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= 007685
(593 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3A5V|A Chain A, Crystal Structure Of Alpha-Galactosidase I From
Mortierella Vinacea
Length = 397
Score = 33.5 bits (75), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 35/65 (53%), Gaps = 6/65 (9%)
Query: 19 FGWCTWDAFYTDVTAEGVDEGLKSLSAGGTPP---KFLIIDDGWQQIENKPKEESNCIVQ 75
GW TW+ + +V + + + K++++ G ++IIDD WQ+ E +E S ++
Sbjct: 11 MGWNTWNKYGCNVDEQLILDAAKAIASSGLKDLGYNYVIIDDCWQKNE---RESSKTLLA 67
Query: 76 EGAQF 80
+ +F
Sbjct: 68 DPTKF 72
>pdb|2YKR|W Chain W, 30s Ribosomal Subunit With Rsga Bound In The Presence Of
Gmppnp
Length = 350
Score = 32.7 bits (73), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 38/84 (45%), Gaps = 8/84 (9%)
Query: 166 VMDSLAVHGLGLVH--PKKVFNFYNELHAYLASCGVDGVKVDVQNIIETLGAGHGGRVSL 223
V+DS V GL H P+++ + E H YL C K D A G+++
Sbjct: 264 VIDSPGVREFGLWHLEPEQITQGFVEFHDYLGLCKYRDCKHDTDPGCAIREAVEEGKIAE 323
Query: 224 TR--SYHQALEA----SIARNFPD 241
TR +YH+ LE+ +NF D
Sbjct: 324 TRFENYHRILESMAQVKTRKNFSD 347
>pdb|2I6E|A Chain A, Crystal Structure Of Protein Dr0370 From Deinococcus
Radiodurans, Pfam Duf178
pdb|2I6E|B Chain B, Crystal Structure Of Protein Dr0370 From Deinococcus
Radiodurans, Pfam Duf178
pdb|2I6E|C Chain C, Crystal Structure Of Protein Dr0370 From Deinococcus
Radiodurans, Pfam Duf178
pdb|2I6E|D Chain D, Crystal Structure Of Protein Dr0370 From Deinococcus
Radiodurans, Pfam Duf178
pdb|2I6E|E Chain E, Crystal Structure Of Protein Dr0370 From Deinococcus
Radiodurans, Pfam Duf178
pdb|2I6E|F Chain F, Crystal Structure Of Protein Dr0370 From Deinococcus
Radiodurans, Pfam Duf178
pdb|2I6E|G Chain G, Crystal Structure Of Protein Dr0370 From Deinococcus
Radiodurans, Pfam Duf178
pdb|2I6E|H Chain H, Crystal Structure Of Protein Dr0370 From Deinococcus
Radiodurans, Pfam Duf178
Length = 301
Score = 32.7 bits (73), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 46/106 (43%), Gaps = 9/106 (8%)
Query: 394 AGWCKITKKTRIHD--ESPGTLTASVRVTDVENMAQIAGAG--WNGDAIVYAHRSGEVVR 449
AGW T I D E P +TA V N A ++G N A+ + + +
Sbjct: 19 AGWIHFTNVAPILDSLELPPGVTAITGVPTQXNAALLSGEVDIANVSAVEFIRHADTLAA 78
Query: 450 LPKGASVPVTLKVLEYELFHFCPLKEIS----SNISFAAIGLLDMF 491
LP SV V V LFH CPL E+ ++ S ++ LL++
Sbjct: 79 LPD-FSVAVLGPVYSVNLFHTCPLPELRRVALTSQSAXSVALLEVL 123
>pdb|2RCN|A Chain A, Crystal Structure Of The Ribosomal Interacting Gtpase Yjeq
From The Enterobacterial Species Salmonella Typhimurium
Length = 358
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 37/84 (44%), Gaps = 8/84 (9%)
Query: 166 VMDSLAVHGLGLVH--PKKVFNFYNELHAYLASCGVDGVKVDVQNIIETLGAGHGGRVSL 223
V+DS V GL H P+++ + E H YL C K D A G ++
Sbjct: 272 VIDSPGVREFGLWHLEPEQITQGFVEFHDYLGHCKYRDCKHDADPGCAIREAVENGAIAE 331
Query: 224 TR--SYHQALEA----SIARNFPD 241
TR +YH+ LE+ +NF D
Sbjct: 332 TRFENYHRILESMAQVKTRKNFSD 355
>pdb|2OQC|A Chain A, Crystal Structure Of Penicillin V Acylase From Bacillus
Subtilis
pdb|2OQC|B Chain B, Crystal Structure Of Penicillin V Acylase From Bacillus
Subtilis
Length = 327
Score = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 7/49 (14%)
Query: 135 VKPAADGMEHYDTALAYPVTSPGVMGNQPDIVMDSLAVHGLGLVHPKKV 183
++P ADG++ YD PGVM N PD + + + PK++
Sbjct: 154 IEPRADGLKVYDN-------QPGVMTNSPDFIWHVTNLQQYTGIRPKQL 195
>pdb|3ZTH|A Chain A, Crystal Structure Of Stu0660 Of Streptococcus Thermophilus
pdb|3ZTH|B Chain B, Crystal Structure Of Stu0660 Of Streptococcus Thermophilus
Length = 350
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 28/55 (50%), Gaps = 7/55 (12%)
Query: 115 QNHNVKYVYVWHALAGYWGGVKPAADGMEHYDTALAYPVTSPGVMGNQPDIVMDS 169
QN+ +KY Y W L+ Y+GG K +++ + +D P ++ +IV S
Sbjct: 26 QNNELKY-YTWQILSWYFGGKKYSSEDLSIFDYE------EPTILDEAREIVKRS 73
>pdb|1ZY9|A Chain A, Crystal Structure Of Alpha-Galactosidase (Ec 3.2.1.22)
(Melibiase) (Tm1192) From Thermotoga Maritima At 2.34 A
Resolution
Length = 564
Score = 30.4 bits (67), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 4/43 (9%)
Query: 20 GWCTWDAFYTDVTAEGVDEGLKSLS-AGGTPPKFLIIDDGWQQ 61
GWC+W ++ D+T E E LK+L A P + IDD +++
Sbjct: 198 GWCSWYHYFLDLTWE---ETLKNLKLAKNFPFEVFQIDDAYEK 237
>pdb|3ZGQ|A Chain A, Crystal Structure Of Human Interferon-induced Protein
Ifit5
pdb|4HOR|A Chain A, Crystal Structure Of Full-length Human Ifit5 With
5`-triphosphate Oligocytidine
pdb|4HOS|A Chain A, Crystal Structure Of Full-length Human Ifit5 With
5`-triphosphate Oligouridine
pdb|4HOT|A Chain A, Crystal Structure Of Full-length Human Ifit5 With
5`-triphosphate Oligoadenine
pdb|4J0U|A Chain A, Crystal Structure Of Ifit5/isg58
Length = 482
Score = 30.4 bits (67), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 23/51 (45%)
Query: 451 PKGASVPVTLKVLEYELFHFCPLKEISSNISFAAIGLLDMFNSGGAVENVE 501
PKG +++ +FHF E S +FA L +M+ GG N E
Sbjct: 308 PKGKDKLKVDELISSAIFHFKAAMERDSMFAFAYTDLANMYAEGGQYSNAE 358
>pdb|4A2I|V Chain V, Cryo-Electron Microscopy Structure Of The 30s Subunit In
Complex With The Yjeq Biogenesis Factor
Length = 277
Score = 30.4 bits (67), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 33/72 (45%), Gaps = 4/72 (5%)
Query: 166 VMDSLAVHGLGLVH--PKKVFNFYNELHAYLASCGVDGVKVDVQNIIETLGAGHGGRVSL 223
V+DS V GL H P+++ + E H YL C K D A G ++
Sbjct: 204 VIDSPGVREFGLWHLEPEQITQGFVEFHDYLGHCKYRDCKHDADPGCAIREAVENGAIAE 263
Query: 224 TR--SYHQALEA 233
TR +YH+ LE+
Sbjct: 264 TRFENYHRILES 275
>pdb|3BE7|A Chain A, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase
pdb|3BE7|B Chain B, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase
pdb|3BE7|C Chain C, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase
pdb|3BE7|D Chain D, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase
pdb|3BE7|E Chain E, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase
pdb|3BE7|F Chain F, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase
pdb|3BE7|G Chain G, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase
pdb|3BE7|H Chain H, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase
Length = 408
Score = 29.3 bits (64), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 106 LKHVVDESKQNHNVKYVYVWHALAGYWGGVKPAADGMEH 144
+K +VDE+ NH +K H L G +K D +EH
Sbjct: 208 MKAIVDEA-HNHGMKVAAHAHGLIGIKAAIKAGVDSVEH 245
>pdb|4GLR|H Chain H, Structure Of The Anti-ptau Fab (pt231/ps235_1) In Complex
With Phosphoepitope Pt231/ps235
pdb|4GLR|J Chain J, Structure Of The Anti-ptau Fab (pt231/ps235_1) In Complex
With Phosphoepitope Pt231/ps235
Length = 229
Score = 29.3 bits (64), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 25/60 (41%), Gaps = 4/60 (6%)
Query: 239 FPDNGCISCMCHNTDGIYSSKQTAVIRASDDYYPRDPASHTIHISSVAYNTLFLGEFMQP 298
FP+ GCI H T+ I SS T +P P+S + + A L F +P
Sbjct: 108 FPEAGCIDAWGHGTEVIVSSAST----KGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEP 163
>pdb|3DUG|A Chain A, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase Complexed With Zinc
pdb|3DUG|B Chain B, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase Complexed With Zinc
pdb|3DUG|C Chain C, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase Complexed With Zinc
pdb|3DUG|D Chain D, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase Complexed With Zinc
pdb|3DUG|E Chain E, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase Complexed With Zinc
pdb|3DUG|F Chain F, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase Complexed With Zinc
pdb|3DUG|G Chain G, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase Complexed With Zinc
pdb|3DUG|H Chain H, Crystal Structure Of Zn-Dependent Arginine
Carboxypeptidase Complexed With Zinc
Length = 408
Score = 28.9 bits (63), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 106 LKHVVDESKQNHNVKYVYVWHALAGYWGGVKPAADGMEH 144
+K +VDE+ NH +K H L G +K D +EH
Sbjct: 208 MKAIVDEA-HNHGMKVAAHAHGLIGIKAAIKAGVDSVEH 245
>pdb|4DKJ|A Chain A, Cpg Specific Methyltransferase In Complex With Target Dna
Length = 403
Score = 28.9 bits (63), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 36/70 (51%)
Query: 34 EGVDEGLKSLSAGGTPPKFLIIDDGWQQIENKPKEESNCIVQEGAQFASRLTGIKENSKF 93
E + E +K+ + PK+L++++ + +K K+ N +++ +F + NSK
Sbjct: 162 ERILEEIKNSFSKEEMPKYLLMENVKNLLSHKNKKNYNTWLKQLEKFGYKSKTYLLNSKN 221
Query: 94 QKKCQNSEQV 103
CQN E+V
Sbjct: 222 FDNCQNRERV 231
>pdb|2BWN|A Chain A, 5-Aminolevulinate Synthase From Rhodobacter Capsulatus
pdb|2BWN|B Chain B, 5-Aminolevulinate Synthase From Rhodobacter Capsulatus
pdb|2BWN|D Chain D, 5-Aminolevulinate Synthase From Rhodobacter Capsulatus
pdb|2BWN|E Chain E, 5-Aminolevulinate Synthase From Rhodobacter Capsulatus
pdb|2BWO|A Chain A, 5-Aminolevulinate Synthase From Rhodobacter Capsulatus In
Complex With Succinyl-Coa
Length = 401
Score = 28.9 bits (63), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 15/29 (51%), Positives = 20/29 (68%), Gaps = 2/29 (6%)
Query: 210 IETLGAGHGG--RVSLTRSYHQALEASIA 236
+E +GAG GG +S T +YH+ LEA IA
Sbjct: 73 LEAVGAGSGGTRNISGTTAYHRRLEAEIA 101
>pdb|2BWO|B Chain B, 5-Aminolevulinate Synthase From Rhodobacter Capsulatus In
Complex With Succinyl-Coa
pdb|2BWO|D Chain D, 5-Aminolevulinate Synthase From Rhodobacter Capsulatus In
Complex With Succinyl-Coa
pdb|2BWO|E Chain E, 5-Aminolevulinate Synthase From Rhodobacter Capsulatus In
Complex With Succinyl-Coa
pdb|2BWP|A Chain A, 5-Aminolevulinate Synthase From Rhodobacter Capsulatus In
Complex With Glycine
pdb|2BWP|B Chain B, 5-Aminolevulinate Synthase From Rhodobacter Capsulatus In
Complex With Glycine
pdb|2BWP|D Chain D, 5-Aminolevulinate Synthase From Rhodobacter Capsulatus In
Complex With Glycine
pdb|2BWP|E Chain E, 5-Aminolevulinate Synthase From Rhodobacter Capsulatus In
Complex With Glycine
Length = 401
Score = 28.9 bits (63), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 15/29 (51%), Positives = 20/29 (68%), Gaps = 2/29 (6%)
Query: 210 IETLGAGHGG--RVSLTRSYHQALEASIA 236
+E +GAG GG +S T +YH+ LEA IA
Sbjct: 73 LEAVGAGSGGTRNISGTTAYHRRLEAEIA 101
>pdb|3A21|A Chain A, Crystal Structure Of Streptomyces Avermitilis Beta-L-
Arabinopyranosidase
pdb|3A21|B Chain B, Crystal Structure Of Streptomyces Avermitilis Beta-L-
Arabinopyranosidase
pdb|3A22|A Chain A, Crystal Structure Of Beta-L-Arabinopyranosidase
Complexed With L- Arabinose
pdb|3A22|B Chain B, Crystal Structure Of Beta-L-Arabinopyranosidase
Complexed With L- Arabinose
pdb|3A23|A Chain A, Crystal Structure Of Beta-l-arabinopyranosidase
Complexed With D- Galactose
pdb|3A23|B Chain B, Crystal Structure Of Beta-l-arabinopyranosidase
Complexed With D- Galactose
Length = 614
Score = 28.5 bits (62), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 15/72 (20%), Positives = 34/72 (47%), Gaps = 6/72 (8%)
Query: 19 FGWCTWDAFYTDVTAEGVDEGLKSLSAGGTPP---KFLIIDDGWQQIENKPKEESNCIVQ 75
GW +W++F + + + + + A G P ++ ID+GW Q ++ + I
Sbjct: 14 MGWASWNSFAAKIDYSVIKKQVDAFVAAGLPAAGYTYINIDEGWWQ---GTRDSAGNITV 70
Query: 76 EGAQFASRLTGI 87
+ A++ ++ I
Sbjct: 71 DTAEWPGGMSAI 82
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
0.318 0.134 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,861,154
Number of Sequences: 62578
Number of extensions: 812473
Number of successful extensions: 1855
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 1849
Number of HSP's gapped (non-prelim): 18
length of query: 593
length of database: 14,973,337
effective HSP length: 104
effective length of query: 489
effective length of database: 8,465,225
effective search space: 4139495025
effective search space used: 4139495025
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)