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= 004090
(774 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 = 0.52, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 35/65 (53%), Gaps = 6/65 (9%)
Query: 200 FGWCTWDAFYTDVTAEGVDEGLKSLSAGGTPP---KFLIIDDGWQQIENKPKEESNCIVQ 256
GW TW+ + +V + + + K++++ G ++IIDD WQ+ E +E S ++
Sbjct: 11 MGWNTWNKYGCNVDEQLILDAAKAIASSGLKDLGYNYVIIDDCWQKNE---RESSKTLLA 67
Query: 257 EGAQF 261
+ +F
Sbjct: 68 DPTKF 72
>pdb|2YKR|W Chain W, 30s Ribosomal Subunit With Rsga Bound In The Presence Of
Gmppnp
Length = 350
Score = 33.1 bits (74), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 38/84 (45%), Gaps = 8/84 (9%)
Query: 347 VMDSLAVHGLGLVH--PKKVFNFYNELHAYLASCGVDGVKVDVQNIIETLGAGHGGRVSL 404
V+DS V GL H P+++ + E H YL C K D A G+++
Sbjct: 264 VIDSPGVREFGLWHLEPEQITQGFVEFHDYLGLCKYRDCKHDTDPGCAIREAVEEGKIAE 323
Query: 405 TR--SYHQALEA----SIARNFPD 422
TR +YH+ LE+ +NF D
Sbjct: 324 TRFENYHRILESMAQVKTRKNFSD 347
>pdb|2RCN|A Chain A, Crystal Structure Of The Ribosomal Interacting Gtpase Yjeq
From The Enterobacterial Species Salmonella Typhimurium
Length = 358
Score = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 37/84 (44%), Gaps = 8/84 (9%)
Query: 347 VMDSLAVHGLGLVH--PKKVFNFYNELHAYLASCGVDGVKVDVQNIIETLGAGHGGRVSL 404
V+DS V GL H P+++ + E H YL C K D A G ++
Sbjct: 272 VIDSPGVREFGLWHLEPEQITQGFVEFHDYLGHCKYRDCKHDADPGCAIREAVENGAIAE 331
Query: 405 TR--SYHQALEA----SIARNFPD 422
TR +YH+ LE+ +NF D
Sbjct: 332 TRFENYHRILESMAQVKTRKNFSD 355
>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 = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 46/106 (43%), Gaps = 9/106 (8%)
Query: 575 AGWCKITKKTRIHD--ESPGTLTASVRVTDVENMAQIAGAG--WNGDAIVYAHRSGEVVR 630
AGW T I D E P +TA V N A ++G N A+ + + +
Sbjct: 19 AGWIHFTNVAPILDSLELPPGVTAITGVPTQXNAALLSGEVDIANVSAVEFIRHADTLAA 78
Query: 631 LPKGASVPVTLKVLEYELFHFCPLKEIS----SNISFAAIGLLDMF 672
LP SV V V LFH CPL E+ ++ S ++ LL++
Sbjct: 79 LPD-FSVAVLGPVYSVNLFHTCPLPELRRVALTSQSAXSVALLEVL 123
>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 = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 33/66 (50%), Gaps = 5/66 (7%)
Query: 178 VEKYMQTFTHREKKKLPSFLDWFGWCTWDAFYTDVTAEGVDEGLKSLS-AGGTPPKFLII 236
+EKY + ++P GWC+W ++ D+T E E LK+L A P + I
Sbjct: 176 LEKYAELVGXENNARVPKHTP-TGWCSWYHYFLDLTWE---ETLKNLKLAKNFPFEVFQI 231
Query: 237 DDGWQQ 242
DD +++
Sbjct: 232 DDAYEK 237
>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 = 2.8, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 7/49 (14%)
Query: 316 VKPAADGMEHYDTALAYPVTSPGVMGNQPDIVMDSLAVHGLGLVHPKKV 364
++P ADG++ YD PGVM N PD + + + PK++
Sbjct: 154 IEPRADGLKVYDN-------QPGVMTNSPDFIWHVTNLQQYTGIRPKQL 195
>pdb|4A2I|V Chain V, Cryo-Electron Microscopy Structure Of The 30s Subunit In
Complex With The Yjeq Biogenesis Factor
Length = 277
Score = 30.8 bits (68), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 33/72 (45%), Gaps = 4/72 (5%)
Query: 347 VMDSLAVHGLGLVH--PKKVFNFYNELHAYLASCGVDGVKVDVQNIIETLGAGHGGRVSL 404
V+DS V GL H P+++ + E H YL C K D A G ++
Sbjct: 204 VIDSPGVREFGLWHLEPEQITQGFVEFHDYLGHCKYRDCKHDADPGCAIREAVENGAIAE 263
Query: 405 TR--SYHQALEA 414
TR +YH+ LE+
Sbjct: 264 TRFENYHRILES 275
>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 = 30.8 bits (68), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 28/55 (50%), Gaps = 7/55 (12%)
Query: 296 QNHNVKYVYVWHALAGYWGGVKPAADGMEHYDTALAYPVTSPGVMGNQPDIVMDS 350
QN+ +KY Y W L+ Y+GG K +++ + +D P ++ +IV S
Sbjct: 26 QNNELKY-YTWQILSWYFGGKKYSSEDLSIFDYE------EPTILDEAREIVKRS 73
>pdb|3EIF|A Chain A, 1.9 Angstrom Crystal Structure Of The Active Form Of The
C5a Peptidase From Streptococcus Pyogenes (Scpa)
Length = 936
Score = 30.4 bits (67), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 23/92 (25%), Positives = 38/92 (41%), Gaps = 3/92 (3%)
Query: 135 ENNEIEICLESGDNAVETNQGLYLVYTHAGPNPFEVISQAVKAVEKYMQ---TFTHREKK 191
E++EI + +G A + + Y ++ HA P+ IS Y+Q TF K
Sbjct: 689 ESSEITETIFAGTFAKQDDDSHYYIHRHANGKPYAAISPNGDGNRDYVQFQGTFLRNAKN 748
Query: 192 KLPSFLDWFGWCTWDAFYTDVTAEGVDEGLKS 223
+ LD G W + T+ + + L S
Sbjct: 749 LVAEVLDKEGNVVWTSEVTEQVVKNYNNDLAS 780
>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 = 3.9, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 23/51 (45%)
Query: 632 PKGASVPVTLKVLEYELFHFCPLKEISSNISFAAIGLLDMFNSGGAVENVE 682
PKG +++ +FHF E S +FA L +M+ GG N E
Sbjct: 308 PKGKDKLKVDELISSAIFHFKAAMERDSMFAFAYTDLANMYAEGGQYSNAE 358
>pdb|1XF1|A Chain A, Structure Of C5a Peptidase- A Key Virulence Factor From
Streptococcus
pdb|1XF1|B Chain B, Structure Of C5a Peptidase- A Key Virulence Factor From
Streptococcus
Length = 926
Score = 30.0 bits (66), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 23/92 (25%), Positives = 38/92 (41%), Gaps = 3/92 (3%)
Query: 135 ENNEIEICLESGDNAVETNQGLYLVYTHAGPNPFEVISQAVKAVEKYMQ---TFTHREKK 191
E++EI + +G A + + Y ++ HA P+ IS Y+Q TF K
Sbjct: 680 ESSEITETIFAGTFAKQDDDSHYYIHRHANGKPYAAISPNGDGNRDYVQFQGTFLRNAKN 739
Query: 192 KLPSFLDWFGWCTWDAFYTDVTAEGVDEGLKS 223
+ LD G W + T+ + + L S
Sbjct: 740 LVAEVLDKEGNVVWTSEVTEQVVKNYNNDLAS 771
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 0.135 0.417
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 24,438,138
Number of Sequences: 62578
Number of extensions: 1067175
Number of successful extensions: 2441
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 2434
Number of HSP's gapped (non-prelim): 22
length of query: 774
length of database: 14,973,337
effective HSP length: 106
effective length of query: 668
effective length of database: 8,340,069
effective search space: 5571166092
effective search space used: 5571166092
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: 55 (25.8 bits)