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= 029918
(185 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1B54|A Chain A, Crystal Structure Of A Yeast Hypothetical Protein-A
Structure From Bnl's Human Proteome Project
Length = 257
Score = 102 bits (255), Expect = 8e-23, Method: Compositional matrix adjust.
Identities = 57/110 (51%), Positives = 75/110 (68%), Gaps = 3/110 (2%)
Query: 60 RIRIVAVSKTKPVSVIRQVYEAGHRCFGENYVQEIVEKAAQLPDDLEWHFIGNLQSNKVK 119
+I ++ VSK KP S I+ +Y+ G R FGENYVQE++EKA LPDD++WHFIG LQ+NK K
Sbjct: 41 KILLLVVSKLKPASDIQILYDHGVREFGENYVQELIEKAKLLPDDIKWHFIGGLQTNKCK 100
Query: 120 PLLAGVPNLAMVESVDNEKIAGRLN--RMVETMGRKPLKVLVQVNTSGEE 167
LA VPNL VE++D+ K A +LN R P+ VQ+NTS E+
Sbjct: 101 D-LAKVPNLYSVETIDSLKKAKKLNESRAKFQPDCNPILCNVQINTSHED 149
>pdb|1CT5|A Chain A, Crystal Structure Of Yeast Hypothetical Protein
Ybl036c-Selenomet Crystal
Length = 256
Score = 102 bits (255), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 57/110 (51%), Positives = 75/110 (68%), Gaps = 3/110 (2%)
Query: 60 RIRIVAVSKTKPVSVIRQVYEAGHRCFGENYVQEIVEKAAQLPDDLEWHFIGNLQSNKVK 119
+I ++ VSK KP S I+ +Y+ G R FGENYVQE++EKA LPDD++WHFIG LQ+NK K
Sbjct: 40 KILLLVVSKLKPASDIQILYDHGVREFGENYVQELIEKAKLLPDDIKWHFIGGLQTNKCK 99
Query: 120 PLLAGVPNLAMVESVDNEKIAGRLN--RMVETMGRKPLKVLVQVNTSGEE 167
LA VPNL VE++D+ K A +LN R P+ VQ+NTS E+
Sbjct: 100 D-LAKVPNLYSVETIDSLKKAKKLNESRAKFQPDCNPILCNVQINTSHED 148
>pdb|1W8G|A Chain A, Crystal Structure Of E. Coli K-12 Yggs
Length = 234
Score = 92.8 bits (229), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 60/133 (45%), Positives = 77/133 (57%), Gaps = 12/133 (9%)
Query: 40 LRSVIQRVHQAAERSSRPPDRIRIVAVSKTKPVSVIRQVYEAGHRCFGENYVQEIVEKAA 99
L V ++ AA R R P+ I ++AVSKTKP S I + +AG R FGENYVQE V+K
Sbjct: 8 LAQVRDKISAAATRCGRSPEEITLLAVSKTKPASAIAEAIDAGQRQFGENYVQEGVDKIR 67
Query: 100 QLPD----DLEWHFIGNLQSNKVKPLLAGVPNLAMVESVDNEKIAGRLN--RMVETMGRK 153
+ LEWHFIG LQSNK + L+A + ++D +IA RLN R E
Sbjct: 68 HFQELGVTGLEWHFIGPLQSNKSR-LVA--EHFDWCHTIDRLRIATRLNDQRPAEL---P 121
Query: 154 PLKVLVQVNTSGE 166
PL VL+Q+N S E
Sbjct: 122 PLNVLIQINISDE 134
>pdb|3SY1|A Chain A, Crystal Structure Of Engineered Protein. Northeast
Structural Genomics Consortium Target Or70
Length = 245
Score = 82.8 bits (203), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 57/133 (42%), Positives = 75/133 (56%), Gaps = 12/133 (9%)
Query: 40 LRSVIQRVHQAAERSSRPPDRIRIVAVSKTKPVSVIRQVYEAGHRCFGENYVQEIVEKAA 99
L V ++ AA R R P+ I +VAVSKTKP S I + +AG R F E+YVQE V+K
Sbjct: 9 LAQVRDKISAAATRCGRSPEEITLVAVSKTKPASAIAEAIDAGQRQFSEHYVQEGVDKIR 68
Query: 100 QLPD----DLEWHFIGNLQSNKVKPLLAGVPNLAMVESVDNEKIAGRLN--RMVETMGRK 153
+ LEW+F G LQSNK + L+A + ++D +IA RLN R E
Sbjct: 69 HFQELGVTGLEWNFAGPLQSNKSR-LVA--EHFDWCITIDRLRIATRLNDQRPAEL---P 122
Query: 154 PLKVLVQVNTSGE 166
PL VL+Q+N S E
Sbjct: 123 PLNVLIQINISDE 135
>pdb|3R79|A Chain A, Crystal Structure Of An Uncharactertized Protein From
Agrobacterium Tumefaciens
pdb|3R79|B Chain B, Crystal Structure Of An Uncharactertized Protein From
Agrobacterium Tumefaciens
Length = 244
Score = 81.6 bits (200), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 57/130 (43%), Positives = 70/130 (53%), Gaps = 7/130 (5%)
Query: 40 LRSVIQRVHQAAERSSRPPDRIRIVAVSKTKPVSVIRQVYEAGHRCFGENYVQEIVEKAA 99
L V QR+ AE+S R + +VAVSKT I+ V +AG R FGEN VQE K
Sbjct: 10 LEDVRQRIADVAEKSGRKAADVALVAVSKTFDAEAIQPVIDAGQRVFGENRVQEAQGKWP 69
Query: 100 QLPD---DLEWHFIGNLQSNKVKPLLAGVPNLAMVESVDNEKIAGRLNRMVETMGRKPLK 156
L + D+E H IG LQSNK +A +VES+D EKIA L+ GR L+
Sbjct: 70 ALKEKTSDIELHLIGPLQSNKAADAVA---LFDVVESIDREKIARALSEECARQGRS-LR 125
Query: 157 VLVQVNTSGE 166
VQVNT E
Sbjct: 126 FYVQVNTGLE 135
>pdb|3CPG|A Chain A, Crystal Structure Of An Unknown Protein From
Bifidobacterium Adolescentis
Length = 282
Score = 67.8 bits (164), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 46/146 (31%), Positives = 73/146 (50%), Gaps = 25/146 (17%)
Query: 43 VIQRVHQAAERSSRPPDRIRIVAVSKTKPVSVIRQVYEAGHRCFGENYVQEIVEKAAQLP 102
V+ R+ A E++ R +R++A +KT+ + I +AG R GEN QE+ KA L
Sbjct: 32 VLDRIAAAEEQAGREAGSVRLLAATKTRDIGEIXAAIDAGVRXIGENRPQEVTAKAEGLA 91
Query: 103 ---------------------DDLEWHFIGNLQSNKVKPLLAGVPNLAMVESVDNEKIAG 141
+ + +H IG LQSNK+ +L P + +ESVD+ +A
Sbjct: 92 RRCAERGFSLGVAGAAPDAAAEHIPFHLIGQLQSNKIGKVL---PVVDTIESVDSIDLAE 148
Query: 142 RLNRMVETMGRKPLKVLVQVNTSGEE 167
+++R G + VL++VN SGEE
Sbjct: 149 KISRRAVARG-ITVGVLLEVNESGEE 173
>pdb|3LDV|A Chain A, 1.77 Angstrom Resolution Crystal Structure Of Orotidine
5'- Phosphate Decarboxylase From Vibrio Cholerae O1
Biovar Eltor Str. N16961
pdb|3LDV|B Chain B, 1.77 Angstrom Resolution Crystal Structure Of Orotidine
5'- Phosphate Decarboxylase From Vibrio Cholerae O1
Biovar Eltor Str. N16961
pdb|3UWQ|A Chain A, 1.80 Angstrom Resolution Crystal Structure Of Orotidine
5'-Phosphate Decarboxylase From Vibrio Cholerae O1
Biovar Eltor Str. N16961 In Complex With
Uridine-5'-Monophosphate (Ump)
pdb|3UWQ|B Chain B, 1.80 Angstrom Resolution Crystal Structure Of Orotidine
5'-Phosphate Decarboxylase From Vibrio Cholerae O1
Biovar Eltor Str. N16961 In Complex With
Uridine-5'-Monophosphate (Ump)
Length = 255
Score = 30.0 bits (66), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 27/102 (26%), Positives = 48/102 (47%), Gaps = 1/102 (0%)
Query: 66 VSKTKPVSVIRQVYEAGHRCFGENYVQEIVEKAAQLPDDLEWHFIGNLQSNKVKPLLAGV 125
V K P + +V + FG ++V+E+ ++ + DL++H I N S VK
Sbjct: 46 VDKIDPSTCRLKVGKEMFTLFGPDFVRELHKRGFSVFLDLKFHDIPNTCSKAVKAAAELG 105
Query: 126 PNLAMVESVDNEKIAGRLNRMVETMGR-KPLKVLVQVNTSGE 166
+ V + E++ ++E G+ +PL + V V TS E
Sbjct: 106 VWMVNVHASGGERMMAASREILEPYGKERPLLIGVTVLTSME 147
>pdb|1J7X|A Chain A, Crystal Structure Of A Functional Unit Of
Interphotoreceptor Retinoid-Binding Protein (Irbp)
Length = 302
Score = 28.1 bits (61), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 115 SNKVKPLLAGVPNLAMVESVDNEKIAGRLNRMVETMGRKPLKVL 158
S ++ LL +PNL + E IA +LN ++++ P VL
Sbjct: 22 SERIPTLLQHLPNLDYSTVISEEDIAAKLNYELQSLTEDPRLVL 65
>pdb|1ZIX|A Chain A, Crystal Structure Analysis Of The Dienelactone Hydrolase
Mutant (E36d, R105h, C123s, G211d, K234n)- 1.8 A
Length = 236
Score = 27.7 bits (60), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 25/60 (41%), Gaps = 1/60 (1%)
Query: 58 PDRIRIVAVSKTKPVSVIRQVYEAGHRCFGENYVQEIVEKAAQLPDDLEWHFIGNLQSNK 117
P R I P+ + EAGH F + V AA L ++ F+ LQSNK
Sbjct: 177 PSRQLITEGFGANPLLQVHWYEEAGH-SFARTSSSDYVASAAALANERTLDFLAPLQSNK 235
>pdb|2FH5|A Chain A, The Structure Of The Mammalian Srp Receptor
pdb|2GO5|1 Chain 1, Structure Of Signal Recognition Particle Receptor (Sr) In
Complex With Signal Recognition Particle (Srp) And
Ribosome Nascent Chain Complex
Length = 185
Score = 27.3 bits (59), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 25/102 (24%), Positives = 47/102 (46%), Gaps = 14/102 (13%)
Query: 61 IRIVAVSKTKPVSVIRQVYEAGHRCFGENYVQEIVEKAA----QLPDDLEWHFIGNL--- 113
+ +V K ++ + ++ + HR F + Y EI +++A D + F+ L
Sbjct: 74 VFVVGFQKILTLTYVDKLIDDVHRLFRDKYRTEIQQQSALSLLNGTFDFQNDFLRLLREA 133
Query: 114 -QSNKVKPLLAGVPNLAMVESVDNEKIAGRLNRMVETMGRKP 154
+S+K++ P M + D+EK + M+ET G KP
Sbjct: 134 EESSKIR-----APT-TMKKFEDSEKAKKPVRSMIETRGEKP 169
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 0.133 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,061,489
Number of Sequences: 62578
Number of extensions: 140563
Number of successful extensions: 438
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 422
Number of HSP's gapped (non-prelim): 11
length of query: 185
length of database: 14,973,337
effective HSP length: 93
effective length of query: 92
effective length of database: 9,153,583
effective search space: 842129636
effective search space used: 842129636
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 48 (23.1 bits)