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= 038717
(100 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1R94|A Chain A, Crystal Structure Of Isca (mercury Derivative)
pdb|1R94|B Chain B, Crystal Structure Of Isca (mercury Derivative)
pdb|1R95|A Chain A, Crystal Structure Of Isca (Native)
pdb|1R95|B Chain B, Crystal Structure Of Isca (Native)
Length = 118
Score = 89.4 bits (220), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 40/80 (50%), Positives = 56/80 (70%)
Query: 7 LKLGVKARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPKALMHVIGTKMDFVDDKLR 66
L+LGV+ GC+G++Y L + DE D + EDKGVK+++D K+L + GT++DFV + L
Sbjct: 26 LRLGVRTSGCSGMAYVLEFVDEPTPEDIVFEDKGVKVVVDGKSLQFLDGTQLDFVKEGLN 85
Query: 67 SEFVFINPNSKGQCGCGESF 86
F F NPN K +CGCGESF
Sbjct: 86 EGFKFTNPNVKDECGCGESF 105
>pdb|1S98|A Chain A, E.Coli Isca Crystal Structure To 2.3 A
pdb|1S98|B Chain B, E.Coli Isca Crystal Structure To 2.3 A
Length = 107
Score = 88.6 bits (218), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 39/80 (48%), Positives = 56/80 (70%)
Query: 7 LKLGVKARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPKALMHVIGTKMDFVDDKLR 66
L+LGV+ GC+G++Y L + DE D + EDKGVK+++D K++ + GT++DFV + L
Sbjct: 26 LRLGVRTSGCSGMAYVLEFVDEPTPEDIVFEDKGVKVVVDGKSMQFLDGTQLDFVKEGLN 85
Query: 67 SEFVFINPNSKGQCGCGESF 86
F F NPN K +CGCGESF
Sbjct: 86 EGFKFTNPNVKDECGCGESF 105
>pdb|1NWB|A Chain A, Solution Nmr Structure Of Protein Aq_1857 From Aquifex
Aeolicus: Northeast Structural Genomics Consortium
Target Qr6
Length = 124
Score = 72.0 bits (175), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 32/84 (38%), Positives = 50/84 (59%)
Query: 3 QRPYLKLGVKARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPKALMHVIGTKMDFVD 62
+ P L++ V GC+G Y + + D + D + E GVK++IDP ++ +V G ++D+V
Sbjct: 30 ENPILRIRVVPGGCSGFQYAMGFDDTVEEGDHVFEYDGVKVVIDPFSMPYVNGAELDYVV 89
Query: 63 DKLRSEFVFINPNSKGQCGCGESF 86
D + F NPN+ G CGCG SF
Sbjct: 90 DFMGGGFTIRNPNATGSCGCGSSF 113
>pdb|2D2A|A Chain A, Crystal Structure Of Escherichia Coli Sufa Involved In
Biosynthesis Of Iron-Sulfur Clusters
pdb|2D2A|B Chain B, Crystal Structure Of Escherichia Coli Sufa Involved In
Biosynthesis Of Iron-Sulfur Clusters
Length = 145
Score = 70.9 bits (172), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 34/80 (42%), Positives = 48/80 (60%)
Query: 7 LKLGVKARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPKALMHVIGTKMDFVDDKLR 66
++LGVK GC G Y L+ E K D L E G K+ + +A+ + GT++DFV + L
Sbjct: 64 VRLGVKQTGCAGFGYVLDSVSEPDKDDLLFEHDGAKLFVPLQAMPFIDGTEVDFVREGLN 123
Query: 67 SEFVFINPNSKGQCGCGESF 86
F F NP ++ +CGCGESF
Sbjct: 124 QIFKFHNPKAQNECGCGESF 143
>pdb|2APN|A Chain A, Hi1723 Solution Structure
Length = 114
Score = 61.6 bits (148), Expect = 9e-11, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 45/80 (56%)
Query: 7 LKLGVKARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPKALMHVIGTKMDFVDDKLR 66
L++ + GC+G Y + ++ D +E GV+++IDP +L ++IG +D+ +
Sbjct: 33 LRVYITGGGCSGFQYGFTFDEKVNDGDLTIEKSGVQLVIDPMSLQYLIGGTVDYTEGLEG 92
Query: 67 SEFVFINPNSKGQCGCGESF 86
S F NPN+ CGCG SF
Sbjct: 93 SRFTVNNPNATSTCGCGSSF 112
>pdb|1X0G|A Chain A, Crystal Structure Of Isca With The [2fe-2s] Cluster
pdb|1X0G|B Chain B, Crystal Structure Of Isca With The [2fe-2s] Cluster
pdb|1X0G|C Chain C, Crystal Structure Of Isca With The [2fe-2s] Cluster
pdb|1X0G|D Chain D, Crystal Structure Of Isca With The [2fe-2s] Cluster
Length = 112
Score = 46.2 bits (108), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 43/89 (48%)
Query: 3 QRPYLKLGVKARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPKALMHVIGTKMDFVD 62
Q L++ V+ C Y L E D L + +G I I +A + G ++D+++
Sbjct: 24 QAAILRIQVQPSECGDWRYDLALVAEPKPTDLLTQSQGWTIAIAAEAAELLRGLRVDYIE 83
Query: 63 DKLRSEFVFINPNSKGQCGCGESFMTTSS 91
D + F F NPN+ CGCG +F + S
Sbjct: 84 DLMGGAFRFHNPNASQTCGCGMAFRVSRS 112
>pdb|2K4Z|A Chain A, Solution Nmr Structure Of Allochromatium Vinosum Dsrr:
Northeast Structural Genomics Consortium Target Op5
Length = 125
Score = 32.7 bits (73), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 32/55 (58%), Gaps = 7/55 (12%)
Query: 27 DERAKFDELVED------KGVKILIDPKALMHVIGTKMDFVD-DKLRSEFVFINP 74
D R FD+L ED +GV+I+I P + + T +D+V+ + + F+F+NP
Sbjct: 60 DYRMGFDDLTEDDIRLTSEGVEIVIAPDYVSLLDQTTLDYVELEPGQFHFIFLNP 114
>pdb|2PMT|A Chain A, Glutathione Transferase From Proteus Mirabilis
pdb|2PMT|B Chain B, Glutathione Transferase From Proteus Mirabilis
pdb|2PMT|C Chain C, Glutathione Transferase From Proteus Mirabilis
pdb|2PMT|D Chain D, Glutathione Transferase From Proteus Mirabilis
pdb|1PMT|A Chain A, Glutathione Transferase From Proteus Mirabilis
Length = 203
Score = 30.4 bits (67), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 22/35 (62%), Gaps = 1/35 (2%)
Query: 58 MDFVDDKLRSEFVFINPN-SKGQCGCGESFMTTSS 91
+ V +KL+S+FV+IN SK +C CG+ F +
Sbjct: 122 LPVVKNKLKSKFVYINDVLSKQKCVCGDHFTVADA 156
>pdb|3N6R|A Chain A, Crystal Structure Of The Holoenzyme Of Propionyl-coa
Carboxylase (pcc)
pdb|3N6R|C Chain C, Crystal Structure Of The Holoenzyme Of Propionyl-coa
Carboxylase (pcc)
pdb|3N6R|E Chain E, Crystal Structure Of The Holoenzyme Of Propionyl-coa
Carboxylase (pcc)
pdb|3N6R|G Chain G, Crystal Structure Of The Holoenzyme Of Propionyl-coa
Carboxylase (pcc)
pdb|3N6R|I Chain I, Crystal Structure Of The Holoenzyme Of Propionyl-coa
Carboxylase (pcc)
pdb|3N6R|K Chain K, Crystal Structure Of The Holoenzyme Of Propionyl-coa
Carboxylase (pcc)
Length = 681
Score = 27.7 bits (60), Expect = 1.8, Method: Composition-based stats.
Identities = 13/49 (26%), Positives = 24/49 (48%)
Query: 10 GVKARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPKALMHVIGTKM 58
++A G + + E +KF E +E +GV + PK + +G K+
Sbjct: 69 AIRATGAQAVHPGYGFLSENSKFAEALEAEGVIFVGPPKGAIEAMGDKI 117
>pdb|3FIN|C Chain C, T. Thermophilus 70s Ribosome In Complex With Mrna, Trnas
And Ef- Tu.Gdp.Kirromycin Ternary Complex, Fitted To A
6.4 A Cryo-Em Map. This File Contains The 50s Subunit
Length = 191
Score = 26.6 bits (57), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 18/28 (64%), Gaps = 1/28 (3%)
Query: 21 YTLNYADERAKFDELVEDKGVKILIDPK 48
YT++ A AKFDE VE K+ IDP+
Sbjct: 3 YTIDEAARTAKFDETVEVH-AKLGIDPR 29
>pdb|3TW7|A Chain A, Structure Of Rhizobium Etli Pyruvate Carboxylase T882a
Crystallized Without Acetyl Coenzyme-A
pdb|3TW7|B Chain B, Structure Of Rhizobium Etli Pyruvate Carboxylase T882a
Crystallized Without Acetyl Coenzyme-A
pdb|3TW6|A Chain A, Structure Of Rhizobium Etli Pyruvate Carboxylase T882a
With The Allosteric Activator, Acetyl Coenzyme-A
pdb|3TW6|B Chain B, Structure Of Rhizobium Etli Pyruvate Carboxylase T882a
With The Allosteric Activator, Acetyl Coenzyme-A
pdb|3TW6|C Chain C, Structure Of Rhizobium Etli Pyruvate Carboxylase T882a
With The Allosteric Activator, Acetyl Coenzyme-A
pdb|3TW6|D Chain D, Structure Of Rhizobium Etli Pyruvate Carboxylase T882a
With The Allosteric Activator, Acetyl Coenzyme-A
Length = 1165
Score = 25.4 bits (54), Expect = 8.6, Method: Composition-based stats.
Identities = 13/28 (46%), Positives = 16/28 (57%), Gaps = 1/28 (3%)
Query: 5 PYLKLGVKARGCNGLSYTLNYADERAKF 32
P L L + RG NG+ YT NY D K+
Sbjct: 623 PNLLLQMLLRGANGVGYT-NYPDNVVKY 649
>pdb|2QF7|A Chain A, Crystal Structure Of A Complete Multifunctional Pyruvate
Carboxylase From Rhizobium Etli
pdb|2QF7|B Chain B, Crystal Structure Of A Complete Multifunctional Pyruvate
Carboxylase From Rhizobium Etli
Length = 1165
Score = 25.4 bits (54), Expect = 8.6, Method: Composition-based stats.
Identities = 13/28 (46%), Positives = 16/28 (57%), Gaps = 1/28 (3%)
Query: 5 PYLKLGVKARGCNGLSYTLNYADERAKF 32
P L L + RG NG+ YT NY D K+
Sbjct: 623 PNLLLQMLLRGANGVGYT-NYPDNVVKY 649
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
0.317 0.135 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,003,223
Number of Sequences: 62578
Number of extensions: 108389
Number of successful extensions: 253
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 246
Number of HSP's gapped (non-prelim): 13
length of query: 100
length of database: 14,973,337
effective HSP length: 66
effective length of query: 34
effective length of database: 10,843,189
effective search space: 368668426
effective search space used: 368668426
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 45 (21.9 bits)