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= 011769
(478 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3ZQD|A Chain A, B. Subtilis L,D-Transpeptidase
pdb|4A52|A Chain A, Nmr Structure Of The Imipenem-Acylated L,D-Transpeptidase
From Bacillus Subtilis
Length = 175
Score = 36.6 bits (83), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 42/86 (48%), Gaps = 9/86 (10%)
Query: 25 NKMGKAFPIY--SMVIAPPNCSFGVINRAKNGFNPAIMCCGSVSDQHASDYITINPSGVG 82
N++ K +PI ++ P F +INR +N P S+S QH + T NP+ +G
Sbjct: 76 NRVMKTYPIAVGKILTQTPTGEFYIINRQRNPGGPFGAYWLSLSKQHYGIHGTNNPASIG 135
Query: 83 ESESRKSAATSQSCVQNVQLDLIMLS 108
+ A S+ C++ D+I L+
Sbjct: 136 K-------AVSKGCIRMHNKDVIELA 154
>pdb|1DIO|A Chain A, Diol Dehydratase-Cyanocobalamin Complex From Klebsiella
Oxytoca
pdb|1DIO|L Chain L, Diol Dehydratase-Cyanocobalamin Complex From Klebsiella
Oxytoca
pdb|1EGM|A Chain A, Crystal Structure Of Diol Dehydratase-Cyanocobalamin
Complex At 100k.
pdb|1EGM|L Chain L, Crystal Structure Of Diol Dehydratase-Cyanocobalamin
Complex At 100k.
pdb|1EEX|A Chain A, Crystal Structure Of The Diol Dehydratase-
Adeninylpentylcobalamin Complex From Klebsiella Oxytoca
pdb|1EEX|L Chain L, Crystal Structure Of The Diol Dehydratase-
Adeninylpentylcobalamin Complex From Klebsiella Oxytoca
pdb|1EGV|A Chain A, Crystal Structure Of The Diol Dehydratase-
Adeninylpentylcobalamin Complex From Klebsella Oxytoca
Under The Illuminated Condition.
pdb|1EGV|L Chain L, Crystal Structure Of The Diol Dehydratase-
Adeninylpentylcobalamin Complex From Klebsella Oxytoca
Under The Illuminated Condition.
pdb|1IWB|A Chain A, Crystal Structure Of Diol Dehydratase
pdb|1IWB|L Chain L, Crystal Structure Of Diol Dehydratase
pdb|1UC4|A Chain A, Structure Of Diol Dehydratase Complexed With (S)-1,2-
Propanediol
pdb|1UC4|L Chain L, Structure Of Diol Dehydratase Complexed With (S)-1,2-
Propanediol
pdb|1UC5|A Chain A, Structure Of Diol Dehydratase Complexed With (r)-1,2-
Propanediol
pdb|1UC5|L Chain L, Structure Of Diol Dehydratase Complexed With (r)-1,2-
Propanediol
pdb|3AUJ|A Chain A, Structure Of Diol Dehydratase Complexed With Glycerol
pdb|3AUJ|L Chain L, Structure Of Diol Dehydratase Complexed With Glycerol
Length = 554
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/102 (19%), Positives = 43/102 (42%), Gaps = 6/102 (5%)
Query: 192 CDESTDRKLLPSVSTALVLALTIGILEALAMYFGSGLFLDIMGISSASSMRIPAQRFLSL 251
CD + R + ++TA+ A + ++ + + +M + + R P+Q+
Sbjct: 92 CDPNVKRSEIVPLTTAMTPAKIVEVVSHM------NVVEMMMAMQKMRARRTPSQQAHVT 145
Query: 252 RAIGAPAVVLSLAIQGIFRGFKDTRTPVFCLGLGNFSAVFMF 293
P + + A +G +RGF + T V F+A+ +
Sbjct: 146 NVKDNPVQIAADAAEGAWRGFDEQETTVAVARYAPFNAIALL 187
>pdb|4HUK|A Chain A, Mate Transporter Norm-ng In Complex With Tpp And Monobody
pdb|4HUL|A Chain A, Mate Transporter Norm-ng In Complex With Cs+ And Monobody
pdb|4HUM|A Chain A, Mate Transporter Norm-ng In Complex With Ethidium And
Monobody
pdb|4HUN|A Chain A, Mate Transporter Norm-ng In Complex With R6g And Monobody
Length = 459
Score = 30.0 bits (66), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 38/76 (50%), Gaps = 3/76 (3%)
Query: 270 RGFKDTRTPVFCLGLGNFSAVFMFP--MLMYYFKLGVTGAAISTVGSQYMVTLLMIWYLN 327
RG+K T+ P+F + F + P +L Y F +G+ G + + S + + ++W L
Sbjct: 384 RGYKVTKVPMF-IHAAAFWGCGLLPGYLLAYRFDMGIYGFWTALIASLTIAAVALVWCLE 442
Query: 328 KRTILSIPNMKNLHFG 343
K ++ + + K + G
Sbjct: 443 KYSMELVKSHKAVSSG 458
>pdb|1FBL|A Chain A, Structure Of Full-Length Porcine Synovial Collagenase
(Mmp1) Reveals A C-Terminal Domain Containing A
Calcium-Linked, Four-Bladed Beta- Propeller
Length = 370
Score = 29.6 bits (65), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 20/34 (58%)
Query: 382 QICLQVWLSVSMLADAQAASGQALIASSFAKGDY 415
+ Q+W +VS L + + GQA I SF +GD+
Sbjct: 36 EKAFQLWSNVSPLTFTKVSEGQADIMISFVRGDH 69
>pdb|3PK0|A Chain A, Crystal Structure Of Short-Chain DehydrogenaseREDUCTASE
SDR FROM Mycobacterium Smegmatis
pdb|3PK0|B Chain B, Crystal Structure Of Short-Chain DehydrogenaseREDUCTASE
SDR FROM Mycobacterium Smegmatis
pdb|3PK0|C Chain C, Crystal Structure Of Short-Chain DehydrogenaseREDUCTASE
SDR FROM Mycobacterium Smegmatis
pdb|3PK0|D Chain D, Crystal Structure Of Short-Chain DehydrogenaseREDUCTASE
SDR FROM Mycobacterium Smegmatis
Length = 262
Score = 28.5 bits (62), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 42/90 (46%), Gaps = 12/90 (13%)
Query: 372 RQGALAMAAHQICLQVWLSVSMLADAQAASGQALIAS---SFAKGDYNTVKEITHFAL-- 426
R A+ +A H+I + + +++ + +G+ IAS S G T ++I H A
Sbjct: 173 RTAAIELAPHKITVNAIMPGNIMTEGLLENGEEYIASMARSIPAGALGTPEDIGHLAAFL 232
Query: 427 ---KTGLFTGVTLAV----ILGASFNYLAT 449
+ G TG +AV +L S + +AT
Sbjct: 233 ATKEAGYITGQAIAVDGGQVLPESLDAIAT 262
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
0.324 0.135 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,923,527
Number of Sequences: 62578
Number of extensions: 386016
Number of successful extensions: 1085
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1081
Number of HSP's gapped (non-prelim): 7
length of query: 478
length of database: 14,973,337
effective HSP length: 103
effective length of query: 375
effective length of database: 8,527,803
effective search space: 3197926125
effective search space used: 3197926125
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)