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= 008792
(553 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2XUT|A Chain A, Crystal Structure Of A Proton Dependent Oligopeptide (Pot)
Family Transporter.
pdb|2XUT|B Chain B, Crystal Structure Of A Proton Dependent Oligopeptide (Pot)
Family Transporter.
pdb|2XUT|C Chain C, Crystal Structure Of A Proton Dependent Oligopeptide (Pot)
Family Transporter
Length = 524
Score = 150 bits (380), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 141/499 (28%), Positives = 228/499 (45%), Gaps = 81/499 (16%)
Query: 30 KACPYILGNECCERLAYYGINTNLVNYLRFELN-------QGNVQAVNNVTNWSGTCYVM 82
+ PYI+ +E CER ++YG+ L +L L +G V A + ++ Y
Sbjct: 12 RQIPYIIASEACERFSFYGMRNILTPFLMTALLLSIPEELRGAV-AKDVFHSFVIGVYFF 70
Query: 83 PLIGAFLADAYLGRYWTIASFSIIYVIGMTILTM-SASVHGLKPLCDKRNVCHPTGLQIA 141
PL+G ++AD + G+Y TI S+IY +G L + SV G
Sbjct: 71 PLLGGWIADRFFGKYNTILWLSLIYCVGHAFLAIFEHSVQG------------------- 111
Query: 142 VFFVGLYLIALGTGGIKPCVSSFGADQFDDYDEAEKKKKSSFFNWFYFSINIGALVAASC 201
F+ GL+LIALG+GGIKP VSSF DQFD +++ +K F+ FYF+IN G+ A+
Sbjct: 112 -FYTGLFLIALGSGGIKPLVSSFMGDQFDQSNKSLAQKA---FDMFYFTINFGSFFASLS 167
Query: 202 LVWIQTNVGWGWGFGIPAVAMAIAVVSFFAGSRLYRYQKP------GGSPLTRICQSLLY 255
+ + N G FGIP V M +A V F+ G + Y + P G P+ R S L
Sbjct: 168 MPLLLKNFGAAVAFGIPGVLMFVATVFFWLGRKRYIHMPPEPKDPHGFLPVIR---SALL 224
Query: 256 ETADAE------FAVIG----SHKLDHTKQLSFLDKAAVETPSDCVKGSVNAWRLCTVTQ 305
+ + A+IG ++ L + L + A + V G V A + +
Sbjct: 225 TKVEGKGNIGLVLALIGGVSAAYALVNIPTLGIV--AGLCCAMVLVMGFVGAGASLQLER 282
Query: 306 ---------VEEFKSIIRLLPIWAIGIVFSAVYSQMGTLFVLQGNTMDLHIDNSFEIPSA 356
V+ +S++R+L ++A+ F +++ Q + ++LQ N D+ FE A
Sbjct: 283 ARKSHPDAAVDGVRSVLRILVLFALVTPFWSLFDQKASTWILQAN--DMVKPQWFE--PA 338
Query: 357 SLSLFDTISVIFWVPIYDRLIVPLARKFTGHKNGFTQLQRIAIGLVISIFAMLTAGTLEL 416
+ + + V+ +P + ++ P + G K T L+++ G+ I+ + + GT++L
Sbjct: 339 MMQALNPLLVMLLIPFNNFVLYPAIER-MGVK--LTALRKMGAGIAITGLSWIVVGTIQL 395
Query: 417 VRLREVKKHNYYELKHIPMSIFWQVPQYFIIGCAEVFTFIGQLEFFYEQAPDAMRXXXXX 476
+ +SIFWQ+ Y ++ EV LEF Y QAP AM+
Sbjct: 396 MMDGGSA-----------LSIFWQILPYALLTFGEVLVSATGLEFAYSQAPKAMKGTIMS 444
Query: 477 XXXXXXXXGNYLSTLLVNI 495
GN L LL N+
Sbjct: 445 FWTLSVTVGN-LWVLLANV 462
>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 = 64.7 bits (156), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 48/202 (23%), Positives = 93/202 (46%), Gaps = 29/202 (14%)
Query: 38 NECCERLAYYGINTNLVNYLRFELNQGNVQ-----AVNNVTNWSGTCYVMPLIGAFLADA 92
E ER +YYG+ L+ Y+ F ++ G++ A + + ++ Y+ IG F+AD
Sbjct: 21 TEMWERFSYYGMRAILLYYMWFLISTGDLHITRATAASIMAIYASMVYLSGTIGGFVADR 80
Query: 93 YLGRYWTIASFSIIYVIGMTILTMSASVHGLKPLCDKRNVCHPTGLQIAVFFVGLYLIAL 152
+G + ++ ++G +L + L F + LI +
Sbjct: 81 IIGARPAVFWGGVLIMLGHIVLALPFGASAL--------------------FGSIILIII 120
Query: 153 GTGGIKPCVSSFGADQFDDYDEAEKKKKSSFFNWFYFSINIGALVAASCLVWIQTNVGWG 212
GTG +KP VS+ +D++D +++ + F+ F F IN+GA +A + Q G+
Sbjct: 121 GTGFLKPNVSTLVGTLYDEHD----RRRDAGFSIFVFGINLGAFIAPLIVGAAQEAAGYH 176
Query: 213 WGFGIPAVAMAIAVVSFFAGSR 234
F + A+ M I ++ ++ G +
Sbjct: 177 VAFSLAAIGMFIGLLVYYFGGK 198
>pdb|1OR0|B Chain B, Crystal Structures Of Glutaryl 7-Aminocephalosporanic Acid
Acylase: Insight Into Autoproteolytic Activation
pdb|1OR0|D Chain D, Crystal Structures Of Glutaryl 7-Aminocephalosporanic Acid
Acylase: Insight Into Autoproteolytic Activation
Length = 528
Score = 32.7 bits (73), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 41/149 (27%), Positives = 62/149 (41%), Gaps = 20/149 (13%)
Query: 47 YGINTNLVNYLRFELNQ--GNVQAVNNVTNWSGTCYVMPLI-GAFLADAYLGRYWTI-AS 102
YG + +RF NQ G VN T Y + L G +L D + + AS
Sbjct: 46 YGATQIGLPVIRFAFNQRXGITNTVNGXV--GATNYRLTLQDGGYLYDGQVRPFERPQAS 103
Query: 103 FSIIYVIGMTI---LTMSASVHGLKPLCDKRNVCHPTGLQIAVFFVGLYLIALGTGGIKP 159
+ + G T+ L + +SVHG P+ ++ + G +AV GL G ++
Sbjct: 104 YRLRQADGTTVDKPLEIRSSVHG--PVFERAD-----GTAVAVRVAGLDR----PGXLEQ 152
Query: 160 CVSSFGADQFDDYDEAEKKKKSSFFNWFY 188
AD FDDY+ A + + FN Y
Sbjct: 153 YFDXITADSFDDYEAALARXQVPTFNIVY 181
>pdb|1GK0|B Chain B, Structure-Based Prediction Of Modifications In
Glutarylamidase To Allow Single-Step Enzymatic
Production Of 7-Aminocephalosporanic Acid From
Cephalosporin C
pdb|1GK0|D Chain D, Structure-Based Prediction Of Modifications In
Glutarylamidase To Allow Single-Step Enzymatic
Production Of 7-Aminocephalosporanic Acid From
Cephalosporin C
pdb|1GHD|B Chain B, Crystal Structure Of The Glutaryl-7-Aminocephalosporanic
Acid Acylase By Mad Phasing
Length = 522
Score = 32.7 bits (73), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 41/149 (27%), Positives = 62/149 (41%), Gaps = 20/149 (13%)
Query: 47 YGINTNLVNYLRFELNQ--GNVQAVNNVTNWSGTCYVMPLI-GAFLADAYLGRY-WTIAS 102
YG + +RF NQ G VN T Y + L G +L D + + AS
Sbjct: 46 YGATQIGLPVIRFAFNQRXGITNTVNGXV--GATNYRLTLQDGGYLYDGQVRPFERRQAS 103
Query: 103 FSIIYVIGMTI---LTMSASVHGLKPLCDKRNVCHPTGLQIAVFFVGLYLIALGTGGIKP 159
+ + G T+ L + +SVHG P+ ++ + G +AV GL G ++
Sbjct: 104 YRLRQADGTTVDKPLEIRSSVHG--PVFERAD-----GTAVAVRVAGLDR----PGXLEQ 152
Query: 160 CVSSFGADQFDDYDEAEKKKKSSFFNWFY 188
AD FDDY+ A + + FN Y
Sbjct: 153 YFDXITADSFDDYEAALARXQVPTFNIVY 181
>pdb|2ADV|C Chain C, Crystal Structures Of Glutaryl 7-Aminocephalosporanic Acid
Acylase: Mutational Study Of Activation Mechanism
Length = 500
Score = 32.0 bits (71), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 41/149 (27%), Positives = 63/149 (42%), Gaps = 20/149 (13%)
Query: 47 YGINTNLVNYLRFELNQ--GNVQAVNNVTNWSGTCYVMPL-IGAFLADAYLGRY-WTIAS 102
YG + +RF NQ G VN + T Y + L G +L D + + AS
Sbjct: 18 YGATQIGLPVIRFAFNQRMGITNTVNGMV--GATNYRLTLQDGGYLYDGQVRPFERRQAS 75
Query: 103 FSIIYVIGMTI---LTMSASVHGLKPLCDKRNVCHPTGLQIAVFFVGLYLIALGTGGIKP 159
+ + G T+ L + +SVHG P+ ++ + G +AV GL G ++
Sbjct: 76 YRLRQADGTTVDKPLEIRSSVHG--PVFERAD-----GTAVAVRVAGLDR----PGMLEQ 124
Query: 160 CVSSFGADQFDDYDEAEKKKKSSFFNWFY 188
AD FDDY+ A + + FN Y
Sbjct: 125 YFDMITADSFDDYEAALARMQVPTFNIVY 153
>pdb|2AE5|B Chain B, Glutaryl 7-Aminocephalosporanic Acid Acylase: Mutational
Study Of Activation Mechanism
Length = 528
Score = 32.0 bits (71), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 41/149 (27%), Positives = 63/149 (42%), Gaps = 20/149 (13%)
Query: 47 YGINTNLVNYLRFELNQ--GNVQAVNNVTNWSGTCYVMPL-IGAFLADAYLGRY-WTIAS 102
YG + +RF NQ G VN + T Y + L G +L D + + AS
Sbjct: 46 YGATQIGLPVIRFAFNQRMGITNTVNGMV--GATNYRLTLQDGGYLYDGQVRPFERRQAS 103
Query: 103 FSIIYVIGMTI---LTMSASVHGLKPLCDKRNVCHPTGLQIAVFFVGLYLIALGTGGIKP 159
+ + G T+ L + +SVHG P+ ++ + G +AV GL G ++
Sbjct: 104 YRLRQADGTTVDKPLEIRSSVHG--PVFERAD-----GTAVAVRVAGLDR----PGMLEQ 152
Query: 160 CVSSFGADQFDDYDEAEKKKKSSFFNWFY 188
AD FDDY+ A + + FN Y
Sbjct: 153 YFDMITADSFDDYEAALARMQVPTFNIVY 181
>pdb|2AE4|B Chain B, Glutaryl 7-Aminocephalosporanic Acid Acylase: Mutational
Study Of Activation Mechanism
pdb|3JTR|B Chain B, Mutations In Cephalosporin Acylase Affecting Stability And
Autoproteolysis
Length = 528
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 41/149 (27%), Positives = 63/149 (42%), Gaps = 20/149 (13%)
Query: 47 YGINTNLVNYLRFELNQ--GNVQAVNNVTNWSGTCYVMPLI-GAFLADAYLGRY-WTIAS 102
YG + +RF NQ G VN + T Y + L G +L D + + AS
Sbjct: 46 YGATQIGLPVIRFAFNQRMGITNTVNGMV--GATNYRLTLQDGGYLYDGQVRPFERRQAS 103
Query: 103 FSIIYVIGMTI---LTMSASVHGLKPLCDKRNVCHPTGLQIAVFFVGLYLIALGTGGIKP 159
+ + G T+ L + +SVHG P+ ++ + G +AV GL G ++
Sbjct: 104 YRLRQADGTTVDKPLEIRSSVHG--PVFERAD-----GTAVAVRVAGLDR----PGMLEQ 152
Query: 160 CVSSFGADQFDDYDEAEKKKKSSFFNWFY 188
AD FDDY+ A + + FN Y
Sbjct: 153 YFDMITADSFDDYEAALARMQVPTFNIVY 181
>pdb|1GK1|B Chain B, Structure-Based Prediction Of Modifications In
Glutarylamidase To Allow Single-Step Enzymatic
Production Of 7-Aminocephalosporanic Acid From
Cephalosporin C
pdb|1GK1|D Chain D, Structure-Based Prediction Of Modifications In
Glutarylamidase To Allow Single-Step Enzymatic
Production Of 7-Aminocephalosporanic Acid From
Cephalosporin C
Length = 522
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 41/149 (27%), Positives = 63/149 (42%), Gaps = 20/149 (13%)
Query: 47 YGINTNLVNYLRFELNQ--GNVQAVNNVTNWSGTCYVMPLI-GAFLADAYLGRY-WTIAS 102
YG + +RF NQ G VN + T Y + L G +L D + + AS
Sbjct: 46 YGATQIGLPVIRFAFNQRMGITNTVNGMV--GATNYRLTLQDGGYLYDGQVRPFERRQAS 103
Query: 103 FSIIYVIGMTI---LTMSASVHGLKPLCDKRNVCHPTGLQIAVFFVGLYLIALGTGGIKP 159
+ + G T+ L + +SVHG P+ ++ + G +AV GL G ++
Sbjct: 104 YRLRQADGTTVDKPLEIRSSVHG--PVFERAD-----GTAVAVRVAGLDR----PGMLEQ 152
Query: 160 CVSSFGADQFDDYDEAEKKKKSSFFNWFY 188
AD FDDY+ A + + FN Y
Sbjct: 153 YFDMITADSFDDYEAALARMQVPTFNIVY 181
>pdb|3JTQ|B Chain B, Mutations In Cephalosporin Acylase Affecting Stability And
Autoproteolysis
Length = 528
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 41/149 (27%), Positives = 63/149 (42%), Gaps = 20/149 (13%)
Query: 47 YGINTNLVNYLRFELNQ--GNVQAVNNVTNWSGTCYVMPLI-GAFLADAYLGRY-WTIAS 102
YG + +RF NQ G VN + T Y + L G +L D + + AS
Sbjct: 46 YGATQIGLPVIRFAFNQRMGITNTVNGMV--GATNYRLTLQDGGYLYDGQVRPFERRQAS 103
Query: 103 FSIIYVIGMTI---LTMSASVHGLKPLCDKRNVCHPTGLQIAVFFVGLYLIALGTGGIKP 159
+ + G T+ L + +SVHG P+ ++ + G +AV GL G ++
Sbjct: 104 YRLRQADGTTVDKPLEIRSSVHG--PVFERAD-----GTAVAVRVAGLDR----PGMLEQ 152
Query: 160 CVSSFGADQFDDYDEAEKKKKSSFFNWFY 188
AD FDDY+ A + + FN Y
Sbjct: 153 YFDMITADSFDDYEAALARMQVPTFNIVY 181
>pdb|3S8R|A Chain A, Crystal Structures Of Glutaryl 7-Aminocephalosporanic Acid
Acylase: Insight Into Autoproteolytic Activation
pdb|3S8R|B Chain B, Crystal Structures Of Glutaryl 7-Aminocephalosporanic Acid
Acylase: Insight Into Autoproteolytic Activation
Length = 697
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 41/149 (27%), Positives = 63/149 (42%), Gaps = 20/149 (13%)
Query: 47 YGINTNLVNYLRFELNQ--GNVQAVNNVTNWSGTCYVMPLI-GAFLADAYLGRY-WTIAS 102
YG + +RF NQ G VN + T Y + L G +L D + + AS
Sbjct: 215 YGATQIGLPVIRFAFNQRMGITNTVNGMV--GATNYRLTLQDGGYLYDGQVRPFERPQAS 272
Query: 103 FSIIYVIGMTI---LTMSASVHGLKPLCDKRNVCHPTGLQIAVFFVGLYLIALGTGGIKP 159
+ + G T+ L + +SVHG P+ ++ + G +AV GL G ++
Sbjct: 273 YRLRQADGTTVDKPLEIRSSVHG--PVFERAD-----GTAVAVRVAGLDR----PGMLEQ 321
Query: 160 CVSSFGADQFDDYDEAEKKKKSSFFNWFY 188
AD FDDY+ A + + FN Y
Sbjct: 322 YFDMITADSFDDYEAALARMQVPTFNIVY 350
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 0.140 0.445
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,985,516
Number of Sequences: 62578
Number of extensions: 646537
Number of successful extensions: 1449
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1440
Number of HSP's gapped (non-prelim): 12
length of query: 553
length of database: 14,973,337
effective HSP length: 104
effective length of query: 449
effective length of database: 8,465,225
effective search space: 3800886025
effective search space used: 3800886025
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)