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= 039418
(297 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4F2N|A Chain A, Crystal Structure Of Iron Superoxide Dismutase From
Leishmania Major
pdb|4F2N|B Chain B, Crystal Structure Of Iron Superoxide Dismutase From
Leishmania Major
pdb|4F2N|C Chain C, Crystal Structure Of Iron Superoxide Dismutase From
Leishmania Major
pdb|4F2N|D Chain D, Crystal Structure Of Iron Superoxide Dismutase From
Leishmania Major
pdb|4F2N|E Chain E, Crystal Structure Of Iron Superoxide Dismutase From
Leishmania Major
pdb|4F2N|F Chain F, Crystal Structure Of Iron Superoxide Dismutase From
Leishmania Major
pdb|4F2N|G Chain G, Crystal Structure Of Iron Superoxide Dismutase From
Leishmania Major
pdb|4F2N|H Chain H, Crystal Structure Of Iron Superoxide Dismutase From
Leishmania Major
pdb|4F2N|I Chain I, Crystal Structure Of Iron Superoxide Dismutase From
Leishmania Major
pdb|4F2N|J Chain J, Crystal Structure Of Iron Superoxide Dismutase From
Leishmania Major
pdb|4F2N|K Chain K, Crystal Structure Of Iron Superoxide Dismutase From
Leishmania Major
pdb|4F2N|L Chain L, Crystal Structure Of Iron Superoxide Dismutase From
Leishmania Major
Length = 230
Score = 32.7 bits (73), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 35/70 (50%), Gaps = 2/70 (2%)
Query: 163 HELELSPNSFGYIMGVTDGGMPMELQ-GDSAEVAAYLDKFNATSRGINIKTMEDILLTSK 221
+ EL F Y G+ P +L+ S +AY+DK N +G KT+E+I+L +
Sbjct: 31 YPAELPTLGFNYKDGIQPVMSPRQLELHYSKHHSAYVDKLNTLGKGYEGKTIEEIILATT 90
Query: 222 DADNDFKVAF 231
N+ KV F
Sbjct: 91 GI-NESKVMF 99
>pdb|1T71|A Chain A, Crystal Structure Of A Novel Phosphatase Mycoplasma
Pneumoniaefrom
Length = 281
Score = 31.6 bits (70), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 24/50 (48%)
Query: 122 AVCDIGLGSIIDLKCGRLKRKLCAWLVERIDTARCVLQLNGHELELSPNS 171
+C G GS+I + R CA E + ++C QLNG E+ N+
Sbjct: 205 GMCGPGFGSVIGANPEQSIRLFCAGSREHFEVSKCGAQLNGVFFEVDVNT 254
>pdb|1NQK|A Chain A, Structural Genomics, Crystal Structure Of Alkanesulfonate
Monooxygenase
Length = 381
Score = 31.2 bits (69), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 38/78 (48%), Gaps = 7/78 (8%)
Query: 165 LELSPNSFGYIMGVTDGGMPMELQGDSAEVAAYLDKFNATSRGINIKTMEDILLTSKDAD 224
LE+SPN + + G+ GG L GD VAA ++++ A + I + +L +
Sbjct: 284 LEISPNLWAGV-GLVRGGAGTALVGDGPTVAARINEYAA----LGIDSF--VLSGYPHLE 336
Query: 225 NDFKVAFMLFTLCTLLCP 242
++V +LF L + P
Sbjct: 337 EAYRVGELLFPLLDVAIP 354
>pdb|1M41|A Chain A, Crystal Structure Of Escherichia Coli Alkanesulfonate
Monooxygenase Ssud At 2.3 A Resolution
pdb|1M41|B Chain B, Crystal Structure Of Escherichia Coli Alkanesulfonate
Monooxygenase Ssud At 2.3 A Resolution
Length = 380
Score = 31.2 bits (69), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 38/78 (48%), Gaps = 7/78 (8%)
Query: 165 LELSPNSFGYIMGVTDGGMPMELQGDSAEVAAYLDKFNATSRGINIKTMEDILLTSKDAD 224
LE+SPN + + G+ GG L GD VAA ++++ A + I + +L +
Sbjct: 283 LEISPNLWAGV-GLVRGGAGTALVGDGPTVAARINEYAA----LGIDSF--VLSGYPHLE 335
Query: 225 NDFKVAFMLFTLCTLLCP 242
++V +LF L + P
Sbjct: 336 EAYRVGELLFPLLDVAIP 353
>pdb|2E0K|A Chain A, Crystal Structure Of Cbil, A Methyltransferase Involved In
Anaerobic Vitamin B12 Biosynthesis
pdb|2E0K|B Chain B, Crystal Structure Of Cbil, A Methyltransferase Involved In
Anaerobic Vitamin B12 Biosynthesis
pdb|2E0N|A Chain A, Crystal Structure Of Cbil In Complex With
S-Adenosylhomocysteine, A Methyltransferase Involved In
Anaerobic Vitamin B12 Biosynthesis
pdb|2E0N|B Chain B, Crystal Structure Of Cbil In Complex With
S-Adenosylhomocysteine, A Methyltransferase Involved In
Anaerobic Vitamin B12 Biosynthesis
Length = 259
Score = 30.8 bits (68), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 24/48 (50%)
Query: 161 NGHELELSPNSFGYIMGVTDGGMPMELQGDSAEVAAYLDKFNATSRGI 208
+G + ++P +I + GMP+ LQ DS V A +D+ R +
Sbjct: 123 DGLDCSMTPGIPAFIAAGSAAGMPLALQSDSVLVLAQIDEIGELERAL 170
>pdb|3T88|A Chain A, Crystal Structure Of Escherichia Coli Menb In Complex
With Substrate Analogue, Osb-Ncoa
pdb|3T88|B Chain B, Crystal Structure Of Escherichia Coli Menb In Complex
With Substrate Analogue, Osb-Ncoa
pdb|3T88|C Chain C, Crystal Structure Of Escherichia Coli Menb In Complex
With Substrate Analogue, Osb-Ncoa
pdb|3T88|D Chain D, Crystal Structure Of Escherichia Coli Menb In Complex
With Substrate Analogue, Osb-Ncoa
pdb|3T88|E Chain E, Crystal Structure Of Escherichia Coli Menb In Complex
With Substrate Analogue, Osb-Ncoa
pdb|3T88|F Chain F, Crystal Structure Of Escherichia Coli Menb In Complex
With Substrate Analogue, Osb-Ncoa
pdb|3T89|A Chain A, Crystal Structure Of Escherichia Coli Menb, The
1,4-Dihydroxy-2- Naphthoyl-Coa Synthase In Vitamin K2
Biosynthesis
pdb|3T89|B Chain B, Crystal Structure Of Escherichia Coli Menb, The
1,4-Dihydroxy-2- Naphthoyl-Coa Synthase In Vitamin K2
Biosynthesis
pdb|3T89|C Chain C, Crystal Structure Of Escherichia Coli Menb, The
1,4-Dihydroxy-2- Naphthoyl-Coa Synthase In Vitamin K2
Biosynthesis
pdb|3T89|D Chain D, Crystal Structure Of Escherichia Coli Menb, The
1,4-Dihydroxy-2- Naphthoyl-Coa Synthase In Vitamin K2
Biosynthesis
pdb|3T89|E Chain E, Crystal Structure Of Escherichia Coli Menb, The
1,4-Dihydroxy-2- Naphthoyl-Coa Synthase In Vitamin K2
Biosynthesis
pdb|3T89|F Chain F, Crystal Structure Of Escherichia Coli Menb, The
1,4-Dihydroxy-2- Naphthoyl-Coa Synthase In Vitamin K2
Biosynthesis
Length = 289
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 23/37 (62%), Gaps = 1/37 (2%)
Query: 45 ESVRQLKAKDGRACITNEVRKEIRNAFKNLPVEEKCQ 81
E +R K+ DG A IT R ++RNAF+ L V+E Q
Sbjct: 27 EDIRYEKSTDGIAKITIN-RPQVRNAFRPLTVKEMIQ 62
>pdb|4ELS|A Chain A, Structure Of E. Coli. 1,4-Dihydroxy-2- Naphthoyl
Coenzyme A Synthases (Menb) In Complex With Bicarbonate
pdb|4ELS|B Chain B, Structure Of E. Coli. 1,4-Dihydroxy-2- Naphthoyl
Coenzyme A Synthases (Menb) In Complex With Bicarbonate
pdb|4ELS|C Chain C, Structure Of E. Coli. 1,4-Dihydroxy-2- Naphthoyl
Coenzyme A Synthases (Menb) In Complex With Bicarbonate
pdb|4ELS|D Chain D, Structure Of E. Coli. 1,4-Dihydroxy-2- Naphthoyl
Coenzyme A Synthases (Menb) In Complex With Bicarbonate
pdb|4ELS|E Chain E, Structure Of E. Coli. 1,4-Dihydroxy-2- Naphthoyl
Coenzyme A Synthases (Menb) In Complex With Bicarbonate
pdb|4ELS|F Chain F, Structure Of E. Coli. 1,4-Dihydroxy-2- Naphthoyl
Coenzyme A Synthases (Menb) In Complex With Bicarbonate
pdb|4ELW|A Chain A, Structure Of E. Coli. 1,4-Dihydroxy-2- Naphthoyl
Coenzyme A Synthases (Menb) In Complex With Nitrate
pdb|4ELW|B Chain B, Structure Of E. Coli. 1,4-Dihydroxy-2- Naphthoyl
Coenzyme A Synthases (Menb) In Complex With Nitrate
pdb|4ELW|C Chain C, Structure Of E. Coli. 1,4-Dihydroxy-2- Naphthoyl
Coenzyme A Synthases (Menb) In Complex With Nitrate
pdb|4ELW|D Chain D, Structure Of E. Coli. 1,4-Dihydroxy-2- Naphthoyl
Coenzyme A Synthases (Menb) In Complex With Nitrate
pdb|4ELW|E Chain E, Structure Of E. Coli. 1,4-Dihydroxy-2- Naphthoyl
Coenzyme A Synthases (Menb) In Complex With Nitrate
pdb|4ELW|F Chain F, Structure Of E. Coli. 1,4-Dihydroxy-2- Naphthoyl
Coenzyme A Synthases (Menb) In Complex With Nitrate
pdb|4ELX|A Chain A, Structure Of Apo E.Coli. 1,4-Dihydroxy-2- Naphthoyl Coa
Synthases With Cl
pdb|4ELX|B Chain B, Structure Of Apo E.Coli. 1,4-Dihydroxy-2- Naphthoyl Coa
Synthases With Cl
pdb|4ELX|C Chain C, Structure Of Apo E.Coli. 1,4-Dihydroxy-2- Naphthoyl Coa
Synthases With Cl
pdb|4ELX|D Chain D, Structure Of Apo E.Coli. 1,4-Dihydroxy-2- Naphthoyl Coa
Synthases With Cl
pdb|4ELX|E Chain E, Structure Of Apo E.Coli. 1,4-Dihydroxy-2- Naphthoyl Coa
Synthases With Cl
pdb|4ELX|F Chain F, Structure Of Apo E.Coli. 1,4-Dihydroxy-2- Naphthoyl Coa
Synthases With Cl
Length = 285
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 23/37 (62%), Gaps = 1/37 (2%)
Query: 45 ESVRQLKAKDGRACITNEVRKEIRNAFKNLPVEEKCQ 81
E +R K+ DG A IT R ++RNAF+ L V+E Q
Sbjct: 23 EDIRYEKSTDGIAKITIN-RPQVRNAFRPLTVKEMIQ 58
>pdb|1C4Z|A Chain A, Structure Of E6ap: Insights Into Ubiquitination Pathway
pdb|1C4Z|B Chain B, Structure Of E6ap: Insights Into Ubiquitination Pathway
pdb|1C4Z|C Chain C, Structure Of E6ap: Insights Into Ubiquitination Pathway
pdb|1D5F|A Chain A, Structure Of An E6ap-Ubch7 Complex: Insights Into The
Ubiquitination Pathway
pdb|1D5F|B Chain B, Structure Of An E6ap-Ubch7 Complex: Insights Into The
Ubiquitination Pathway
pdb|1D5F|C Chain C, Structure Of An E6ap-Ubch7 Complex: Insights Into The
Ubiquitination Pathway
Length = 358
Score = 28.9 bits (63), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 33/66 (50%), Gaps = 5/66 (7%)
Query: 50 LKAKDGRACITNEVRKEIRNAFKNLPVEEKCQYKFQSRRGG---KANVEKVKFLTRCAPD 106
LK + ITNE RKE N + + + + + +F++ R G N +K+L R P+
Sbjct: 179 LKENGDKIPITNENRKEFVNLYSDYILNKSVEKQFKAFRRGFHMVTNESPLKYLFR--PE 236
Query: 107 RLAALV 112
+ L+
Sbjct: 237 EIELLI 242
>pdb|3EEA|A Chain A, The Crystal Structure Of The Gaf DomainHD DOMAIN PROTEIN
From Geobacter Sulfurreducens
pdb|3EEA|B Chain B, The Crystal Structure Of The Gaf DomainHD DOMAIN PROTEIN
From Geobacter Sulfurreducens
Length = 162
Score = 28.1 bits (61), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 24/49 (48%)
Query: 103 CAPDRLAALVSHLIEKQRKAVCDIGLGSIIDLKCGRLKRKLCAWLVERI 151
APD++ L S L ++Q + D G ++ K +L R LC V +
Sbjct: 67 LAPDKIPLLKSMLRKRQHLMLTDPGSSDLLTPKLRKLLRNLCVLAVPMV 115
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 0.138 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,777,835
Number of Sequences: 62578
Number of extensions: 347376
Number of successful extensions: 967
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 962
Number of HSP's gapped (non-prelim): 13
length of query: 297
length of database: 14,973,337
effective HSP length: 98
effective length of query: 199
effective length of database: 8,840,693
effective search space: 1759297907
effective search space used: 1759297907
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 51 (24.3 bits)