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= psy8926
(263 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3L01|A Chain A, Crystal Structure Of Monomeric Glycogen Synthase From
Pyrococcus Abyssi
pdb|3L01|B Chain B, Crystal Structure Of Monomeric Glycogen Synthase From
Pyrococcus Abyssi
Length = 428
Score = 32.0 bits (71), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 2/51 (3%)
Query: 27 EEGHVGVYFRGGALLST--ISGPGFHAMIPFITTFRHVQVTLQTDEVKNVP 75
E G++ +Y GG LL + + GPG+ +I TF V L D ++ P
Sbjct: 71 ERGNLRIYRIGGGLLDSEDVYGPGWDGLIRKAVTFGRASVLLLNDLLREEP 121
>pdb|3FRO|A Chain A, Crystal Structure Of Pyrococcus Abyssi Glycogen Synthase
With Open And Closed Conformations
pdb|3FRO|B Chain B, Crystal Structure Of Pyrococcus Abyssi Glycogen Synthase
With Open And Closed Conformations
pdb|3FRO|C Chain C, Crystal Structure Of Pyrococcus Abyssi Glycogen Synthase
With Open And Closed Conformations
Length = 439
Score = 32.0 bits (71), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 2/51 (3%)
Query: 27 EEGHVGVYFRGGALLST--ISGPGFHAMIPFITTFRHVQVTLQTDEVKNVP 75
E G++ +Y GG LL + + GPG+ +I TF V L D ++ P
Sbjct: 71 ERGNLRIYRIGGGLLDSEDVYGPGWDGLIRKAVTFGRASVLLLNDLLREEP 121
>pdb|2BIS|A Chain A, Structure Of Glycogen Synthase From Pyrococcus Abyssi
pdb|2BIS|B Chain B, Structure Of Glycogen Synthase From Pyrococcus Abyssi
pdb|2BIS|C Chain C, Structure Of Glycogen Synthase From Pyrococcus Abyssi
Length = 440
Score = 32.0 bits (71), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 2/51 (3%)
Query: 27 EEGHVGVYFRGGALLST--ISGPGFHAMIPFITTFRHVQVTLQTDEVKNVP 75
E G++ +Y GG LL + + GPG+ +I TF V L D ++ P
Sbjct: 72 ERGNLRIYRIGGGLLDSEDVYGPGWDGLIRKAVTFGRASVLLLNDLLREEP 122
>pdb|1QVR|A Chain A, Crystal Structure Analysis Of Clpb
pdb|1QVR|B Chain B, Crystal Structure Analysis Of Clpb
pdb|1QVR|C Chain C, Crystal Structure Analysis Of Clpb
Length = 854
Score = 29.6 bits (65), Expect = 1.9, Method: Composition-based stats.
Identities = 28/108 (25%), Positives = 56/108 (51%), Gaps = 14/108 (12%)
Query: 138 IDLFDQIDENLKTALQRELNEMAP------GLFIQAVRVTKPKIPETIRKNYELMEAEKT 191
IDL D+ L+ AL+ E+ L I+ + K K P++ ++ + +EAE
Sbjct: 382 IDLIDEAAARLRMALESAPEEIDALERKKLQLEIEREALKKEKDPDS-QERLKAIEAEIA 440
Query: 192 KLLISIQHQKVVEKDAETERKRAVIEAEKEAQ--IAKIQYEQKVMEQE 237
KL +++ + AE ER+R ++ +EAQ + +++ E ++ E++
Sbjct: 441 KLT-----EEIAKLRAEWEREREILRKLREAQHRLDEVRREIELAERQ 483
>pdb|1O6U|A Chain A, The Crystal Structure Of Human Supernatant Protein Factor
pdb|1O6U|C Chain C, The Crystal Structure Of Human Supernatant Protein Factor
pdb|1O6U|E Chain E, The Crystal Structure Of Human Supernatant Protein Factor
Length = 403
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 28/61 (45%)
Query: 135 EVYIDLFDQIDENLKTALQRELNEMAPGLFIQAVRVTKPKIPETIRKNYELMEAEKTKLL 194
E Y + +EN L+R AP LF A + KP + E RK ++ A ++L
Sbjct: 169 EAYGEFLCXFEENYPETLKRLFVVKAPKLFPVAYNLIKPFLSEDTRKKIXVLGANWKEVL 228
Query: 195 I 195
+
Sbjct: 229 L 229
>pdb|3UP0|A Chain A, Nuclear Receptor Daf-12 From Hookworm Ancylostoma
Ceylanicum In Complex With (25s)-Delta7-Dafachronic Acid
pdb|3UP0|B Chain B, Nuclear Receptor Daf-12 From Hookworm Ancylostoma
Ceylanicum In Complex With (25s)-Delta7-Dafachronic Acid
pdb|3UP3|A Chain A, Nuclear Receptor Daf-12 From Hookworm Ancylostoma
Ceylanicum In Complex With (25s)-Cholestenoic Acid
Length = 243
Score = 28.1 bits (61), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 32/56 (57%), Gaps = 6/56 (10%)
Query: 121 HHELNQFCSIHN--LHEVYIDLFDQIDENLKTALQ--RELNEMAPGLFIQAVRVTK 172
HHE QF ++ N L +Y D Q++E L TAL+ RE++ + LF+ V ++
Sbjct: 178 HHE--QFSALLNRYLESLYGDDAHQLNEQLPTALRMLREISASSGMLFLGTVNTSE 231
>pdb|1OLM|A Chain A, Supernatant Protein Factor In Complex With
Rrr-Alpha-Tocopherylquinone: A Link Between Oxidized
Vitamin E And Cholesterol Biosynthesis
pdb|1OLM|C Chain C, Supernatant Protein Factor In Complex With
Rrr-Alpha-Tocopherylquinone: A Link Between Oxidized
Vitamin E And Cholesterol Biosynthesis
Length = 403
Score = 28.1 bits (61), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 28/61 (45%)
Query: 135 EVYIDLFDQIDENLKTALQRELNEMAPGLFIQAVRVTKPKIPETIRKNYELMEAEKTKLL 194
E Y + +EN L+R AP LF A + KP + E RK ++ A ++L
Sbjct: 169 EAYGEFLCMFEENYPETLKRLFVVKAPKLFPVAYNLIKPFLSEDTRKKIMVLGANWKEVL 228
Query: 195 I 195
+
Sbjct: 229 L 229
>pdb|1OLM|E Chain E, Supernatant Protein Factor In Complex With
Rrr-Alpha-Tocopherylquinone: A Link Between Oxidized
Vitamin E And Cholesterol Biosynthesis
Length = 403
Score = 28.1 bits (61), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 28/61 (45%)
Query: 135 EVYIDLFDQIDENLKTALQRELNEMAPGLFIQAVRVTKPKIPETIRKNYELMEAEKTKLL 194
E Y + +EN L+R AP LF A + KP + E RK ++ A ++L
Sbjct: 169 EAYGEFLCMFEENYPETLKRLFVVKAPKLFPVAYNLIKPFLSEDTRKKIMVLGANWKEVL 228
Query: 195 I 195
+
Sbjct: 229 L 229
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
0.321 0.136 0.379
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,168,822
Number of Sequences: 62578
Number of extensions: 276096
Number of successful extensions: 850
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 844
Number of HSP's gapped (non-prelim): 20
length of query: 263
length of database: 14,973,337
effective HSP length: 97
effective length of query: 166
effective length of database: 8,903,271
effective search space: 1477942986
effective search space used: 1477942986
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)