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= 048518
(259 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3EUL|A Chain A, Structure Of The Signal Receiver Domain Of The Putative
Response Regulator Narl From Mycobacterium Tuberculosis
pdb|3EUL|B Chain B, Structure Of The Signal Receiver Domain Of The Putative
Response Regulator Narl From Mycobacterium Tuberculosis
pdb|3EUL|C Chain C, Structure Of The Signal Receiver Domain Of The Putative
Response Regulator Narl From Mycobacterium Tuberculosis
pdb|3EUL|D Chain D, Structure Of The Signal Receiver Domain Of The Putative
Response Regulator Narl From Mycobacterium Tuberculosis
Length = 152
Score = 32.7 bits (73), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 27/51 (52%), Gaps = 3/51 (5%)
Query: 6 PEKVSLLLGNDGTKMLLKRTEDLRLYSLTGVQNVVHELDDGEGFPRLQHLH 56
PEKV +++G+D L R +R SL+G NVV E DDG L H
Sbjct: 13 PEKVRVVVGDDHP---LFREGVVRALSLSGSVNVVGEADDGAAALELIKAH 60
>pdb|3L0E|A Chain A, X-Ray Crystal Structure Of A Potent Liver X Receptor
Modulator
Length = 253
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 28/122 (22%), Positives = 55/122 (45%), Gaps = 22/122 (18%)
Query: 88 NLTNLETICYSQLREDQSFSNLRIIYVYSCPKLKYLFSFSMAKNLLGLQKVEVVNCNKLK 147
++T L+ YS ++D + L++ ++ +F FS A + LGL E +
Sbjct: 118 SITFLKDFTYS--KDDFHRAGLQVEFINP------IFEFSRAMSSLGLDDAEYALLIAIN 169
Query: 148 MMIG--PDMEKPTTTQG-----------FTEINAEDDQVTFPRLEELELVSLTNIKKLWP 194
+ P++++P + +T I DQ+ FPR+ ++LVSL + +
Sbjct: 170 IFSADRPNVQEPGRVEALQQPYVEALLSYTRIKRPQDQLRFPRM-LMKLVSLRTLSSVHS 228
Query: 195 DQ 196
+Q
Sbjct: 229 EQ 230
>pdb|1PQ6|A Chain A, Human Lxr Beta Hormone Receptor / Gw3965 Complex
pdb|1PQ6|B Chain B, Human Lxr Beta Hormone Receptor / Gw3965 Complex
pdb|1PQ6|C Chain C, Human Lxr Beta Hormone Receptor / Gw3965 Complex
pdb|1PQ6|D Chain D, Human Lxr Beta Hormone Receptor / Gw3965 Complex
pdb|1PQ9|A Chain A, Human Lxr Beta Hormone Receptor Complexed With T0901317
Complex
pdb|1PQ9|B Chain B, Human Lxr Beta Hormone Receptor Complexed With T0901317
Complex
pdb|1PQ9|C Chain C, Human Lxr Beta Hormone Receptor Complexed With T0901317
Complex
pdb|1PQ9|D Chain D, Human Lxr Beta Hormone Receptor Complexed With T0901317
Complex
pdb|1PQC|A Chain A, Human Lxr Beta Hormone Receptor Complexed With T0901317
pdb|1PQC|B Chain B, Human Lxr Beta Hormone Receptor Complexed With T0901317
pdb|1PQC|C Chain C, Human Lxr Beta Hormone Receptor Complexed With T0901317
pdb|1PQC|D Chain D, Human Lxr Beta Hormone Receptor Complexed With T0901317
pdb|3KFC|A Chain A, Complex Structure Of Lxr With An Agonist
pdb|3KFC|B Chain B, Complex Structure Of Lxr With An Agonist
pdb|3KFC|C Chain C, Complex Structure Of Lxr With An Agonist
pdb|3KFC|D Chain D, Complex Structure Of Lxr With An Agonist
Length = 253
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 38/87 (43%), Gaps = 14/87 (16%)
Query: 123 LFSFSMAKNLLGLQKVEVVNCNKLKMMIG--PDMEKPTTTQG-----------FTEINAE 169
+F FS A LGL E + + P++++P + +T I
Sbjct: 145 IFEFSRAMRRLGLDDAEYALLIAINIFSADRPNVQEPGRVEALQQPYVEALLSYTRIKRP 204
Query: 170 DDQVTFPRLEELELVSLTNIKKLWPDQ 196
DQ+ FPR+ ++LVSL + + +Q
Sbjct: 205 QDQLRFPRM-LMKLVSLRTLSSVHSEQ 230
>pdb|1UPV|A Chain A, Crystal Structure Of The Human Liver X Receptor Beta
Ligand Binding Domain In Complex With A Synthetic
Agonist
pdb|1UPW|A Chain A, Crystal Structure Of The Human Liver X Receptor Beta
Ligand Binding Domain In Complex With A Synthetic
Agonist
Length = 257
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 38/87 (43%), Gaps = 14/87 (16%)
Query: 123 LFSFSMAKNLLGLQKVEVVNCNKLKMMIG--PDMEKPTTTQG-----------FTEINAE 169
+F FS A LGL E + + P++++P + +T I
Sbjct: 149 IFEFSRAMRRLGLDDAEYALLIAINIFSADRPNVQEPGRVEALQQPYVEALLSYTRIKRP 208
Query: 170 DDQVTFPRLEELELVSLTNIKKLWPDQ 196
DQ+ FPR+ ++LVSL + + +Q
Sbjct: 209 QDQLRFPRM-LMKLVSLRTLSSVHSEQ 234
>pdb|4DK8|A Chain A, Crystal Structure Of Lxr Ligand Binding Domain In Complex
With Partial Agonist 5
pdb|4DK8|C Chain C, Crystal Structure Of Lxr Ligand Binding Domain In Complex
With Partial Agonist 5
Length = 247
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 38/87 (43%), Gaps = 14/87 (16%)
Query: 123 LFSFSMAKNLLGLQKVEVVNCNKLKMMIG--PDMEKPTTTQG-----------FTEINAE 169
+F FS A LGL E + + P++++P + +T I
Sbjct: 139 IFEFSRAMRRLGLDDAEYALLIAINIFSADRPNVQEPGRVEALQQPYVEALLSYTRIKRP 198
Query: 170 DDQVTFPRLEELELVSLTNIKKLWPDQ 196
DQ+ FPR+ ++LVSL + + +Q
Sbjct: 199 QDQLRFPRM-LMKLVSLRTLSSVHSEQ 224
>pdb|1P8D|A Chain A, X-Ray Crystal Structure Of Lxr Ligand Binding Domain With
24(S),25- Epoxycholesterol
pdb|1P8D|B Chain B, X-Ray Crystal Structure Of Lxr Ligand Binding Domain With
24(S),25- Epoxycholesterol
Length = 250
Score = 28.1 bits (61), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 38/87 (43%), Gaps = 14/87 (16%)
Query: 123 LFSFSMAKNLLGLQKVEVVNCNKLKMMIG--PDMEKPTTTQG-----------FTEINAE 169
+F FS A LGL E + + P++++P + +T I
Sbjct: 142 IFEFSRAMRRLGLDDAEYALLIAINIFSADRPNVQEPGRVEALQQPYVEALLSYTRIKRP 201
Query: 170 DDQVTFPRLEELELVSLTNIKKLWPDQ 196
DQ+ FPR+ ++LVSL + + +Q
Sbjct: 202 QDQLRFPRM-LMKLVSLRTLSSVHSEQ 227
>pdb|3VBF|C Chain C, Crystal Structure Of Formaldehyde Treated Human
Enterovirus 71 (Space Group I23)
pdb|3VBH|C Chain C, Crystal Structure Of Formaldehyde Treated Human
Enterovirus 71 (Space Group R32)
pdb|3VBS|C Chain C, Crystal Structure Of Human Enterovirus 71
Length = 242
Score = 27.7 bits (60), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 22/41 (53%), Gaps = 5/41 (12%)
Query: 44 DDGEGFPRLQHLHVTGCSEILHIVGSVRRV--RCEVFPLLE 82
DDG P L + H T C +HI G VR + C+V +LE
Sbjct: 17 DDGVSAPILPNFHPTPC---IHIPGEVRNLLELCQVETILE 54
>pdb|3VBO|C Chain C, Crystal Structure Of Formaldehyde Treated Empty Human
Enterovirus 71 Particle (Cryo At 100k)
pdb|3VBR|C Chain C, Crystal Structure Of Formaldehyde Treated Empty Human
Enterovirus 71 Particle (Room Temperature)
pdb|3VBU|C Chain C, Crystal Structure Of Empty Human Enterovirus 71 Particle
Length = 239
Score = 27.7 bits (60), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 22/41 (53%), Gaps = 5/41 (12%)
Query: 44 DDGEGFPRLQHLHVTGCSEILHIVGSVRRV--RCEVFPLLE 82
DDG P L + H T C +HI G VR + C+V +LE
Sbjct: 17 DDGVSAPILPNFHPTPC---IHIPGEVRNLLELCQVETILE 54
>pdb|4AED|C Chain C, Crystal Structure Of Human Enterovirus 71
Length = 242
Score = 27.7 bits (60), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 22/41 (53%), Gaps = 5/41 (12%)
Query: 44 DDGEGFPRLQHLHVTGCSEILHIVGSVRRV--RCEVFPLLE 82
DDG P L + H T C +HI G VR + C+V +LE
Sbjct: 17 DDGVSAPILPNFHPTPC---IHIPGEVRNLLELCQVETILE 54
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
0.322 0.138 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,341,285
Number of Sequences: 62578
Number of extensions: 283792
Number of successful extensions: 536
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 536
Number of HSP's gapped (non-prelim): 11
length of query: 259
length of database: 14,973,337
effective HSP length: 97
effective length of query: 162
effective length of database: 8,903,271
effective search space: 1442329902
effective search space used: 1442329902
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.9 bits)