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= 014860
(417 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3DMD|B Chain B, Structures And Conformations In Solution Of The Signal
Recognition Particle Receptor From The Archaeon
Pyrococcus Furiosus
pdb|3DMD|A Chain A, Structures And Conformations In Solution Of The Signal
Recognition Particle Receptor From The Archaeon
Pyrococcus Furiosus
pdb|3DMD|C Chain C, Structures And Conformations In Solution Of The Signal
Recognition Particle Receptor From The Archaeon
Pyrococcus Furiosus
pdb|3E70|C Chain C, Structures And Conformations In Solution Of The Signal
Recognition Particle Receptor From The Archaeon
Pyrococcus Furiosus
Length = 328
Score = 35.4 bits (80), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 44/170 (25%), Positives = 66/170 (38%), Gaps = 35/170 (20%)
Query: 195 VFKYMKNSRNL----ECRPSIRSYNILFTAFLSRGKNTYINHVYMETIRCLFKQMVNDGI 250
V + ++ SR + E R + + Y I+F F GK T TI L + N G
Sbjct: 107 VSEILETSRRIDLIEEIRKAEKPYVIMFVGFNGSGKTT--------TIAKLANWLKNHGF 158
Query: 251 EPDIFSLNSMIKGYI--LSNHVNDALRIFHQMGV-----VYNYLPNSFSYDYLIHG---- 299
I + ++ G I L H ++GV Y P + +YD + H
Sbjct: 159 SVVIAASDTFRAGAIEQLEEHAK-------RIGVKVIKHSYGADPAAVAYDAIQHAKARG 211
Query: 300 -----LCAQGRTKNARELCDEMKRKGFVPSSKSYNSLVSALALNGEVEET 344
+ GR++ R L DEMK+ V + ALA N VE+
Sbjct: 212 IDVVLIDTAGRSETNRNLMDEMKKIARVTKPNLVIFVGDALAGNAIVEQA 261
>pdb|3SP1|A Chain A, Crystal Structure Of Cysteinyl-Trna Synthetase (Cyss) From
Borrelia Burgdorferi
pdb|3SP1|B Chain B, Crystal Structure Of Cysteinyl-Trna Synthetase (Cyss) From
Borrelia Burgdorferi
Length = 501
Score = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 41/84 (48%), Gaps = 7/84 (8%)
Query: 312 LCDEMKRKGFVPSSKSYNSLVSALALNGEVEETVKNLWEMIEKQRPVDFIT---YRTVLD 368
L ++K GF + Y+S V ++ + V + + LWE+I K + F++ + D
Sbjct: 372 LNKDLKNFGFSVEKEYYDSFVEKISFDLNVAQGLALLWEII-KSDNLSFVSKLRLAFIFD 430
Query: 369 EICRRGRAGEAMKLLKELQNKNLI 392
EI E +LK LQN +++
Sbjct: 431 EIMSLNLREE---ILKNLQNHDVV 451
>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Ca
Length = 501
Score = 29.6 bits (65), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 37/178 (20%), Positives = 66/178 (37%), Gaps = 19/178 (10%)
Query: 135 HDASTYHIMTRKLGAAKMYQEMDDVVNQMLATPSFCGTEALYNTIIYFFAEARKLSRAVY 194
H AS ++RK + Q + ++ Q L C + + + EAR+ V
Sbjct: 4 HMASPSENLSRKAKKKAIQQSPEALLKQKL---DMCSKKGDVLEALRLYDEARR--NGVQ 58
Query: 195 VFKYMKNSRNLECRPSIRSYNILFTAFLSRGKNTYINHVYMETIRCLFKQMVNDGIEPDI 254
+ +Y N C + + LSRG + +FKQM+ D + P+
Sbjct: 59 LSQYHYNVLLYVCSLAEAATESSPNPGLSRGFD-------------IFKQMIVDKVVPNE 105
Query: 255 FSLNSMIKGYILSNHVNDALRIFHQMGVVYNYLPNSFSYDYLIHGLCAQGRTKNAREL 312
+ + + + + A + QM + P SY + G C +G A E+
Sbjct: 106 ATFTNGARLAVAKDDPEMAFDMVKQMKA-FGIQPRLRSYGPALFGFCRKGDADKAYEV 162
>pdb|1XXH|A Chain A, Atpgs Bound E. Coli Clamp Loader Complex
pdb|1XXH|F Chain F, Atpgs Bound E. Coli Clamp Loader Complex
Length = 343
Score = 29.3 bits (64), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 372 RRGRAGEAMKLLKELQNKNLIDGYTYTKLLDVLEDDFGNSI 412
RRG GEA+ L + Q + + T T+L L+ D+G S+
Sbjct: 282 RRGXXGEALNRLSQTQLRQAVQLLTRTEL--TLKQDYGQSV 320
>pdb|1JR3|D Chain D, Crystal Structure Of The Processivity Clamp Loader Gamma
Complex Of E. Coli Dna Polymerase Iii
pdb|1JQJ|C Chain C, Mechanism Of Processivity Clamp Opening By The Delta
Subunit Wrench Of The Clamp Loader Complex Of E. Coli
Dna Polymerase Iii: Structure Of The Beta-Delta Complex
pdb|1JQJ|D Chain D, Mechanism Of Processivity Clamp Opening By The Delta
Subunit Wrench Of The Clamp Loader Complex Of E. Coli
Dna Polymerase Iii: Structure Of The Beta-Delta Complex
pdb|1XXI|A Chain A, Adp Bound E. Coli Clamp Loader Complex
pdb|1XXI|F Chain F, Adp Bound E. Coli Clamp Loader Complex
pdb|3GLF|A Chain A, Crystal Structure Of The Ecoli Clamp Loader Bound To
Primer-template Dna
pdb|3GLF|F Chain F, Crystal Structure Of The Ecoli Clamp Loader Bound To
Primer-template Dna
pdb|3GLG|A Chain A, Crystal Structure Of A Mutant (Gammat157a) E. Coli Clamp
Loader Bound To Primer-Template Dna
pdb|3GLG|F Chain F, Crystal Structure Of A Mutant (Gammat157a) E. Coli Clamp
Loader Bound To Primer-Template Dna
pdb|3GLH|A Chain A, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLH|F Chain F, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLH|K Chain K, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLI|A Chain A, Crystal Structure Of The E. Coli Clamp Loader Bound To
Primer-template Dna And Psi Peptide
pdb|3GLI|F Chain F, Crystal Structure Of The E. Coli Clamp Loader Bound To
Primer-template Dna And Psi Peptide
Length = 343
Score = 28.9 bits (63), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 372 RRGRAGEAMKLLKELQNKNLIDGYTYTKLLDVLEDDFGNSI 412
RRG GEA+ L + Q + + T T+L L+ D+G S+
Sbjct: 282 RRGMMGEALNRLSQTQLRQAVQLLTRTEL--TLKQDYGQSV 320
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
0.323 0.135 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,651,628
Number of Sequences: 62578
Number of extensions: 442946
Number of successful extensions: 1155
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1150
Number of HSP's gapped (non-prelim): 8
length of query: 417
length of database: 14,973,337
effective HSP length: 101
effective length of query: 316
effective length of database: 8,652,959
effective search space: 2734335044
effective search space used: 2734335044
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (25.0 bits)