Aculeatus Mutant
H210a
Length = 508
Score = 28.9 bits (63), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 32/71 (45%), Gaps = 9/71 (12%)
Query: 350 SWGPLGWTVPSEI---FPLETRSAGQSITVAVNLFFTFVIAQIFLTLLCSFKFGIFLFFA 406
SWGPL +TV S FP+ +S+ V + FT AQ T + + G L FA
Sbjct: 373 SWGPLTYTVGSSALTDFPMAVF---KSVNNPVTIKFTATSAQ---TGAATLRIGTTLSFA 426
Query: 407 GWVTIMTIFVY 417
G TI Y
Sbjct: 427 GGRPQATINSY 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 = 5.5, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 32/71 (45%), Gaps = 9/71 (12%)
Query: 350 SWGPLGWTVPSEI---FPLETRSAGQSITVAVNLFFTFVIAQIFLTLLCSFKFGIFLFFA 406
SWGPL +TV S FP+ +S+ V + FT AQ T + + G L FA
Sbjct: 373 SWGPLTYTVGSSALTDFPMAVF---KSVNNPVTIKFTATSAQ---TGAATLRIGTTLSFA 426
Query: 407 GWVTIMTIFVY 417
G TI Y
Sbjct: 427 GGRPQATINSY 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
0.326 0.140 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,613,757
Number of Sequences: 62578
Number of extensions: 419023
Number of successful extensions: 998
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: 993
Number of HSP's gapped (non-prelim): 9
length of query: 459
length of database: 14,973,337
effective HSP length: 102
effective length of query: 357
effective length of database: 8,590,381
effective search space: 3066766017
effective search space used: 3066766017
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: 53 (25.0 bits)