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= 038855
(260 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3KX2|B Chain B, Crystal Structure Of Prp43p In Complex With Adp
pdb|3KX2|A Chain A, Crystal Structure Of Prp43p In Complex With Adp
Length = 767
Score = 194 bits (492), Expect = 6e-50, Method: Compositional matrix adjust.
Identities = 116/267 (43%), Positives = 150/267 (56%), Gaps = 48/267 (17%)
Query: 1 EALLDPYLSRYSVIIVDEAHERTVHTDVLLGLLKKVQNARSKSADGHSNGNNKNADSDMI 60
EA+ D LSRYS II+DEAHERT+ TD+L+GLLK+V R
Sbjct: 199 EAMEDHDLSRYSCIILDEAHERTLATDILMGLLKQVVKRR-------------------- 238
Query: 61 LDRENDTNGINTLKQCQGRKFPPLKLIIMSASLDARGFSEYFGCAKAVHVQGRQFPVEIL 120
P LK+IIMSA+LDA F YF A + V GR +PVE+
Sbjct: 239 ---------------------PDLKIIIMSATLDAEKFQRYFNDAPLLAVPGRTYPVELY 277
Query: 121 YTLYPEPDFLDATLITIFQVHLDEAPGDILVFLTGQEEIESVERLVQERLLQL--PEASR 178
YT + D+LD+ + T+ Q+H E GDIL+FLTG++EIE R + QL E
Sbjct: 278 YTPEFQRDYLDSAIRTVLQIHATEEAGDILLFLTGEDEIEDAVRKISLEGDQLVREEGCG 337
Query: 179 KLVTVPIFSSLPSEQQMKVFAPAAAGF-----RKVILATNIAETSVTIPGIKYVIDPGFV 233
L P++ SLP QQ ++F PA RKV+++TNIAETS+TI GI YV+DPGF
Sbjct: 338 PLSVYPLYGSLPPHQQQRIFEPAPESHNGRPGRKVVISTNIAETSLTIDGIVYVVDPGFS 397
Query: 234 KARSYDPVKGMESLIVVPISKAQALQR 260
K + Y+P +ESL+V PISKA A QR
Sbjct: 398 KQKVYNPRIRVESLLVSPISKASAQQR 424
>pdb|2XAU|A Chain A, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
Complex With Adp
pdb|2XAU|B Chain B, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
Complex With Adp
Length = 773
Score = 194 bits (492), Expect = 6e-50, Method: Compositional matrix adjust.
Identities = 116/267 (43%), Positives = 150/267 (56%), Gaps = 48/267 (17%)
Query: 1 EALLDPYLSRYSVIIVDEAHERTVHTDVLLGLLKKVQNARSKSADGHSNGNNKNADSDMI 60
EA+ D LSRYS II+DEAHERT+ TD+L+GLLK+V R
Sbjct: 199 EAMEDHDLSRYSCIILDEAHERTLATDILMGLLKQVVKRR-------------------- 238
Query: 61 LDRENDTNGINTLKQCQGRKFPPLKLIIMSASLDARGFSEYFGCAKAVHVQGRQFPVEIL 120
P LK+IIMSA+LDA F YF A + V GR +PVE+
Sbjct: 239 ---------------------PDLKIIIMSATLDAEKFQRYFNDAPLLAVPGRTYPVELY 277
Query: 121 YTLYPEPDFLDATLITIFQVHLDEAPGDILVFLTGQEEIESVERLVQERLLQL--PEASR 178
YT + D+LD+ + T+ Q+H E GDIL+FLTG++EIE R + QL E
Sbjct: 278 YTPEFQRDYLDSAIRTVLQIHATEEAGDILLFLTGEDEIEDAVRKISLEGDQLVREEGCG 337
Query: 179 KLVTVPIFSSLPSEQQMKVFAPAAAGF-----RKVILATNIAETSVTIPGIKYVIDPGFV 233
L P++ SLP QQ ++F PA RKV+++TNIAETS+TI GI YV+DPGF
Sbjct: 338 PLSVYPLYGSLPPHQQQRIFEPAPESHNGRPGRKVVISTNIAETSLTIDGIVYVVDPGFS 397
Query: 234 KARSYDPVKGMESLIVVPISKAQALQR 260
K + Y+P +ESL+V PISKA A QR
Sbjct: 398 KQKVYNPRIRVESLLVSPISKASAQQR 424
>pdb|3LLM|A Chain A, Crystal Structure Analysis Of A Rna Helicase
pdb|3LLM|B Chain B, Crystal Structure Analysis Of A Rna Helicase
Length = 235
Score = 34.3 bits (77), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 36/91 (39%), Gaps = 41/91 (45%)
Query: 12 SVIIVDEAHERTVHTDVLLGLLKKVQNARSKSADGHSNGNNKNADSDMILDRENDTNGIN 71
S +IVDE HER ++TD LL +L+ V A
Sbjct: 178 SHVIVDEIHERDINTDFLLVVLRDVVQA-------------------------------- 205
Query: 72 TLKQCQGRKFPPLKLIIMSASLDARGFSEYF 102
+P +++++ SA++D F EYF
Sbjct: 206 ---------YPEVRIVLXSATIDTSXFCEYF 227
>pdb|3K1A|A Chain A, Insights Into Substrate Binding At Femo-Cofactor In
Nitrogenase From The Structure Of An Alpha-70ile Mofe
Protein Variant
pdb|3K1A|C Chain C, Insights Into Substrate Binding At Femo-Cofactor In
Nitrogenase From The Structure Of An Alpha-70ile Mofe
Protein Variant
Length = 491
Score = 31.6 bits (70), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 41/98 (41%), Gaps = 15/98 (15%)
Query: 160 ESVERLVQERLLQLPEASRKLVTVPIFSSLPSEQQMKVFAPAAAGFRKVILATNIAETS- 218
E VE L+QE L PE +RK + + V PA +K I++ ++
Sbjct: 6 EEVESLIQEVLEVYPEKARK----------DRNKHLAVNDPAVTQSKKCIISNKKSQPGL 55
Query: 219 VTIPGIKYVIDPGFVKARSYDPVKGMESLIVVPISKAQ 256
+TI G Y G V + P+K M + P+ Q
Sbjct: 56 MTIRGCAYAGSKGIV----WGPIKDMIHISHGPVGCGQ 89
>pdb|1G20|A Chain A, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G20|C Chain C, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G21|A Chain A, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G21|C Chain C, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|3U7Q|A Chain A, A. Vinelandii Nitrogenase Mofe Protein At Atomic
Resolution
pdb|3U7Q|C Chain C, A. Vinelandii Nitrogenase Mofe Protein At Atomic
Resolution
Length = 492
Score = 31.2 bits (69), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 29/105 (27%), Positives = 44/105 (41%), Gaps = 16/105 (15%)
Query: 153 LTGQEEIESVERLVQERLLQLPEASRKLVTVPIFSSLPSEQQMKVFAPAAAGFRKVILAT 212
+TG E VE L+QE L PE +RK + + V PA +K I++
Sbjct: 1 MTGMSR-EEVESLIQEVLEVYPEKARK----------DRNKHLAVNDPAVTQSKKCIISN 49
Query: 213 NIAETS-VTIPGIKYVIDPGFVKARSYDPVKGMESLIVVPISKAQ 256
++ +TI G Y G V + P+K M + P+ Q
Sbjct: 50 KKSQPGLMTIRGCAYAGSKGVV----WGPIKDMIHISHGPVGCGQ 90
>pdb|3MIN|A Chain A, Nitrogenase Mofe Protein From Azotobacter Vinelandii,
Oxidized State
pdb|3MIN|C Chain C, Nitrogenase Mofe Protein From Azotobacter Vinelandii,
Oxidized State
pdb|2MIN|A Chain A, Nitrogenase Mofe Protein From Azotobacter Vinelandii,
Oxidized State
pdb|2MIN|C Chain C, Nitrogenase Mofe Protein From Azotobacter Vinelandii,
Oxidized State
pdb|1N2C|A Chain A, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp-Tetrafluoroaluminate
pdb|1N2C|C Chain C, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp-Tetrafluoroaluminate
pdb|1L5H|A Chain A, Femo-Cofactor Deficient Nitrogenase Mofe Protein
pdb|1M1N|A Chain A, Nitrogenase Mofe Protein From Azotobacter Vinelandii
pdb|1M1N|C Chain C, Nitrogenase Mofe Protein From Azotobacter Vinelandii
pdb|1M1N|E Chain E, Nitrogenase Mofe Protein From Azotobacter Vinelandii
pdb|1M1N|G Chain G, Nitrogenase Mofe Protein From Azotobacter Vinelandii
pdb|1M1Y|A Chain A, Chemical Crosslink Of Nitrogenase Mofe Protein And Fe
Protein
pdb|1M1Y|C Chain C, Chemical Crosslink Of Nitrogenase Mofe Protein And Fe
Protein
pdb|1M1Y|I Chain I, Chemical Crosslink Of Nitrogenase Mofe Protein And Fe
Protein
pdb|1M1Y|K Chain K, Chemical Crosslink Of Nitrogenase Mofe Protein And Fe
Protein
pdb|1M34|A Chain A, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp- Tetrafluoroaluminate
pdb|1M34|C Chain C, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp- Tetrafluoroaluminate
pdb|1M34|I Chain I, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp- Tetrafluoroaluminate
pdb|1M34|K Chain K, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp- Tetrafluoroaluminate
pdb|2AFH|A Chain A, Crystal Structure Of Nucleotide-Free Av2-Av1 Complex
pdb|2AFH|C Chain C, Crystal Structure Of Nucleotide-Free Av2-Av1 Complex
pdb|2AFI|A Chain A, Crystal Structure Of Mgadp Bound Av2-Av1 Complex
pdb|2AFI|C Chain C, Crystal Structure Of Mgadp Bound Av2-Av1 Complex
pdb|2AFI|I Chain I, Crystal Structure Of Mgadp Bound Av2-Av1 Complex
pdb|2AFI|K Chain K, Crystal Structure Of Mgadp Bound Av2-Av1 Complex
pdb|2AFK|A Chain A, Crystal Structure Of Mgamppcp-Bound Av2-Av1 Complex
pdb|2AFK|C Chain C, Crystal Structure Of Mgamppcp-Bound Av2-Av1 Complex
Length = 491
Score = 31.2 bits (69), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 41/98 (41%), Gaps = 15/98 (15%)
Query: 160 ESVERLVQERLLQLPEASRKLVTVPIFSSLPSEQQMKVFAPAAAGFRKVILATNIAETS- 218
E VE L+QE L PE +RK + + V PA +K I++ ++
Sbjct: 6 EEVESLIQEVLEVYPEKARK----------DRNKHLAVNDPAVTQSKKCIISNKKSQPGL 55
Query: 219 VTIPGIKYVIDPGFVKARSYDPVKGMESLIVVPISKAQ 256
+TI G Y G V + P+K M + P+ Q
Sbjct: 56 MTIRGCAYAGSKGVV----WGPIKDMIHISHGPVGCGQ 89
>pdb|1FP4|A Chain A, Crystal Structure Of The Alpha-H195q Mutant Of Nitrogenase
pdb|1FP4|C Chain C, Crystal Structure Of The Alpha-H195q Mutant Of Nitrogenase
Length = 492
Score = 31.2 bits (69), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 29/105 (27%), Positives = 44/105 (41%), Gaps = 16/105 (15%)
Query: 153 LTGQEEIESVERLVQERLLQLPEASRKLVTVPIFSSLPSEQQMKVFAPAAAGFRKVILAT 212
+TG E VE L+QE L PE +RK + + V PA +K I++
Sbjct: 1 MTGMSR-EEVESLIQEVLEVYPEKARK----------DRNKHLAVNDPAVTQSKKCIISN 49
Query: 213 NIAETS-VTIPGIKYVIDPGFVKARSYDPVKGMESLIVVPISKAQ 256
++ +TI G Y G V + P+K M + P+ Q
Sbjct: 50 KKSQPGLMTIRGCAYAGSKGVV----WGPIKDMIHISHGPVGCGQ 90
>pdb|3N58|A Chain A, Crystal Structure Of S-Adenosyl-L-Homocysteine Hydrolase
From Brucella Melitensis In Ternary Complex With Nad And
Adenosine, Orthorhombic Form
pdb|3N58|B Chain B, Crystal Structure Of S-Adenosyl-L-Homocysteine Hydrolase
From Brucella Melitensis In Ternary Complex With Nad And
Adenosine, Orthorhombic Form
pdb|3N58|C Chain C, Crystal Structure Of S-Adenosyl-L-Homocysteine Hydrolase
From Brucella Melitensis In Ternary Complex With Nad And
Adenosine, Orthorhombic Form
pdb|3N58|D Chain D, Crystal Structure Of S-Adenosyl-L-Homocysteine Hydrolase
From Brucella Melitensis In Ternary Complex With Nad And
Adenosine, Orthorhombic Form
Length = 464
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 13/45 (28%), Positives = 22/45 (48%)
Query: 64 ENDTNGINTLKQCQGRKFPPLKLIIMSASLDARGFSEYFGCAKAV 108
E T G+N L Q Q + P I ++ S+ F +GC +++
Sbjct: 189 EETTTGVNRLYQLQKKGLLPFPAINVNDSVTKSKFDNKYGCKESL 233
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 0.136 0.381
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,253,546
Number of Sequences: 62578
Number of extensions: 279490
Number of successful extensions: 757
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 747
Number of HSP's gapped (non-prelim): 14
length of query: 260
length of database: 14,973,337
effective HSP length: 97
effective length of query: 163
effective length of database: 8,903,271
effective search space: 1451233173
effective search space used: 1451233173
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)