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= 003868
(790 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
Length = 1134
Score = 33.5 bits (75), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 35/145 (24%), Positives = 61/145 (42%), Gaps = 10/145 (6%)
Query: 441 HAQLVHSGYDS-----SLSAGNALITMYARCGVVEAANCVFNTMPNV----DSVSWNAMI 491
H +VH G +L NA++ +AR G + V + + D +S+ A +
Sbjct: 148 HLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAAL 207
Query: 492 AALGQHGNGARAIE-LYEQMLKEGILPDRITFLTVLSACNHAGLVKEGRRYFETMHGPYG 550
+G+ A IE EQM +EG+ + +LS + A ++K + T P
Sbjct: 208 QCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQ 267
Query: 551 IPPGEDHYARFIDLLCRAGKFSEAK 575
+PP + D+ + G+ S K
Sbjct: 268 LPPPVNTSKLLRDVYAKDGRVSYPK 292
>pdb|2KCL|A Chain A, Solution Nmr Structure Of Tetratricopeptide Repeat Domain
Protein Sru_0103 From Salinibacter Ruber, Northeast
Structural Genomics Consortium (Nesg) Target Srr115c
pdb|2KCV|A Chain A, Solution Nmr Structure Of Tetratricopeptide Repeat Domain
Protein Sru_0103 From Salinibacter Ruber, Northeast
Structural Genomics Consortium (Nesg) Target Srr115c
Length = 99
Score = 33.5 bits (75), Expect = 0.43, Method: Composition-based stats.
Identities = 19/60 (31%), Positives = 30/60 (50%), Gaps = 4/60 (6%)
Query: 600 HGNIDLGIQAAEQLFQLMPHHAGTYVLLSNMYANLGRWDDA----ARVRKLMRDRGVKKE 655
H N + E+L + P + GTY L +Y L R DDA A+ ++ R+ G +K+
Sbjct: 19 HDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVAREEGTQKD 78
>pdb|3MA5|A Chain A, Crystal Structure Of The Tetratricopeptide Repeat Domain
Protein Q2s6c5_salrd From Salinibacter Ruber. Northeast
Structural Genomics Consortium Target Srr115c.
pdb|3MA5|B Chain B, Crystal Structure Of The Tetratricopeptide Repeat Domain
Protein Q2s6c5_salrd From Salinibacter Ruber. Northeast
Structural Genomics Consortium Target Srr115c.
pdb|3MA5|C Chain C, Crystal Structure Of The Tetratricopeptide Repeat Domain
Protein Q2s6c5_salrd From Salinibacter Ruber. Northeast
Structural Genomics Consortium Target Srr115c.
pdb|3MA5|D Chain D, Crystal Structure Of The Tetratricopeptide Repeat Domain
Protein Q2s6c5_salrd From Salinibacter Ruber. Northeast
Structural Genomics Consortium Target Srr115c
Length = 100
Score = 33.5 bits (75), Expect = 0.45, Method: Composition-based stats.
Identities = 19/60 (31%), Positives = 30/60 (50%), Gaps = 4/60 (6%)
Query: 600 HGNIDLGIQAAEQLFQLMPHHAGTYVLLSNMYANLGRWDDA----ARVRKLMRDRGVKKE 655
H N + E+L + P + GTY L +Y L R DDA A+ ++ R+ G +K+
Sbjct: 20 HDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVAREEGTQKD 79
>pdb|3S6B|A Chain A, Crystal Structure Of Methionine Aminopeptidase 1b From
Plasmodium Falciparum, Pf10_0150
Length = 368
Score = 32.0 bits (71), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 19/31 (61%)
Query: 656 PGCSWIEVDNKVHVFLVDDTAHPEAQAVYKY 686
PG + E+D KVH F++ + A+P YK+
Sbjct: 132 PGVTTDEIDRKVHEFIIKNNAYPSTLNYYKF 162
>pdb|2ZZF|A Chain A, Crystal Structure Of Alanyl-Trna Synthetase Without
Oligomerization Domain
pdb|2ZZG|A Chain A, Crystal Structure Of Alanyl-Trna Synthetase In Complex
With 5''-O-(N-(L-Alanyl)-Sulfamyoxyl) Adenine Without
Oligomerization Domain
pdb|2ZZG|B Chain B, Crystal Structure Of Alanyl-Trna Synthetase In Complex
With 5''-O-(N-(L-Alanyl)-Sulfamyoxyl) Adenine Without
Oligomerization Domain
Length = 752
Score = 31.6 bits (70), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 23/45 (51%), Gaps = 5/45 (11%)
Query: 592 ALLAGCRIHGNIDLGIQAAEQLFQLMPHHAGTYVLLSNMYANLGR 636
A G +HG ID ++ Q M HH GT+VL+ + LGR
Sbjct: 590 AFKEGMIVHGKIDW-----KRRIQHMRHHTGTHVLMGALVRVLGR 629
>pdb|2ZZE|A Chain A, Crystal Structure Of Alanyl-Trna Synthetase Without
Oligomerization Domain In Lysine-Methylated Form
pdb|2ZZE|B Chain B, Crystal Structure Of Alanyl-Trna Synthetase Without
Oligomerization Domain In Lysine-Methylated Form
Length = 752
Score = 30.4 bits (67), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 22/45 (48%), Gaps = 5/45 (11%)
Query: 592 ALLAGCRIHGNIDLGIQAAEQLFQLMPHHAGTYVLLSNMYANLGR 636
A G +HG ID + Q M HH GT+VL+ + LGR
Sbjct: 590 AFXEGMIVHGXIDW-----XRRIQHMRHHTGTHVLMGALVRVLGR 629
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
0.322 0.136 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,375,537
Number of Sequences: 62578
Number of extensions: 959399
Number of successful extensions: 2340
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 2335
Number of HSP's gapped (non-prelim): 8
length of query: 790
length of database: 14,973,337
effective HSP length: 107
effective length of query: 683
effective length of database: 8,277,491
effective search space: 5653526353
effective search space used: 5653526353
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 55 (25.8 bits)