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= 046415
(126 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3A9X|A Chain A, Crystal Structure Of Rat Selenocysteine Lyase
pdb|3A9X|B Chain B, Crystal Structure Of Rat Selenocysteine Lyase
pdb|3A9Y|A Chain A, Crystal Structure Of Rat Selenocysteine Lyase In Complex
With L-Cysteine
pdb|3A9Y|B Chain B, Crystal Structure Of Rat Selenocysteine Lyase In Complex
With L-Cysteine
pdb|3A9Z|A Chain A, Crystal Structure Of Ras Selenocysteine Lyase In Complex
With Selenopropionate
pdb|3A9Z|B Chain B, Crystal Structure Of Ras Selenocysteine Lyase In Complex
With Selenopropionate
Length = 432
Score = 27.3 bits (59), Expect = 2.1, Method: Composition-based stats.
Identities = 14/54 (25%), Positives = 27/54 (50%), Gaps = 4/54 (7%)
Query: 20 LEEKRTLLQRSKSFINSNTSPAVADKDHFVACAMDNRRLVIPVPYLYSDIFREL 73
E++TL R+ I SP + HF+ C +++ + +P+ +L D E+
Sbjct: 102 FHEQQTLQGRTVDQI----SPEEGTRPHFITCTVEHDSIRLPLEHLVEDQVAEV 151
>pdb|3IZR|VV Chain v, Localization Of The Large Subunit Ribosomal Proteins
Into A 5.5 A Cryo-Em Map Of Triticum Aestivum
Translating 80s Ribosome
pdb|3IZR|WW Chain w, Localization Of The Large Subunit Ribosomal Proteins
Into A 5.5 A Cryo-Em Map Of Triticum Aestivum
Translating 80s Ribosome
Length = 113
Score = 26.9 bits (58), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 15/60 (25%), Positives = 28/60 (46%), Gaps = 4/60 (6%)
Query: 32 SFINSNTSPAVADKDHF---VACAMDNRRLVIPVPYLYSDIFRELLRMSEEEF-GLPKDG 87
++++ N SP+ D V C +DN ++ + + + ELL E+F +P G
Sbjct: 10 AYLSGNASPSAEDLTSILESVGCEIDNEKMELMLSQVKGKDITELLAAGREKFAAVPSGG 69
>pdb|2HQ9|A Chain A, Crystal Structure Of A Fad-Binding Protein (Mll6688)
From Mesorhizobium Loti At 1.95 A Resolution
pdb|2HQ9|B Chain B, Crystal Structure Of A Fad-Binding Protein (Mll6688)
From Mesorhizobium Loti At 1.95 A Resolution
Length = 149
Score = 26.6 bits (57), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 42 VADKDHFVACAMDNRRLVIPVPYLYSD 68
A++ +ACA D + V+P+ Y YSD
Sbjct: 17 TANRVGRLACAKDGQPYVVPLYYAYSD 43
>pdb|3U7G|A Chain A, Crystal Structure Of Mpnkp Catalytic Fragment (D170a)
Bound To Single- Stranded Dna (Tcctap)
Length = 379
Score = 26.2 bits (56), Expect = 5.0, Method: Composition-based stats.
Identities = 12/41 (29%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 14 WQRQLKLEEKRTLLQRSKSFINSNTSPAVADKDHFVACAMD 54
WQR + + L++ K + NT+P V + ++ CA D
Sbjct: 258 WQRCV--SSCQAALRQGKRVVIDNTNPDVPSRARYIQCAKD 296
>pdb|1YJ5|A Chain A, Molecular Architecture Of Mammalian Polynucleotide Kinase,
A Dna Repair Enzyme
pdb|1YJ5|B Chain B, Molecular Architecture Of Mammalian Polynucleotide Kinase,
A Dna Repair Enzyme
Length = 383
Score = 26.2 bits (56), Expect = 5.1, Method: Composition-based stats.
Identities = 12/41 (29%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 14 WQRQLKLEEKRTLLQRSKSFINSNTSPAVADKDHFVACAMD 54
WQR + + L++ K + NT+P V + ++ CA D
Sbjct: 262 WQRCV--SSCQAALRQGKRVVIDNTNPDVPSRARYIQCAKD 300
>pdb|3U7E|B Chain B, Crystal Structure Of Mpnkp Catalytic Fragment (D170a)
pdb|3U7F|B Chain B, Crystal Structure Of Mpnkp Catalytic Fragment (D170a)
Bound To Single- Stranded Dna (Tcctcp)
pdb|3U7H|B Chain B, Crystal Structure Of Mpnkp Catalytic Fragment (D170a)
Bound To Single- Stranded Dna (Tccttp)
Length = 381
Score = 26.2 bits (56), Expect = 5.1, Method: Composition-based stats.
Identities = 12/41 (29%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 14 WQRQLKLEEKRTLLQRSKSFINSNTSPAVADKDHFVACAMD 54
WQR + + L++ K + NT+P V + ++ CA D
Sbjct: 260 WQRCV--SSCQAALRQGKRVVIDNTNPDVPSRARYIQCAKD 298
>pdb|3ZVN|A Chain A, The Structural Basis For Substrate Recognition By
Mammalian Polynucleotide Kinase 3' Phosphatase
Length = 416
Score = 26.2 bits (56), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 14 WQRQLKLEEKRTLLQRSKSFINSNTSPAVADKDHFVACAMD 54
WQR + + L++ K + NT+P V + ++ CA D
Sbjct: 295 WQRCVS--SCQAALRQGKRVVIDNTNPDVPSRARYIQCAKD 333
>pdb|3ZVM|A Chain A, The Structural Basis For Substrate Recognition By
Mammalian Polynucleotide Kinase 3' Phosphatase
pdb|3ZVM|B Chain B, The Structural Basis For Substrate Recognition By
Mammalian Polynucleotide Kinase 3' Phosphatase
Length = 416
Score = 26.2 bits (56), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 14 WQRQLKLEEKRTLLQRSKSFINSNTSPAVADKDHFVACAMD 54
WQR + + L++ K + NT+P V + ++ CA D
Sbjct: 295 WQRCVS--SCQAALRQGKRVVIDNTNPDVPSRARYIQCAKD 333
>pdb|3ZVL|A Chain A, The Structural Basis For Substrate Recognition By
Mammalian Polynucleotide Kinase 3' Phosphatase
Length = 416
Score = 26.2 bits (56), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 14 WQRQLKLEEKRTLLQRSKSFINSNTSPAVADKDHFVACAMD 54
WQR + + L++ K + NT+P V + ++ CA D
Sbjct: 295 WQRCVS--SCQAALRQGKRVVIDNTNPDVPSRARYIQCAKD 333
>pdb|3MC2|A Chain A, Crystal Structure Of The Murine Inhibitor Of Carbonic
Anhydrase
pdb|3MC2|B Chain B, Crystal Structure Of The Murine Inhibitor Of Carbonic
Anhydrase
pdb|3MC2|C Chain C, Crystal Structure Of The Murine Inhibitor Of Carbonic
Anhydrase
pdb|3MC2|D Chain D, Crystal Structure Of The Murine Inhibitor Of Carbonic
Anhydrase
Length = 687
Score = 25.4 bits (54), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 26/64 (40%), Gaps = 18/64 (28%)
Query: 40 PAVADKDHFVACAMDN-RRLVIPVPYLY-----------------SDIFRELLRMSEEEF 81
P AD+D + MDN RR V Y D +ELLR+++E F
Sbjct: 221 PTKADRDQYELLCMDNTRRPVEEYEQCYLARVPSHVVVARSVDGKEDSIQELLRVAQEHF 280
Query: 82 GLPK 85
G K
Sbjct: 281 GKDK 284
>pdb|3A3J|A Chain A, Crystal Structures Of Penicillin Binding Protein 5 From
Haemophilus Influenzae
Length = 344
Score = 25.0 bits (53), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 28/62 (45%), Gaps = 2/62 (3%)
Query: 24 RTLLQRSKSFINSNTSPAVADKDHFVACAMDNRRLVIPVPYLYSDI--FRELLRMSEEEF 81
R SK F++ NT +VAD + V N V ++ ++ F E + ++F
Sbjct: 70 RNFPDSSKMFLDLNTQVSVADLNRGVIVVSGNDATVALAEHISGNVPNFVETMNKYVQQF 129
Query: 82 GL 83
GL
Sbjct: 130 GL 131
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 0.137 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,164,716
Number of Sequences: 62578
Number of extensions: 105473
Number of successful extensions: 275
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 269
Number of HSP's gapped (non-prelim): 14
length of query: 126
length of database: 14,973,337
effective HSP length: 87
effective length of query: 39
effective length of database: 9,529,051
effective search space: 371632989
effective search space used: 371632989
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 45 (21.9 bits)