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= 017414
(372 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 35.0 bits (79), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 32/129 (24%), Positives = 56/129 (43%), Gaps = 16/129 (12%)
Query: 117 IDMYAKSGKIGKALQVFENMKNK---------SVITWTTMIAGLALH-----GLGREALD 162
+DM +K G + +AL++++ + +V+ + +A A GL R D
Sbjct: 33 LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSR-GFD 91
Query: 163 MFSRMERARVKPNEITFIAILSACCHVGLVELGRRYFNIMKSRYGIEPKIEQYGCMIDLL 222
+F +M +V PNE TF E+ MK+ +GI+P++ YG +
Sbjct: 92 IFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKA-FGIQPRLRSYGPALFGF 150
Query: 223 GRAGYLQEA 231
R G +A
Sbjct: 151 CRKGDADKA 159
>pdb|2HRU|A Chain A, T. Maritima Purl Complexed With Adp
pdb|2HRY|A Chain A, T. Maritima Purl Complexed With Amppcp
Length = 603
Score = 31.2 bits (69), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 29/104 (27%), Positives = 46/104 (44%), Gaps = 13/104 (12%)
Query: 197 RYFNIMKSRYGIEPK-IEQYGCMIDLLGRAGYLQEAEKLLRRMP---FEANAAIWGSLLA 252
RY NI+K + G EP +E + GY +K +RR+P FE NA +
Sbjct: 4 RYLNILKEKLGREPTFVELQAFSVMWSEHCGY-SHTKKYIRRLPKTGFEGNAGV-----V 57
Query: 253 ASNIYGDVELGECALQHLIKLEPHN---SGNYAILSNIYAILGR 293
+ Y V + H +EP+N +G I+ ++ A+ R
Sbjct: 58 NLDDYYSVAFKIESANHPSAIEPYNGAATGVGGIIRDVLAMGAR 101
>pdb|2UY1|A Chain A, Crystal Structure Of Cstf-77
Length = 493
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 35/129 (27%), Positives = 67/129 (51%), Gaps = 13/129 (10%)
Query: 21 KVGDLNNARALFELMTEKNVISWTTLIAGYAQMDQPNEAITLFRRM---QVENVKPDEI- 76
++GD NARALF+ + EK W ++I Y M ++ LFR + +++ +K D I
Sbjct: 366 RIGDEENARALFKRL-EKTSRMWDSMIE-YEFMVG---SMELFRELVDQKMDAIKADAIL 420
Query: 77 AMLAALSACAQLGAVELGEWIHNYIEQYG-LNTIVPLNNALIDMYAKS-GKIGKALQVFE 134
L Q+ + LG + H +++ + L+ + N+ L+D + ++ KI + V
Sbjct: 421 PPLPPREHNVQMEGI-LGRY-HCFLDSFNFLDLKIRDNSRLLDEFMENLPKISQQNNVLS 478
Query: 135 NMKNKSVIT 143
N++ + VI+
Sbjct: 479 NLRVEKVIS 487
>pdb|2UY1|B Chain B, Crystal Structure Of Cstf-77
Length = 493
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 35/129 (27%), Positives = 67/129 (51%), Gaps = 13/129 (10%)
Query: 21 KVGDLNNARALFELMTEKNVISWTTLIAGYAQMDQPNEAITLFRRM---QVENVKPDEI- 76
++GD NARALF+ + EK W ++I Y M ++ LFR + +++ +K D I
Sbjct: 366 RIGDEENARALFKRL-EKTSRMWDSMIE-YEFMVG---SMELFRELVDQKMDAIKADAIL 420
Query: 77 AMLAALSACAQLGAVELGEWIHNYIEQYG-LNTIVPLNNALIDMYAKS-GKIGKALQVFE 134
L Q+ + LG + H +++ + L+ + N+ L+D + ++ KI + V
Sbjct: 421 PPLPPREHNVQMEGI-LGRY-HCFLDSFNFLDLKIRDNSRLLDEFMENLPKISQQNNVLS 478
Query: 135 NMKNKSVIT 143
N++ + VI+
Sbjct: 479 NLRVEKVIS 487
>pdb|1VK3|A Chain A, Crystal Structure Of Phosphoribosylformylglycinamidine
Synthase Ii (Tm1246) From Thermotoga Maritima At 2.15 A
Resolution
Length = 615
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 5/54 (9%)
Query: 197 RYFNIMKSRYGIEPK-IEQYGCMIDLLGRAGYLQEAEKLLRRMP---FEANAAI 246
RY NI+K + G EP +E + GY +K +RR+P FE NA +
Sbjct: 16 RYLNILKEKLGREPTFVELQAFSVXWSEHCGY-SHTKKYIRRLPKTGFEGNAGV 68
>pdb|2HS0|A Chain A, T. Maritima Purl Complexed With Atp
pdb|2HS3|A Chain A, T. Maritima Purl Complexed With Fgar
pdb|2HS4|A Chain A, T. Maritima Purl Complexed With Fgar And Amppcp
Length = 603
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 29/104 (27%), Positives = 46/104 (44%), Gaps = 13/104 (12%)
Query: 197 RYFNIMKSRYGIEPK-IEQYGCMIDLLGRAGYLQEAEKLLRRMP---FEANAAIWGSLLA 252
RY NI+K + G EP +E + GY +K +RR+P FE NA +
Sbjct: 4 RYLNILKEKLGREPTFVELQAFSVMWSEHCGY-SHTKKYIRRLPKTGFEGNAGV-----V 57
Query: 253 ASNIYGDVELGECALQHLIKLEPHN---SGNYAILSNIYAILGR 293
+ Y V + H +EP+N +G I+ ++ A+ R
Sbjct: 58 NLDDYYSVAFKIESHNHPSAIEPYNGAATGVGGIIRDVLAMGAR 101
>pdb|3D54|A Chain A, Stucture Of Purlqs From Thermotoga Maritima
pdb|3D54|E Chain E, Stucture Of Purlqs From Thermotoga Maritima
pdb|3D54|I Chain I, Stucture Of Purlqs From Thermotoga Maritima
Length = 629
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 29/104 (27%), Positives = 46/104 (44%), Gaps = 13/104 (12%)
Query: 197 RYFNIMKSRYGIEPK-IEQYGCMIDLLGRAGYLQEAEKLLRRMP---FEANAAIWGSLLA 252
RY NI+K + G EP +E + GY +K +RR+P FE NA +
Sbjct: 30 RYLNILKEKLGREPTFVELQAFSVMWSEHCGY-SHTKKYIRRLPKTGFEGNAGV-----V 83
Query: 253 ASNIYGDVELGECALQHLIKLEPHN---SGNYAILSNIYAILGR 293
+ Y V + H +EP+N +G I+ ++ A+ R
Sbjct: 84 NLDDYYSVAFKIESHNHPSAIEPYNGAATGVGGIIRDVLAMGAR 127
>pdb|3MKR|A Chain A, Crystal Structure Of Yeast AlphaEPSILON-Cop Subcomplex Of
The Copi Vesicular Coat
Length = 291
Score = 29.3 bits (64), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 30/119 (25%), Positives = 50/119 (42%), Gaps = 19/119 (15%)
Query: 108 TIVPLNNALIDMYAKSGKIGKALQVFENMKNKSVITWTTMIAGLALH----------GLG 157
T+ L A + + A K+ A +F+ M +K T + A H G+
Sbjct: 164 TLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVL 223
Query: 158 REALDMFSRMERARVKPNEITFIAILSACCHVG-LVELGRRYFNIMKSRYGIEPKIEQY 215
+EALD S P + + +LS H+G E+ RY + +K + P I++Y
Sbjct: 224 QEALDKDSG------HPETLINLVVLSQ--HLGKPPEVTNRYLSQLKDAHRSHPFIKEY 274
>pdb|2D0I|A Chain A, Crystal Structure Ph0520 Protein From Pyrococcus
Horikoshii Ot3
pdb|2D0I|B Chain B, Crystal Structure Ph0520 Protein From Pyrococcus
Horikoshii Ot3
pdb|2D0I|C Chain C, Crystal Structure Ph0520 Protein From Pyrococcus
Horikoshii Ot3
pdb|2D0I|D Chain D, Crystal Structure Ph0520 Protein From Pyrococcus
Horikoshii Ot3
Length = 333
Score = 29.3 bits (64), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 25/43 (58%), Gaps = 3/43 (6%)
Query: 216 GCMIDLLGRAGYLQEAEKLLRRMPFEANAAIWGSLLAASNIYG 258
G +I+L+ + Y A+K +RR +E++A IW ++YG
Sbjct: 107 GLIINLMRKIHY---ADKFIRRGEWESHAKIWTGFKRIESLYG 146
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 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,540,506
Number of Sequences: 62578
Number of extensions: 413385
Number of successful extensions: 1129
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 1128
Number of HSP's gapped (non-prelim): 10
length of query: 372
length of database: 14,973,337
effective HSP length: 100
effective length of query: 272
effective length of database: 8,715,537
effective search space: 2370626064
effective search space used: 2370626064
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)