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= 025380
(253 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 = 137 bits (344), Expect = 7e-33, Method: Compositional matrix adjust.
Identities = 85/199 (42%), Positives = 120/199 (60%), Gaps = 18/199 (9%)
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 PLLAGVPNLAMVESVDNEKIAGRLNRMVETMGR-----KPLKVLVQVNTSGEESKSGVEP 174
LA VPNL VE++D+ K A +LN E+ + P+ VQ+NTS E+ KSG+
Sbjct: 101 D-LAKVPNLYSVETIDSLKKAKKLN---ESRAKFQPDCNPILCNVQINTSHEDQKSGLNN 156
Query: 175 SG-CLELVK-HVSQNCPNLEFCGLMTIGMPD--YTSTPEN--FKTLAKCRSEVCKALGIP 228
E++ +S+ C ++ GLMTIG + + + EN F TL + + ++ G
Sbjct: 157 EAEIFEVIDFFLSEECKYIKLNGLMTIGSWNVSHEDSKENRDFATLVEWKKKIDAKFGTS 216
Query: 229 EEQCDLSMGMSGDFELAVR 247
LSMGMS DF A+R
Sbjct: 217 ---LKLSMGMSADFREAIR 232
>pdb|1CT5|A Chain A, Crystal Structure Of Yeast Hypothetical Protein
Ybl036c-Selenomet Crystal
Length = 256
Score = 129 bits (324), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 82/199 (41%), Positives = 117/199 (58%), Gaps = 18/199 (9%)
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 PLLAGVPNLAMVESVDNEKIAGRLNRMVETMGR-----KPLKVLVQVNTSGEESKSGVEP 174
LA VPNL VE++D+ K A +LN E+ + P+ VQ+NTS E+ KSG+
Sbjct: 100 D-LAKVPNLYSVETIDSLKKAKKLN---ESRAKFQPDCNPILCNVQINTSHEDQKSGLNN 155
Query: 175 SG-CLELVK-HVSQNCPNLEFCGLMTIGMPD--YTSTPEN--FKTLAKCRSEVCKALGIP 228
E++ +S+ C ++ GL TIG + + + EN F TL + + ++ G
Sbjct: 156 EAEIFEVIDFFLSEECKYIKLNGLXTIGSWNVSHEDSKENRDFATLVEWKKKIDAKFGTS 215
Query: 229 EEQCDLSMGMSGDFELAVR 247
LS G S DF A+R
Sbjct: 216 ---LKLSXGXSADFREAIR 231
>pdb|1W8G|A Chain A, Crystal Structure Of E. Coli K-12 Yggs
Length = 234
Score = 118 bits (296), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 86/216 (39%), Positives = 113/216 (52%), Gaps = 20/216 (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 PLKVLVQVNTSGEESKSGVEPSGCLELVKHVSQNCPNLEFCGLMTIGMPDYTSTPENFKT 213
PL VL+Q+N S E SKSG++ + EL V++ P L GLM I P+ E +
Sbjct: 122 PLNVLIQINISDENSKSGIQLAELDELAAAVAE-LPRLRLRGLMAIPAPE----SEYVRQ 176
Query: 214 LAKCRSEVCKALGIPEE--QCD-LSMGMSGDFELAV 246
R G+ D LS+GMS D E A+
Sbjct: 177 FEVARQMAVAFAGLKTRYPHIDTLSLGMSDDMEAAI 212
>pdb|3SY1|A Chain A, Crystal Structure Of Engineered Protein. Northeast
Structural Genomics Consortium Target Or70
Length = 245
Score = 102 bits (253), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 80/216 (37%), Positives = 109/216 (50%), Gaps = 20/216 (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 PLKVLVQVNTSGEESKSGVEPSGCLELVKHVSQNCPNLEFCGLMTIGMPDYTSTPENFKT 213
PL VL+Q+N S E SKSG++ + EL V++ P L GL I P+ E +
Sbjct: 123 PLNVLIQINISDENSKSGIQLAELDELAAAVAE-LPRLRLRGLSAIPAPE----SEYVRQ 177
Query: 214 LAKCRSEVCKALGIPEE--QCD-LSMGMSGDFELAV 246
R G+ D L++G S D E A+
Sbjct: 178 FEVARQMAVAFAGLKTRYPHIDTLALGQSDDMEAAI 213
>pdb|3CPG|A Chain A, Crystal Structure Of An Unknown Protein From
Bifidobacterium Adolescentis
Length = 282
Score = 101 bits (252), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 75/229 (32%), Positives = 117/229 (51%), Gaps = 31/229 (13%)
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 RLNRMVETMGRKPLKVLVQVNTSGEESKSGVEPSGCLELVKHVSQNCPNLEFCGLMTIG- 200
+++R G + VL++VN SGEESKSG +P+ + + + + +E GL TIG
Sbjct: 149 KISRRAVARG-ITVGVLLEVNESGEESKSGCDPAHAIRIAQKIG-TLDGIELQGLXTIGA 206
Query: 201 -MPDYTSTPENFKTLAKCRSEVCKALGIP-EEQC-DLSMGMSGDFELAV 246
+ D T F L K R ++ A G P ++C +LS G +GD ELA+
Sbjct: 207 HVHDETVIRRGFSHLRKTR-DLILASGEPGTDRCRELSXGXTGDXELAI 254
>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 = 99.8 bits (247), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 82/213 (38%), Positives = 101/213 (47%), Gaps = 23/213 (10%)
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 VLVQVNTSGEESKSGVEPSGCLELVKHVSQNCPNLEFCGLMTIGMPDYTSTPENFKTLAK 216
VQVNT E K+G++P + V L GL I + P +F LAK
Sbjct: 126 FYVQVNTGLEPQKAGIDPRETVAFVAFCRDEL-KLPVEGLXCIPPAEENPGP-HFALLAK 183
Query: 217 CRSEVCKALGIPEEQC---DLSMGMSGDFELAV 246
QC LS G SGDFE AV
Sbjct: 184 LAG-----------QCGLEKLSXGXSGDFETAV 205
>pdb|4GQB|A Chain A, Crystal Structure Of The Human Prmt5:mep50 Complex
Length = 637
Score = 31.2 bits (69), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 28/102 (27%), Positives = 45/102 (44%), Gaps = 4/102 (3%)
Query: 111 GNLQSNKVKPLLAGVPNLAMVES----VDNEKIAGRLNRMVETMGRKPLKVLVQVNTSGE 166
+L SN V G P A + + N+K L++M + + + LK+ VQ +G
Sbjct: 210 ADLPSNHVIDRWLGEPIKAAILPTSIFLTNKKGFPVLSKMHQRLIFRLLKLEVQFIITGT 269
Query: 167 ESKSGVEPSGCLELVKHVSQNCPNLEFCGLMTIGMPDYTSTP 208
S E L+ ++++SQN P L G DY +P
Sbjct: 270 NHHSEKEFCSYLQYLEYLSQNRPPPNAYELFAKGYEDYLQSP 311
>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 = 30.8 bits (68), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 27/104 (25%), Positives = 49/104 (47%), Gaps = 1/104 (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-KPLKVLVQVNTSGEES 168
+ V + E++ ++E G+ +PL + V V TS E +
Sbjct: 106 VWMVNVHASGGERMMAASREILEPYGKERPLLIGVTVLTSMESA 149
>pdb|1J7X|A Chain A, Crystal Structure Of A Functional Unit Of
Interphotoreceptor Retinoid-Binding Protein (Irbp)
Length = 302
Score = 28.5 bits (62), Expect = 4.0, 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|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 = 27.7 bits (60), Expect = 7.1, 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 EESSKIRA-----PT-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
0.317 0.132 0.382
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,963,444
Number of Sequences: 62578
Number of extensions: 227979
Number of successful extensions: 632
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 606
Number of HSP's gapped (non-prelim): 12
length of query: 253
length of database: 14,973,337
effective HSP length: 97
effective length of query: 156
effective length of database: 8,903,271
effective search space: 1388910276
effective search space used: 1388910276
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)