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= 033078
(128 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 = 93.6 bits (231), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 44/96 (45%), Positives = 62/96 (64%), Gaps = 1/96 (1%)
Query: 20 AVTVRHLLQQRQRPY-LKLGVKARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPKAL 78
A V L R + + L+LGV+ GC+G++Y L + DE D + EDKGVK+++D K+L
Sbjct: 10 AARVNTFLANRGKGFGLRLGVRTSGCSGMAYVLEFVDEPTPEDIVFEDKGVKVVVDGKSL 69
Query: 79 MHVIGTKMDFVDDKLRSEFVFINPNSKGQCGCGESF 114
+ GT++DFV + L F F NPN K +CGCGESF
Sbjct: 70 QFLDGTQLDFVKEGLNEGFKFTNPNVKDECGCGESF 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 = 92.4 bits (228), Expect = 6e-20, Method: Compositional matrix adjust.
Identities = 43/96 (44%), Positives = 62/96 (64%), Gaps = 1/96 (1%)
Query: 20 AVTVRHLLQQRQRPY-LKLGVKARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPKAL 78
A V L R + + L+LGV+ GC+G++Y L + DE D + EDKGVK+++D K++
Sbjct: 10 AARVNTFLANRGKGFGLRLGVRTSGCSGMAYVLEFVDEPTPEDIVFEDKGVKVVVDGKSM 69
Query: 79 MHVIGTKMDFVDDKLRSEFVFINPNSKGQCGCGESF 114
+ GT++DFV + L F F NPN K +CGCGESF
Sbjct: 70 QFLDGTQLDFVKEGLNEGFKFTNPNVKDECGCGESF 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 = 73.9 bits (180), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 36/110 (32%), Positives = 60/110 (54%), Gaps = 2/110 (1%)
Query: 7 QAAEKIGPAVRRQAVTVRHLLQQR--QRPYLKLGVKARGCNGLSYTLNYADERAKFDELV 64
QA + I + ++ + Q+ + P L++ V GC+G Y + + D + D +
Sbjct: 4 QAQQFIFKVTDKAVEEIKKVAQENNIENPILRIRVVPGGCSGFQYAMGFDDTVEEGDHVF 63
Query: 65 EDKGVKILIDPKALMHVIGTKMDFVDDKLRSEFVFINPNSKGQCGCGESF 114
E GVK++IDP ++ +V G ++D+V D + F NPN+ G CGCG SF
Sbjct: 64 EYDGVKVVIDPFSMPYVNGAELDYVVDFMGGGFTIRNPNATGSCGCGSSF 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 = 73.2 bits (178), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 38/96 (39%), Positives = 56/96 (58%), Gaps = 1/96 (1%)
Query: 20 AVTVRHLL-QQRQRPYLKLGVKARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPKAL 78
A+ +R L+ +Q ++LGVK GC G Y L+ E K D L E G K+ + +A+
Sbjct: 48 AIHIRELVAKQPGMVGVRLGVKQTGCAGFGYVLDSVSEPDKDDLLFEHDGAKLFVPLQAM 107
Query: 79 MHVIGTKMDFVDDKLRSEFVFINPNSKGQCGCGESF 114
+ GT++DFV + L F F NP ++ +CGCGESF
Sbjct: 108 PFIDGTEVDFVREGLNQIFKFHNPKAQNECGCGESF 143
>pdb|2APN|A Chain A, Hi1723 Solution Structure
Length = 114
Score = 65.9 bits (159), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 32/94 (34%), Positives = 51/94 (54%), Gaps = 2/94 (2%)
Query: 23 VRHLLQQRQRPYLKLGV--KARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPKALMH 80
V+ L+ + + LKL V GC+G Y + ++ D +E GV+++IDP +L +
Sbjct: 19 VKSLISEEENTDLKLRVYITGGGCSGFQYGFTFDEKVNDGDLTIEKSGVQLVIDPMSLQY 78
Query: 81 VIGTKMDFVDDKLRSEFVFINPNSKGQCGCGESF 114
+IG +D+ + S F NPN+ CGCG SF
Sbjct: 79 LIGGTVDYTEGLEGSRFTVNNPNATSTCGCGSSF 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 = 47.8 bits (112), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 47/95 (49%)
Query: 25 HLLQQRQRPYLKLGVKARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPKALMHVIGT 84
H +++ Q L++ V+ C Y L E D L + +G I I +A + G
Sbjct: 18 HGVRRGQAAILRIQVQPSECGDWRYDLALVAEPKPTDLLTQSQGWTIAIAAEAAELLRGL 77
Query: 85 KMDFVDDKLRSEFVFINPNSKGQCGCGESFMTTSS 119
++D+++D + F F NPN+ CGCG +F + S
Sbjct: 78 RVDYIEDLMGGAFRFHNPNASQTCGCGMAFRVSRS 112
>pdb|2K4Z|A Chain A, Solution Nmr Structure Of Allochromatium Vinosum Dsrr:
Northeast Structural Genomics Consortium Target Op5
Length = 125
Score = 33.5 bits (75), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 32/55 (58%), Gaps = 7/55 (12%)
Query: 55 DERAKFDELVED------KGVKILIDPKALMHVIGTKMDFVD-DKLRSEFVFINP 102
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 = 0.24, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 86 MDFVDDKLRSEFVFINPN-SKGQCGCGESF 114
+ V +KL+S+FV+IN SK +C CG+ F
Sbjct: 122 LPVVKNKLKSKFVYINDVLSKQKCVCGDHF 151
>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: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 34/82 (41%), Gaps = 8/82 (9%)
Query: 5 LAQAAEKIGPAVRRQAVTVRHLLQQRQRPYLKLGVKARGCNGLSYTLNYADERAKFDELV 64
+A A IGP Q+ V + ++A G + + E +KF E +
Sbjct: 44 MADEAVHIGPPPANQSYIVIDKVMA--------AIRATGAQAVHPGYGFLSENSKFAEAL 95
Query: 65 EDKGVKILIDPKALMHVIGTKM 86
E +GV + PK + +G K+
Sbjct: 96 EAEGVIFVGPPKGAIEAMGDKI 117
>pdb|1RYB|A Chain A, Crystal Structure Of The Chloroplast Group Ii Intron
Splicing Factor Crs2
Length = 205
Score = 26.9 bits (58), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 37/85 (43%), Gaps = 8/85 (9%)
Query: 3 SFLAQAAEKIGPAVRRQAVTVRHLLQQRQRPYLKLGV---KARGC----NGLSYTLNYAD 55
S++ + E IGP V +RH+L L GV + +G NGL + + D
Sbjct: 79 SYMNYSGEAIGPLAAYYQVPLRHILLIYDDTSLPNGVLRLQKKGGHGRHNGLQNVIEHLD 138
Query: 56 ERAKFDELVEDKGVKI-LIDPKALM 79
R +F L G +DP+A +
Sbjct: 139 GRREFPRLSIGIGSPPGKMDPRAFL 163
>pdb|1RYN|A Chain A, Structure Of The Chloroplast Group Ii Intron Splicing
Factor Crs2
Length = 202
Score = 26.6 bits (57), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 37/85 (43%), Gaps = 8/85 (9%)
Query: 3 SFLAQAAEKIGPAVRRQAVTVRHLLQQRQRPYLKLGV---KARGC----NGLSYTLNYAD 55
S++ + E IGP V +RH+L L GV + +G NGL + + D
Sbjct: 67 SYMNYSGEAIGPLAAYYQVPLRHILLIYDDTSLPNGVLRLQKKGGHGRHNGLQNVIEHLD 126
Query: 56 ERAKFDELVEDKGVKI-LIDPKALM 79
R +F L G +DP+A +
Sbjct: 127 GRREFPRLSIGIGSPPGKMDPRAFL 151
>pdb|1RYM|A Chain A, Structure Of The Group Ii Intron Splicing Factor Crs2
Length = 212
Score = 26.6 bits (57), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 37/85 (43%), Gaps = 8/85 (9%)
Query: 3 SFLAQAAEKIGPAVRRQAVTVRHLLQQRQRPYLKLGV---KARG----CNGLSYTLNYAD 55
S++ + E IGP V +RH+L L GV + +G NGL + + D
Sbjct: 79 SYMNYSGEAIGPLAAYYQVPLRHILLIYDDTSLPNGVLRLQKKGGHGRHNGLQNVIEHLD 138
Query: 56 ERAKFDELVEDKGVKI-LIDPKALM 79
R +F L G +DP+A +
Sbjct: 139 GRREFPRLSIGIGSPPGKMDPRAFL 163
>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 = 4.2, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 18/28 (64%), Gaps = 1/28 (3%)
Query: 49 YTLNYADERAKFDELVEDKGVKILIDPK 76
YT++ A AKFDE VE K+ IDP+
Sbjct: 3 YTIDEAARTAKFDETVEVH-AKLGIDPR 29
>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 = 26.2 bits (56), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 19/37 (51%), Gaps = 1/37 (2%)
Query: 24 RHLLQQRQRPYLKLGVKARGCNGLSYTLNYADERAKF 60
R L + P L L + RG NG+ YT NY D K+
Sbjct: 614 RLALIREGAPNLLLQMLLRGANGVGYT-NYPDNVVKY 649
>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 = 26.2 bits (56), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 19/37 (51%), Gaps = 1/37 (2%)
Query: 24 RHLLQQRQRPYLKLGVKARGCNGLSYTLNYADERAKF 60
R L + P L L + RG NG+ YT NY D K+
Sbjct: 614 RLALIREGAPNLLLQMLLRGANGVGYT-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
0.319 0.134 0.384
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,533,327
Number of Sequences: 62578
Number of extensions: 131096
Number of successful extensions: 322
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 315
Number of HSP's gapped (non-prelim): 16
length of query: 128
length of database: 14,973,337
effective HSP length: 87
effective length of query: 41
effective length of database: 9,529,051
effective search space: 390691091
effective search space used: 390691091
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: 45 (21.9 bits)