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= 025077
(258 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1YT5|A Chain A, Crystal Structure Of Nad Kinase From Thermotoga Maritima
pdb|1YT5|B Chain B, Crystal Structure Of Nad Kinase From Thermotoga Maritima
pdb|1YT5|C Chain C, Crystal Structure Of Nad Kinase From Thermotoga Maritima
pdb|1YT5|D Chain D, Crystal Structure Of Nad Kinase From Thermotoga Maritima
Length = 258
Score = 33.1 bits (74), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 39/87 (44%), Gaps = 2/87 (2%)
Query: 18 LLYKDYGDKQPANHFRYDCVDSNFDVSCQCDAIVPGLSTAFRSIIPDSGGVELRYLHDYA 77
+LY++ +K+ F + + +V +A PG TA ++ G L+ A
Sbjct: 5 ILYREEREKE--GEFLKEKISKEHEVIEFGEANAPGRVTADLIVVVGGDGTVLKAAKKAA 62
Query: 78 GFTAGIGLKAGRHNHLQSVGLDRIVKF 104
T +G KAGR L S LD I +F
Sbjct: 63 DGTPMVGFKAGRLGFLTSYTLDEIDRF 89
>pdb|1G20|B Chain B, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G20|D Chain D, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G21|B Chain B, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G21|D Chain D, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1FP4|B Chain B, Crystal Structure Of The Alpha-H195q Mutant Of Nitrogenase
pdb|1FP4|D Chain D, Crystal Structure Of The Alpha-H195q Mutant Of Nitrogenase
pdb|3U7Q|B Chain B, A. Vinelandii Nitrogenase Mofe Protein At Atomic
Resolution
pdb|3U7Q|D Chain D, A. Vinelandii Nitrogenase Mofe Protein At Atomic
Resolution
Length = 523
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 37/72 (51%), Gaps = 7/72 (9%)
Query: 135 LSFNTALFNASVNLNDKLENLRASYYQELVPLTRTAVAA----ELKHSFSNHRS---ISD 187
++ + A+F N+ D L+N +A+Y +++ ++ T +A +L +N + I D
Sbjct: 118 MTEDAAVFGGQQNMKDGLQNCKATYKPDMIAVSTTCMAEVIGDDLNAFINNSKKEGFIPD 177
Query: 188 NIPIPTSLTVGF 199
P+P + T F
Sbjct: 178 EFPVPFAHTPSF 189
>pdb|3MIN|B Chain B, Nitrogenase Mofe Protein From Azotobacter Vinelandii,
Oxidized State
pdb|3MIN|D Chain D, Nitrogenase Mofe Protein From Azotobacter Vinelandii,
Oxidized State
pdb|2MIN|B Chain B, Nitrogenase Mofe Protein From Azotobacter Vinelandii,
Oxidized State
pdb|2MIN|D Chain D, Nitrogenase Mofe Protein From Azotobacter Vinelandii,
Oxidized State
pdb|1N2C|B Chain B, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp-Tetrafluoroaluminate
pdb|1N2C|D Chain D, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp-Tetrafluoroaluminate
pdb|1L5H|B Chain B, Femo-Cofactor Deficient Nitrogenase Mofe Protein
pdb|1M1N|B Chain B, Nitrogenase Mofe Protein From Azotobacter Vinelandii
pdb|1M1N|D Chain D, Nitrogenase Mofe Protein From Azotobacter Vinelandii
pdb|1M1N|F Chain F, Nitrogenase Mofe Protein From Azotobacter Vinelandii
pdb|1M1N|H Chain H, Nitrogenase Mofe Protein From Azotobacter Vinelandii
pdb|1M1Y|B Chain B, Chemical Crosslink Of Nitrogenase Mofe Protein And Fe
Protein
pdb|1M1Y|D Chain D, Chemical Crosslink Of Nitrogenase Mofe Protein And Fe
Protein
pdb|1M1Y|J Chain J, Chemical Crosslink Of Nitrogenase Mofe Protein And Fe
Protein
pdb|1M1Y|L Chain L, Chemical Crosslink Of Nitrogenase Mofe Protein And Fe
Protein
pdb|1M34|B Chain B, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp- Tetrafluoroaluminate
pdb|1M34|D Chain D, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp- Tetrafluoroaluminate
pdb|1M34|J Chain J, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp- Tetrafluoroaluminate
pdb|1M34|L Chain L, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp- Tetrafluoroaluminate
pdb|2AFH|B Chain B, Crystal Structure Of Nucleotide-Free Av2-Av1 Complex
pdb|2AFH|D Chain D, Crystal Structure Of Nucleotide-Free Av2-Av1 Complex
pdb|2AFI|B Chain B, Crystal Structure Of Mgadp Bound Av2-Av1 Complex
pdb|2AFI|D Chain D, Crystal Structure Of Mgadp Bound Av2-Av1 Complex
pdb|2AFI|J Chain J, Crystal Structure Of Mgadp Bound Av2-Av1 Complex
pdb|2AFI|L Chain L, Crystal Structure Of Mgadp Bound Av2-Av1 Complex
pdb|2AFK|B Chain B, Crystal Structure Of Mgamppcp-Bound Av2-Av1 Complex
pdb|2AFK|D Chain D, Crystal Structure Of Mgamppcp-Bound Av2-Av1 Complex
pdb|3K1A|B Chain B, Insights Into Substrate Binding At Femo-Cofactor In
Nitrogenase From The Structure Of An Alpha-70ile Mofe
Protein Variant
pdb|3K1A|D Chain D, Insights Into Substrate Binding At Femo-Cofactor In
Nitrogenase From The Structure Of An Alpha-70ile Mofe
Protein Variant
Length = 522
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 37/72 (51%), Gaps = 7/72 (9%)
Query: 135 LSFNTALFNASVNLNDKLENLRASYYQELVPLTRTAVAA----ELKHSFSNHRS---ISD 187
++ + A+F N+ D L+N +A+Y +++ ++ T +A +L +N + I D
Sbjct: 117 MTEDAAVFGGQQNMKDGLQNCKATYKPDMIAVSTTCMAEVIGDDLNAFINNSKKEGFIPD 176
Query: 188 NIPIPTSLTVGF 199
P+P + T F
Sbjct: 177 EFPVPFAHTPSF 188
>pdb|3F9R|A Chain A, Crystal Structure Of Trypanosoma Brucei
Phosphomannosemutase, Tb.10.700.370
pdb|3F9R|B Chain B, Crystal Structure Of Trypanosoma Brucei
Phosphomannosemutase, Tb.10.700.370
Length = 246
Score = 29.3 bits (64), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 28/99 (28%), Positives = 43/99 (43%), Gaps = 11/99 (11%)
Query: 84 GLKAGRHNHLQSVGLDRIVKFSVVAGNTVLSLGTDAAFDISTRTFSNYNAGL-SFNTALF 142
GL+ R + L ++G DRIVKF L L D + TF Y G+ + +
Sbjct: 78 GLEIHRQSLLNALGNDRIVKFV----KKTLRLIADLDIPVQRGTFVEYRNGMINVSPIGR 133
Query: 143 NASVNLNDKLENLRASYYQELVPLTRTAVAAELKHSFSN 181
N S D+ E + R ++ AEL++SF +
Sbjct: 134 NCSQAERDEFEVYDNEHR------VRASLIAELENSFPD 166
>pdb|1X1N|A Chain A, Structure Determination And Refinement At 1.8 A Resolution
Of Disproportionating Enzyme From Potato
Length = 524
Score = 29.3 bits (64), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 14/59 (23%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 101 IVKFSVVAGNTVLSLGTDAAFDISTRTFSNYNAGLSFNTALFNASVNLNDKLENLRASY 159
+ + +++ VL LG+D+ +I F N++ + +T+ N KL ++ A+Y
Sbjct: 464 VARIAIIPMQDVLGLGSDSRMNIPATQFGNWSWRIPSSTSFDNLDAEAK-KLRDILATY 521
>pdb|2Y6E|A Chain A, Ubiquitin Specific Protease 4 Is Inhibited By Its
Ubiquitin- Like Domain
pdb|2Y6E|B Chain B, Ubiquitin Specific Protease 4 Is Inhibited By Its
Ubiquitin- Like Domain
pdb|2Y6E|C Chain C, Ubiquitin Specific Protease 4 Is Inhibited By Its
Ubiquitin- Like Domain
pdb|2Y6E|D Chain D, Ubiquitin Specific Protease 4 Is Inhibited By Its
Ubiquitin- Like Domain
pdb|2Y6E|E Chain E, Ubiquitin Specific Protease 4 Is Inhibited By Its
Ubiquitin- Like Domain
pdb|2Y6E|F Chain F, Ubiquitin Specific Protease 4 Is Inhibited By Its
Ubiquitin- Like Domain
Length = 367
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 30/62 (48%), Gaps = 6/62 (9%)
Query: 148 LNDKLENLRASYYQELVPLTRTAVAAELKHSFSNHRSISDNIPIPTSLTVGFQHGLFPST 207
L++ L ++ Y EL A K ++ NHR +D++ + T HGLF ST
Sbjct: 112 LHEDLNRVKKKPYLELKDANGRPDAVVAKEAWENHRLRNDSVIVDTF------HGLFKST 165
Query: 208 LV 209
LV
Sbjct: 166 LV 167
>pdb|4A7K|A Chain A, Bifunctional Aldos-2-Ulose Dehydratase
pdb|4A7Y|A Chain A, Active Site Metal Depleted Aldos-2-Ulose Dehydratase
pdb|4A7Z|A Chain A, Complex Of Bifunctional Aldos-2-ulose Dehydratase With The
Reaction Intermediate Ascopyrone M
Length = 900
Score = 27.7 bits (60), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 10/17 (58%), Positives = 15/17 (88%)
Query: 79 FTAGIGLKAGRHNHLQS 95
+TAGIG+ AG HNH+++
Sbjct: 619 WTAGIGVSAGFHNHVEA 635
>pdb|3EMN|X Chain X, The Crystal Structure Of Mouse Vdac1 At 2.3 A Resolution
Length = 295
Score = 27.7 bits (60), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 5 PGLYIDIGKKARDLLYKDYG 24
P Y D+GK ARD+ K YG
Sbjct: 16 PPTYADLGKSARDVFTKGYG 35
>pdb|2JK4|A Chain A, Structure Of The Human Voltage-Dependent Anion Channel
Length = 294
Score = 27.7 bits (60), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 5 PGLYIDIGKKARDLLYKDYG 24
P Y D+GK ARD+ K YG
Sbjct: 7 PPTYADLGKSARDVFTKGYG 26
>pdb|2K4T|A Chain A, Solution Structure Of Human Vdac-1 In Ldao Micelles
Length = 291
Score = 27.7 bits (60), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 5 PGLYIDIGKKARDLLYKDYG 24
P Y D+GK ARD+ K YG
Sbjct: 4 PPTYADLGKSARDVFTKGYG 23
>pdb|2BPA|2 Chain 2, Atomic Structure Of Single-Stranded Dna Bacteriophage
Phix174 And Its Functional Implications
pdb|1AL0|G Chain G, Procapsid Of Bacteriophage Phix174
pdb|1CD3|G Chain G, Procapsid Of Bacteriophage Phix174
Length = 175
Score = 27.3 bits (59), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 4/47 (8%)
Query: 83 IGLKAGRHNHLQSVGLDRIVKFSVVAGNTVLSLGTDAAFDISTRTFS 129
+ + AG L + +D SV A N V+S+G D AFD + F+
Sbjct: 47 LTVNAGNGGFLHCIQMDT----SVNAANQVVSVGADIAFDADPKFFA 89
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
0.320 0.134 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,794,989
Number of Sequences: 62578
Number of extensions: 313207
Number of successful extensions: 750
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 740
Number of HSP's gapped (non-prelim): 17
length of query: 258
length of database: 14,973,337
effective HSP length: 97
effective length of query: 161
effective length of database: 8,903,271
effective search space: 1433426631
effective search space used: 1433426631
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: 50 (23.9 bits)