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= 042648
(356 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3KVN|X Chain X, Crystal Structure Of The Full-Length Autotransporter Esta
From Pseudomonas Aeruginosa
pdb|3KVN|A Chain A, Crystal Structure Of The Full-Length Autotransporter Esta
From Pseudomonas Aeruginosa
Length = 632
Score = 33.5 bits (75), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 78/339 (23%), Positives = 129/339 (38%), Gaps = 76/339 (22%)
Query: 35 LIAFGDSIVDTGNNNDLRTISKCDFP-PYGKDFQGGVATGRFSN--------------GK 79
L+ FGDS+ D G FP P G +T RF+N G
Sbjct: 18 LVVFGDSLSDAGQ-----------FPDPAGP----AGSTSRFTNRVGPTYQNGSGEIFGP 62
Query: 80 VPADIIAEELGIKEL-LPAYVGQALSSRDLVTGVCFASGG----SGYDPMTSKLVSVLSL 134
++ +LGI L A + + + G +A GG YD +T+ S++
Sbjct: 63 TAPMLLGNQLGIAPGDLAASTSPVNAQQGIADGNNWAVGGYRTDQIYDSITAANGSLIER 122
Query: 135 SDQIEYFKDYIMKLKLLVGENKTNFILAKGLFLVVAGSDDIANTYFTLRARKLQYDIPAY 194
+ + +D + + G L+ + G +D L+ R L
Sbjct: 123 DNTLLRSRDGYLVDRARQGLGAD----PNALYYITGGGNDF------LQGRIL------- 165
Query: 195 TDLMANSAS----DFLNELYELGARRVAVFGAPPIGCLPAQRTLAGGNARECAENFNQAS 250
D+ A A+ D + L + GAR + V+ P +G PA GG + A +Q S
Sbjct: 166 NDVQAQQAAGRLVDSVQALQQAGARYIVVWLLPDLGLTPA---TFGGPLQPFA---SQLS 219
Query: 251 QLFNKKLSAKLDSIKNSLPGSRMVFIDVYNPFLDLIQNPKKHGFEVVNE--GCCGTGN-- 306
FN +L+A+L S G+ ++ +++ + + NP G G C +GN
Sbjct: 220 GTFNAELTAQL-----SQAGANVIPLNIPLLLKEGMANPASFGLAADQNLIGTCFSGNGC 274
Query: 307 -LEVAVLCNAWTSTTCSNDSSHVFWDSYHPTERAYRVLV 344
+ N + + S +F DS HPT R++
Sbjct: 275 TMNPTYGING----STPDPSKLLFNDSVHPTITGQRLIA 309
>pdb|2B5D|X Chain X, Crystal Structure Of The Novel Alpha-Amylase Amyc From
Thermotoga Maritima
Length = 528
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 36/160 (22%), Positives = 58/160 (36%), Gaps = 19/160 (11%)
Query: 105 SRDLVTGVCFASGGSGY--DPMTSKLVSVLSLSDQIEYFKDYIMKLKLLVGEN-KTNFIL 161
+RD + S GY DP + + ++EY KDYI + + K + I
Sbjct: 236 ARDPESSEQVWSAAVGYPGDPRYREFYRDIGFDREMEYIKDYIDPSGVRINTGIKYHRIT 295
Query: 162 AKGLFLVVAGSDDIANTYFTLRARKLQYDIPAYTDLMANSASDFLNELYELGARRVAVFG 221
+K L ++K YDI + + A DFL++ R + + G
Sbjct: 296 SKSLDA----------------SQKEYYDIDLAMEAVEEHARDFLHKKESQARRLMDIMG 339
Query: 222 APPIGCLPAQRTLAGGNARECAENFNQASQLFNKKLSAKL 261
P+ P L G E + +L N+ KL
Sbjct: 340 VEPVIVAPFDAELFGHWWFEGVFFLKRFFELVNESKDLKL 379
>pdb|2ZAD|A Chain A, Crystal Structure Of Muconate Cycloisomerase From
Thermotoga Maritima Msb8
pdb|2ZAD|B Chain B, Crystal Structure Of Muconate Cycloisomerase From
Thermotoga Maritima Msb8
pdb|2ZAD|C Chain C, Crystal Structure Of Muconate Cycloisomerase From
Thermotoga Maritima Msb8
pdb|2ZAD|D Chain D, Crystal Structure Of Muconate Cycloisomerase From
Thermotoga Maritima Msb8
Length = 345
Score = 29.3 bits (64), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 30/123 (24%), Positives = 54/123 (43%), Gaps = 19/123 (15%)
Query: 105 SRDLVTGVCFASGGSGYDPMTSKLVSVLSLSDQI----EYFKDYIMKLKLLVGENKTNFI 160
S++L T VC+ GG + T K V + ++ +++ + F++ +K+ VGEN I
Sbjct: 111 SQELGTQVCYLLGGKRDEIETDKTVGIDTVENRVKEAKKIFEEGFRVIKIKVGENLKEDI 170
Query: 161 LAKGLFLVVAGSDDIANTYFTLRARKLQYDIPAYTDLMANSASDFLNELYELGARRVAVF 220
A ++IA R +Y + A A +F +Y+ G +AV+
Sbjct: 171 EA---------VEEIAKV-----TRGAKYIVDANXGYTQKEAVEFARAVYQKGI-DIAVY 215
Query: 221 GAP 223
P
Sbjct: 216 EQP 218
>pdb|3DFY|A Chain A, Crystal Structure Of Apo Dipeptide Epimerase From
Thermotoga Maritima
pdb|3DFY|B Chain B, Crystal Structure Of Apo Dipeptide Epimerase From
Thermotoga Maritima
pdb|3DFY|C Chain C, Crystal Structure Of Apo Dipeptide Epimerase From
Thermotoga Maritima
pdb|3DFY|D Chain D, Crystal Structure Of Apo Dipeptide Epimerase From
Thermotoga Maritima
pdb|3DFY|E Chain E, Crystal Structure Of Apo Dipeptide Epimerase From
Thermotoga Maritima
pdb|3DFY|F Chain F, Crystal Structure Of Apo Dipeptide Epimerase From
Thermotoga Maritima
pdb|3DFY|G Chain G, Crystal Structure Of Apo Dipeptide Epimerase From
Thermotoga Maritima
pdb|3DFY|H Chain H, Crystal Structure Of Apo Dipeptide Epimerase From
Thermotoga Maritima
pdb|3DFY|I Chain I, Crystal Structure Of Apo Dipeptide Epimerase From
Thermotoga Maritima
pdb|3DFY|J Chain J, Crystal Structure Of Apo Dipeptide Epimerase From
Thermotoga Maritima
pdb|3DFY|K Chain K, Crystal Structure Of Apo Dipeptide Epimerase From
Thermotoga Maritima
pdb|3DFY|L Chain L, Crystal Structure Of Apo Dipeptide Epimerase From
Thermotoga Maritima
pdb|3DFY|M Chain M, Crystal Structure Of Apo Dipeptide Epimerase From
Thermotoga Maritima
pdb|3DFY|N Chain N, Crystal Structure Of Apo Dipeptide Epimerase From
Thermotoga Maritima
pdb|3DFY|O Chain O, Crystal Structure Of Apo Dipeptide Epimerase From
Thermotoga Maritima
pdb|3DFY|P Chain P, Crystal Structure Of Apo Dipeptide Epimerase From
Thermotoga Maritima
pdb|3DEQ|A Chain A, Crystal Structure Of Dipeptide Epimerase From Thermotoga
Maritima Complexed With L-Ala-L-Leu Dipeptide
pdb|3DEQ|B Chain B, Crystal Structure Of Dipeptide Epimerase From Thermotoga
Maritima Complexed With L-Ala-L-Leu Dipeptide
pdb|3DEQ|C Chain C, Crystal Structure Of Dipeptide Epimerase From Thermotoga
Maritima Complexed With L-Ala-L-Leu Dipeptide
pdb|3DEQ|D Chain D, Crystal Structure Of Dipeptide Epimerase From Thermotoga
Maritima Complexed With L-Ala-L-Leu Dipeptide
pdb|3DER|A Chain A, Crystal Structure Of Dipeptide Epimerase From Thermotoga
Maritima Complexed With L-Ala-L-Lys Dipeptide
pdb|3DER|B Chain B, Crystal Structure Of Dipeptide Epimerase From Thermotoga
Maritima Complexed With L-Ala-L-Lys Dipeptide
pdb|3DER|C Chain C, Crystal Structure Of Dipeptide Epimerase From Thermotoga
Maritima Complexed With L-Ala-L-Lys Dipeptide
pdb|3DER|D Chain D, Crystal Structure Of Dipeptide Epimerase From Thermotoga
Maritima Complexed With L-Ala-L-Lys Dipeptide
pdb|3DES|A Chain A, Crystal Structure Of Dipeptide Epimerase From Thermotoga
Maritima Complexed With L-Ala-L-Phe Dipeptide
pdb|3DES|B Chain B, Crystal Structure Of Dipeptide Epimerase From Thermotoga
Maritima Complexed With L-Ala-L-Phe Dipeptide
pdb|3DES|C Chain C, Crystal Structure Of Dipeptide Epimerase From Thermotoga
Maritima Complexed With L-Ala-L-Phe Dipeptide
pdb|3DES|D Chain D, Crystal Structure Of Dipeptide Epimerase From Thermotoga
Maritima Complexed With L-Ala-L-Phe Dipeptide
Length = 345
Score = 28.9 bits (63), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 30/123 (24%), Positives = 54/123 (43%), Gaps = 19/123 (15%)
Query: 105 SRDLVTGVCFASGGSGYDPMTSKLVSVLSLSDQI----EYFKDYIMKLKLLVGENKTNFI 160
S++L T VC+ GG + T K V + ++ +++ + F++ +K+ VGEN I
Sbjct: 111 SQELGTQVCYLLGGKRDEIETDKTVGIDTVENRVKEAKKIFEEGFRVIKIKVGENLKEDI 170
Query: 161 LAKGLFLVVAGSDDIANTYFTLRARKLQYDIPAYTDLMANSASDFLNELYELGARRVAVF 220
A ++IA R +Y + A A +F +Y+ G +AV+
Sbjct: 171 EA---------VEEIAKV-----TRGAKYIVDANMGYTQKEAVEFARAVYQKGI-DIAVY 215
Query: 221 GAP 223
P
Sbjct: 216 EQP 218
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
0.320 0.137 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,880,681
Number of Sequences: 62578
Number of extensions: 462565
Number of successful extensions: 1024
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1023
Number of HSP's gapped (non-prelim): 7
length of query: 356
length of database: 14,973,337
effective HSP length: 100
effective length of query: 256
effective length of database: 8,715,537
effective search space: 2231177472
effective search space used: 2231177472
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)