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= psy5991
(223 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3ZRH|A Chain A, Crystal Structure Of The Lys29, Lys33-Linkage-Specific
Trabid Otu Deubiquitinase Domain Reveals An
Ankyrin-Repeat Ubiquitin Binding Domain (Ankubd)
Length = 454
Score = 228 bits (581), Expect = 2e-60, Method: Compositional matrix adjust.
Identities = 114/214 (53%), Positives = 149/214 (69%), Gaps = 40/214 (18%)
Query: 26 FVCFF----------SEIENLPPSIQEQLFDELLDKEAQQQLEAEPHPVINWSHELLDKE 75
F C+F ++IE+LPP++QE+LFDE+LD++ Q++LE E
Sbjct: 127 FACYFLTDLVTFTLPADIEDLPPTVQEKLFDEVLDRDVQKELEEES-------------- 172
Query: 76 AQQQLEAEPHPVINWSHEVT----AHLYALWNRSAGDCLLDSLMQATWGVFDRENVLRRA 131
P+INWS E+ + LYALWNR+AGDCLLDS++QATWG++D+++VLR+A
Sbjct: 173 ----------PIINWSLELATRLDSRLYALWNRTAGDCLLDSVLQATWGIYDKDSVLRKA 222
Query: 132 LADSLAQASHLFYPRWKEYEDMHASL--LHFSLDESQWEEDWASLVSLASQPGAALEQLH 189
L DSL SH FY RWK++E ++ LHFSL E QW+EDWA ++SLASQPGA+LEQ H
Sbjct: 223 LHDSLHDCSHWFYTRWKDWESWYSQSFGLHFSLREEQWQEDWAFILSLASQPGASLEQTH 282
Query: 190 VFALAHILRRPIIVYGVKYVKSFRGEDIGYARFE 223
+F LAHILRRPIIVYGVKY KSFRGE +GY RF+
Sbjct: 283 IFVLAHILRRPIIVYGVKYYKSFRGETLGYTRFQ 316
>pdb|2VFJ|A Chain A, Structure Of The A20 Ovarian Tumour (Otu) Domain
pdb|2VFJ|B Chain B, Structure Of The A20 Ovarian Tumour (Otu) Domain
pdb|2VFJ|C Chain C, Structure Of The A20 Ovarian Tumour (Otu) Domain
pdb|2VFJ|D Chain D, Structure Of The A20 Ovarian Tumour (Otu) Domain
Length = 366
Score = 80.1 bits (196), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 55/157 (35%), Positives = 82/157 (52%), Gaps = 21/157 (13%)
Query: 71 LLDKEAQQQLEAEPHPVINWSHEVTAHLYALWNRSAGDCLLDSLMQATWGVFDRENVLRR 130
L+D+ Q LE++ +NW EV L AL G+CL+ + Q WGV D + VLR+
Sbjct: 68 LIDRNIQATLESQKK--LNWCREVRK-LVALKTNGDGNCLMHATSQYMWGVQDTDLVLRK 124
Query: 131 ALADSLAQA-SHLFYPRW-----KEYEDMHASLLHFSLDESQWEEDWASLVSLASQ--PG 182
AL +L + + F RW K E + L + D W ++W +L+ +AS P
Sbjct: 125 ALFSTLKETDTRNFKFRWQLESLKSQEFVETGLCY---DTRNWNDEWDNLIKMASTDTPM 181
Query: 183 A-------ALEQLHVFALAHILRRPIIVYGVKYVKSF 212
A +LE++H+F L +ILRRPIIV K ++S
Sbjct: 182 ARSGLQYNSLEEIHIFVLCNILRRPIIVISDKMLRSL 218
>pdb|3DKB|A Chain A, Crystal Structure Of A20, 2.5 Angstrom
pdb|3DKB|B Chain B, Crystal Structure Of A20, 2.5 Angstrom
pdb|3DKB|C Chain C, Crystal Structure Of A20, 2.5 Angstrom
pdb|3DKB|D Chain D, Crystal Structure Of A20, 2.5 Angstrom
pdb|3DKB|E Chain E, Crystal Structure Of A20, 2.5 Angstrom
pdb|3DKB|F Chain F, Crystal Structure Of A20, 2.5 Angstrom
Length = 390
Score = 79.7 bits (195), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 55/157 (35%), Positives = 82/157 (52%), Gaps = 21/157 (13%)
Query: 71 LLDKEAQQQLEAEPHPVINWSHEVTAHLYALWNRSAGDCLLDSLMQATWGVFDRENVLRR 130
L+D+ Q LE++ +NW EV L AL G+CL+ + Q WGV D + VLR+
Sbjct: 88 LIDRNIQATLESQKK--LNWCREVRK-LVALKTNGDGNCLMHATSQYMWGVQDTDLVLRK 144
Query: 131 ALADSLAQA-SHLFYPRW-----KEYEDMHASLLHFSLDESQWEEDWASLVSLASQ--PG 182
AL +L + + F RW K E + L + D W ++W +L+ +AS P
Sbjct: 145 ALFSTLKETDTRNFKFRWQLESLKSQEFVETGLCY---DTRNWNDEWDNLIKMASTDTPM 201
Query: 183 A-------ALEQLHVFALAHILRRPIIVYGVKYVKSF 212
A +LE++H+F L +ILRRPIIV K ++S
Sbjct: 202 ARSGLQYNSLEEIHIFVLCNILRRPIIVISDKMLRSL 238
>pdb|3ITL|A Chain A, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant D327n In Complex With L-Rhamnulose
pdb|3ITL|B Chain B, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant D327n In Complex With L-Rhamnulose
pdb|3ITL|C Chain C, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant D327n In Complex With L-Rhamnulose
pdb|3ITL|D Chain D, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant D327n In Complex With L-Rhamnulose
pdb|3ITO|A Chain A, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant D327n In Complex With D-Psicose
pdb|3ITO|B Chain B, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant D327n In Complex With D-Psicose
pdb|3ITO|C Chain C, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant D327n In Complex With D-Psicose
pdb|3ITO|D Chain D, Crystal Structure Of Pseudomonas Stutzeri L-Rhamnose
Isomerase Mutant D327n In Complex With D-Psicose
Length = 438
Score = 27.3 bits (59), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 24/44 (54%)
Query: 60 EPHPVINWSHELLDKEAQQQLEAEPHPVINWSHEVTAHLYALWN 103
EP+ + +EL+D EA+ P +IN SH VT + +L N
Sbjct: 298 EPYRLFLVFNELVDAEARGVKGFHPAHMINQSHNVTDPIESLIN 341
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
0.320 0.133 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,015,680
Number of Sequences: 62578
Number of extensions: 269177
Number of successful extensions: 800
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 785
Number of HSP's gapped (non-prelim): 19
length of query: 223
length of database: 14,973,337
effective HSP length: 95
effective length of query: 128
effective length of database: 9,028,427
effective search space: 1155638656
effective search space used: 1155638656
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: 49 (23.5 bits)