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= 017506
(370 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1K1D|A Chain A, Crystal Structure Of D-Hydantoinase
pdb|1K1D|B Chain B, Crystal Structure Of D-Hydantoinase
pdb|1K1D|C Chain C, Crystal Structure Of D-Hydantoinase
pdb|1K1D|D Chain D, Crystal Structure Of D-Hydantoinase
pdb|1K1D|E Chain E, Crystal Structure Of D-Hydantoinase
pdb|1K1D|F Chain F, Crystal Structure Of D-Hydantoinase
pdb|1K1D|G Chain G, Crystal Structure Of D-Hydantoinase
pdb|1K1D|H Chain H, Crystal Structure Of D-Hydantoinase
Length = 460
Score = 32.7 bits (73), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 35/150 (23%), Positives = 59/150 (39%), Gaps = 27/150 (18%)
Query: 128 VLHA-CYTKVSPSAEVENPQLVAWSESVADSLELDPKEFERPDFPLFFSGATPLAGAVPY 186
V+H C V AE N L W E+ L LD E+P+F + P
Sbjct: 237 VVHVTCAQAVEKIAEARNKGLDVWGETCPQYLVLDQSYLEKPNFE-----GAKYVWSPPL 291
Query: 187 AQCYGGHQFGMWAGQLGDGRAITLGEILNLKSERWELQLKGA---GKTPYSRFADGLAVL 243
+ + HQ +W A+ G++ L S++ KG G+ +++ +G ++
Sbjct: 292 REKW--HQEVLW-------NALKNGQLQTLGSDQCSFDFKGQKELGRGDFTKIPNGGPII 342
Query: 244 RSSIREFLCSEAM--------HFLGIPTTR 265
+ L SE + F+ I +TR
Sbjct: 343 EDRV-SILFSEGVKKGRITLNQFVDIVSTR 371
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 24/55 (43%), Gaps = 3/55 (5%)
Query: 218 SERWELQLKGAGKTPYSRFADGLAVL---RSSIREFLCSEAMHFLGIPTTRALCL 269
S+ WEL L +TP DGL ++ RS E +C + L T CL
Sbjct: 20 SKTWELSLYELQRTPQEAITDGLEIVVSPRSLHSELMCPICLDMLKNTMTTKECL 74
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 28.9 bits (63), Expect = 5.0, Method: Composition-based stats.
Identities = 18/55 (32%), Positives = 24/55 (43%), Gaps = 3/55 (5%)
Query: 218 SERWELQLKGAGKTPYSRFADGLAVL---RSSIREFLCSEAMHFLGIPTTRALCL 269
S+ WEL L +TP DGL ++ RS E +C + L T CL
Sbjct: 19 SKTWELSLYELQRTPQEAITDGLEIVVSPRSLHSELMCPICLDMLKNTMTTKECL 73
>pdb|2PX2|A Chain A, Crystal Structure Of The Murray Valley Encephalitis Virus
Ns5 2'-O Methyltransferase Domain In Complex With Sah
(Monoclinic Form 1)
pdb|2PX2|B Chain B, Crystal Structure Of The Murray Valley Encephalitis Virus
Ns5 2'-O Methyltransferase Domain In Complex With Sah
(Monoclinic Form 1)
pdb|2PX4|A Chain A, Crystal Structure Of The Murray Valley Encephalitis Virus
Ns5 2'-O Methyltransferase Domain In Complex With Sah
(Monoclinic Form 2)
pdb|2PX5|A Chain A, Crystal Structure Of The Murray Valley Encephalitis Virus
Ns5 2'-O Methyltransferase Domain In Complex With Sah
(Orthorhombic Crystal Form)
pdb|2PX5|B Chain B, Crystal Structure Of The Murray Valley Encephalitis Virus
Ns5 2'-O Methyltransferase Domain In Complex With Sah
(Orthorhombic Crystal Form)
pdb|2PXA|A Chain A, Crystal Structure Of The Murray Valley Encephalitis Virus
Ns5 2'-o Methyltransferase Domain In Complex With Sah
And Gtpg
pdb|2PXA|B Chain B, Crystal Structure Of The Murray Valley Encephalitis Virus
Ns5 2'-o Methyltransferase Domain In Complex With Sah
And Gtpg
pdb|2PXC|A Chain A, Crystal Structure Of The Murray Valley Encephalitis Virus
Ns5 2'-o Methyltransferase Domain In Complex With Sam
And Gtpa
Length = 269
Score = 28.1 bits (61), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 18/29 (62%)
Query: 137 SPSAEVENPQLVAWSESVADSLELDPKEF 165
SPSAE+E + + E V+D L PKEF
Sbjct: 151 SPSAEIEEQRTLRILEMVSDWLSRGPKEF 179
>pdb|2PX8|A Chain A, Crystal Structure Of The Murray Valley Encephalitis Virus
Ns5 2'-O Methyltransferase Domain In Complex With Sah
And 7m-Gtp
pdb|2PX8|B Chain B, Crystal Structure Of The Murray Valley Encephalitis Virus
Ns5 2'-O Methyltransferase Domain In Complex With Sah
And 7m-Gtp
Length = 269
Score = 28.1 bits (61), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 18/29 (62%)
Query: 137 SPSAEVENPQLVAWSESVADSLELDPKEF 165
SPSAE+E + + E V+D L PKEF
Sbjct: 151 SPSAEIEEQRTLRILEMVSDWLSRGPKEF 179
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 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,501,352
Number of Sequences: 62578
Number of extensions: 487246
Number of successful extensions: 1166
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1162
Number of HSP's gapped (non-prelim): 6
length of query: 370
length of database: 14,973,337
effective HSP length: 100
effective length of query: 270
effective length of database: 8,715,537
effective search space: 2353194990
effective search space used: 2353194990
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: 52 (24.6 bits)