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= 019095
(346 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3BWV|A Chain A, Crystal Structure Of Deoxyribonucleotidase-like Protein
(np_764060.1) From Staphylococcus Epidermidis Atcc 12228
At 1.55 A Resolution
pdb|3BWV|B Chain B, Crystal Structure Of Deoxyribonucleotidase-like Protein
(np_764060.1) From Staphylococcus Epidermidis Atcc 12228
At 1.55 A Resolution
Length = 180
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 36/149 (24%), Positives = 65/149 (43%), Gaps = 18/149 (12%)
Query: 146 VAVDVDEVLGNFVSALNRFIADRYSLNHSVSEYHVYEFFKIWNCSRDEADLRVHEFFKTP 205
+A+D DEVL + + A+ + + +R LN + K E + V + K P
Sbjct: 7 IAIDXDEVLADTLGAVVKAVNERADLNIKXESLNG----KKLKHXIPEHEGLVXDILKEP 62
Query: 206 YFKTGIHPLPGAQKALHKLSRYCNLSVVTSRQHVIKD--HTIEWIEKHYPGLFQEIHFGN 263
F + P AQ+ + +L+ + ++ + T+ V EW+ +++P L +
Sbjct: 63 GFFRNLDVXPHAQEVVKQLNEHYDIYIATAAXDVPTSFHDKYEWLLEYFPFLDPQ----- 117
Query: 264 HFALAGKSRPKSDICRSLGAKVLIDDNPR 292
HF G+ + A LIDDNP+
Sbjct: 118 HFVFCGRK-------NIILADYLIDDNPK 139
>pdb|3HZZ|A Chain A, 2.4 Angstrom Crystal Structure Of Streptomyces Collinus
Crotonyl Coa CarboxylaseREDUCTASE
pdb|3HZZ|B Chain B, 2.4 Angstrom Crystal Structure Of Streptomyces Collinus
Crotonyl Coa CarboxylaseREDUCTASE
pdb|3HZZ|C Chain C, 2.4 Angstrom Crystal Structure Of Streptomyces Collinus
Crotonyl Coa CarboxylaseREDUCTASE
pdb|3HZZ|D Chain D, 2.4 Angstrom Crystal Structure Of Streptomyces Collinus
Crotonyl Coa CarboxylaseREDUCTASE
Length = 467
Score = 34.7 bits (78), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 23/38 (60%), Gaps = 8/38 (21%)
Query: 261 FGNHFALAGKSRP--------KSDICRSLGAKVLIDDN 290
+ FALAG + P K++ICRS+GA+ +ID N
Sbjct: 262 YATQFALAGGANPICVVSSPQKAEICRSMGAEAIIDRN 299
>pdb|3KRT|A Chain A, Crystal Structure Of Putative Crotonyl Coa Reductase From
Streptomyces Coelicolor A3(2)
pdb|3KRT|B Chain B, Crystal Structure Of Putative Crotonyl Coa Reductase From
Streptomyces Coelicolor A3(2)
pdb|3KRT|C Chain C, Crystal Structure Of Putative Crotonyl Coa Reductase From
Streptomyces Coelicolor A3(2)
pdb|3KRT|D Chain D, Crystal Structure Of Putative Crotonyl Coa Reductase From
Streptomyces Coelicolor A3(2)
Length = 456
Score = 33.5 bits (75), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 23/38 (60%), Gaps = 8/38 (21%)
Query: 261 FGNHFALAGKSRP--------KSDICRSLGAKVLIDDN 290
+ FALAG + P K++ICR++GA+ +ID N
Sbjct: 244 YATQFALAGGANPICVVSSPQKAEICRAMGAEAIIDRN 281
>pdb|1RPU|A Chain A, Crystal Structure Of Cirv P19 Bound To Sirna
pdb|1RPU|B Chain B, Crystal Structure Of Cirv P19 Bound To Sirna
Length = 172
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 36/87 (41%), Gaps = 13/87 (14%)
Query: 92 DQKVGAFAPPQRVPHLEIAAAEGCTDARLVNGRGSSERGNPLGFFDSHLHGKIV------ 145
D G P ++P + T+ RL N +S + NPLGF +S GK+V
Sbjct: 20 DGGSGGITSPFKLPD----ESPSWTEWRLYNDETNSNQDNPLGFKESWGFGKVVFKRYLR 75
Query: 146 ---VAVDVDEVLGNFVSALNRFIADRY 169
+ VLG++ + A R+
Sbjct: 76 YDRTEASLHRVLGSWTGDSVNYAASRF 102
>pdb|1R9F|A Chain A, Crystal Structure Of P19 Complexed With 19-Bp Small
Interfering Rna
Length = 136
Score = 28.5 bits (62), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 34/69 (49%), Gaps = 4/69 (5%)
Query: 116 TDARLVNGRGSSERGNPLGFFDSHLHGKIVVA--VDVDEVLGNFVSALNRFIADRYSLNH 173
T+ RL N +S + NPLGF +S GK+V + D + L + D S+N+
Sbjct: 18 TEWRLHNDETNSNQDNPLGFKESWGFGKVVFKRYLRYDRTEASLHRVLGSWTGD--SVNY 75
Query: 174 SVSEYHVYE 182
+ S + ++
Sbjct: 76 AASRFFGFD 84
>pdb|2ERC|A Chain A, Crystal Structure Of Ermc' A Rrna-Methyl Transferase
pdb|2ERC|B Chain B, Crystal Structure Of Ermc' A Rrna-Methyl Transferase
pdb|1QAM|A Chain A, The Structure Of The Rrna Methyltransferase Ermc':
Implications For The Reaction Mechanism
pdb|1QAN|A Chain A, The Structure Of The Rrna Methyltransferase Ermc':
Implications For The Reaction Mechanism
pdb|1QAO|A Chain A, The Structure Of The Rrna Methyltransferase Ermc':
Implications For The Reaction Mechanism
pdb|1QAQ|A Chain A, The Structure Of The Rrna Methyltransferase Ermc':
Implications For The Reaction Mechanism
Length = 244
Score = 27.7 bits (60), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 31/77 (40%), Gaps = 5/77 (6%)
Query: 193 EADLRVHEFFKTPYFKTGIHPLPGAQKALHKLSRYCNLSVVTSRQHVIKDHTIEWIEKHY 252
E D+ + YF HP P +L +L+R + +Q ++W+ K Y
Sbjct: 149 EVDISILSMVPREYF----HPKPKVNSSLIRLNRKKSRISHKDKQKY-NYFVMKWVNKEY 203
Query: 253 PGLFQEIHFGNHFALAG 269
+F + F N AG
Sbjct: 204 KKIFTKNQFNNSLKHAG 220
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
0.323 0.139 0.439
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,074,124
Number of Sequences: 62578
Number of extensions: 400160
Number of successful extensions: 723
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 720
Number of HSP's gapped (non-prelim): 10
length of query: 346
length of database: 14,973,337
effective HSP length: 100
effective length of query: 246
effective length of database: 8,715,537
effective search space: 2144022102
effective search space used: 2144022102
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 52 (24.6 bits)