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= 026403
(239 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1P9O|A Chain A, Crystal Structure Of Phosphopantothenoylcysteine
Synthetase
pdb|1P9O|B Chain B, Crystal Structure Of Phosphopantothenoylcysteine
Synthetase
Length = 313
Score = 185 bits (470), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 95/199 (47%), Positives = 120/199 (60%), Gaps = 5/199 (2%)
Query: 43 RRVACVTSGGTTVPLEQRCVRYIDNFSSGHRGAASTEHLIKMGYAVIFLYRRGTCEPYCS 102
RRV VTSGGT VPLE R VR++DNFSSG RGA S E + GY V+FLYR + PY
Sbjct: 37 RRVVLVTSGGTKVPLEARPVRFLDNFSSGRRGATSAEAFLAAGYGVLFLYRARSAFPYAH 96
Query: 103 SLPDDAFLECFEVTEESAVQVCQPYSE-----AVKRAIRDHHAAVAGGLLLKLPFTTIFE 157
P +L + + + +E A+R + A A G L + FTT+ +
Sbjct: 97 RFPPQTWLSALRPSGPALSGLLSLEAEENALPGFAEALRSYQEAAAAGTFLVVEFTTLAD 156
Query: 158 YLQMLQMIAVSSRSLGPCSMFYLAAAVSDFYVPWKSMAEHKIQSGSGPLDMQLLQVPKML 217
YL +LQ A + LGP +MFYLAAAVSDFYVP M EHKI+S GPL + + VPK+L
Sbjct: 157 YLHLLQAAAQALNPLGPSAMFYLAAAVSDFYVPVSEMPEHKIESSGGPLQITMKMVPKLL 216
Query: 218 SVLRKEWAPMAFCISFKMQ 236
S L K+WAP AF ISFK++
Sbjct: 217 SPLVKDWAPKAFIISFKLE 235
>pdb|2GK4|A Chain A, The Crystal Structure Of The Dna/pantothenate Metabolism
Flavoprotein From Streptococcus Pneumoniae
pdb|2GK4|B Chain B, The Crystal Structure Of The Dna/pantothenate Metabolism
Flavoprotein From Streptococcus Pneumoniae
Length = 232
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 29/53 (54%), Gaps = 2/53 (3%)
Query: 47 CVTSGGTTVPLEQRCVRYIDNFSSGHRGAASTEHLIKMGYAVIFLYRRGTCEP 99
VTSGGT+ ++ VR I N S+GH G TE L+ GY V + + +P
Sbjct: 7 LVTSGGTSEAID--SVRSITNHSTGHLGKIITETLLSAGYEVCLITTKRALKP 57
>pdb|4HHT|A Chain A, T. Maritima Rnase H2 G21s In Complex With Nucleic Acid
Substrate And Calcium Ions
Length = 237
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 21/43 (48%)
Query: 72 HRGAASTEHLIKMGYAVIFLYRRGTCEPYCSSLPDDAFLECFE 114
H+G A+ EHL ++ + R + EP L DD E FE
Sbjct: 159 HKGYATKEHLNEIRKNGVLPIHRLSFEPVLELLTDDLLREFFE 201
>pdb|3O3F|A Chain A, T. Maritima Rnase H2 D107n In Complex With Nucleic Acid
Substrate And Magnesium Ions
pdb|3O3H|A Chain A, T. Maritima Rnase H2 D107n In Complex With Nucleic Acid
Substrate And Manganese Ions
Length = 222
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 21/43 (48%)
Query: 72 HRGAASTEHLIKMGYAVIFLYRRGTCEPYCSSLPDDAFLECFE 114
H+G A+ EHL ++ + R + EP L DD E FE
Sbjct: 159 HKGYATKEHLNEIRKNGVLPIHRLSFEPVLELLTDDLLREFFE 201
>pdb|3O3G|A Chain A, T. Maritima Rnase H2 In Complex With Nucleic Acid
Substrate And Calcium Ions
Length = 222
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 21/43 (48%)
Query: 72 HRGAASTEHLIKMGYAVIFLYRRGTCEPYCSSLPDDAFLECFE 114
H+G A+ EHL ++ + R + EP L DD E FE
Sbjct: 159 HKGYATKEHLNEIRKNGVLPIHRLSFEPVLELLTDDLLREFFE 201
>pdb|2GB3|A Chain A, Crystal Structure Of Aspartate Aminotransferase (Tm1698)
From Thermotoga Maritima At 2.50 A Resolution
pdb|2GB3|B Chain B, Crystal Structure Of Aspartate Aminotransferase (Tm1698)
From Thermotoga Maritima At 2.50 A Resolution
pdb|2GB3|C Chain C, Crystal Structure Of Aspartate Aminotransferase (Tm1698)
From Thermotoga Maritima At 2.50 A Resolution
pdb|2GB3|D Chain D, Crystal Structure Of Aspartate Aminotransferase (Tm1698)
From Thermotoga Maritima At 2.50 A Resolution
pdb|2GB3|E Chain E, Crystal Structure Of Aspartate Aminotransferase (Tm1698)
From Thermotoga Maritima At 2.50 A Resolution
pdb|2GB3|F Chain F, Crystal Structure Of Aspartate Aminotransferase (Tm1698)
From Thermotoga Maritima At 2.50 A Resolution
Length = 409
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 21/55 (38%), Positives = 30/55 (54%), Gaps = 5/55 (9%)
Query: 107 DAFLECFEVTEESAVQVCQPYSE-AVKRAIRDHHAAVAGGLLLKLP---FTTIFE 157
D F + +TEES ++ P++E A KR +R HH + G LK P F I+E
Sbjct: 14 DVFSDRVLLTEESPIRKLVPFAEXAKKRGVRIHHLNI-GQPDLKTPEVFFERIYE 67
>pdb|2ETJ|A Chain A, Crystal Structure Of Ribonuclease Hii (ec 3.1.26.4) (rnase
Hii) (tm0915) From Thermotoga Maritima At 1.74 A
Resolution
Length = 250
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 21/43 (48%)
Query: 72 HRGAASTEHLIKMGYAVIFLYRRGTCEPYCSSLPDDAFLECFE 114
H+G A+ EHL ++ + R + EP L DD E FE
Sbjct: 172 HKGYATKEHLNEIRKNGVLPIHRLSFEPVLELLTDDLLREFFE 214
>pdb|1ZUJ|A Chain A, The Crystal Structure Of The Lactococcus Lactis Mg1363
Dpsa Protein
pdb|1ZUJ|B Chain B, The Crystal Structure Of The Lactococcus Lactis Mg1363
Dpsa Protein
pdb|1ZUJ|C Chain C, The Crystal Structure Of The Lactococcus Lactis Mg1363
Dpsa Protein
pdb|1ZUJ|D Chain D, The Crystal Structure Of The Lactococcus Lactis Mg1363
Dpsa Protein
Length = 179
Score = 27.3 bits (59), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 11/43 (25%), Positives = 22/43 (51%)
Query: 121 VQVCQPYSEAVKRAIRDHHAAVAGGLLLKLPFTTIFEYLQMLQ 163
+ + + Y VK++ DHH AG +L + +E + ++Q
Sbjct: 4 LSIDEKYEAEVKKSEIDHHKPTAGAMLSHVLSNIFYEKISLMQ 46
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
0.322 0.133 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,478,836
Number of Sequences: 62578
Number of extensions: 228079
Number of successful extensions: 492
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 482
Number of HSP's gapped (non-prelim): 10
length of query: 239
length of database: 14,973,337
effective HSP length: 96
effective length of query: 143
effective length of database: 8,965,849
effective search space: 1282116407
effective search space used: 1282116407
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 50 (23.9 bits)