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= 042099
(221 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3JRN|A Chain A, Crystal Structure Of Tir Domain From Arabidopsis Thaliana
Length = 176
Score = 74.3 bits (181), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 42/120 (35%), Positives = 69/120 (57%), Gaps = 3/120 (2%)
Query: 94 LCRKSMKTFIDDRELRQVEEIRPDLLKGFEVVKIWVITVMKKHRFSTLCLNELVEIFEYK 153
L R+S++TF DD+EL + P+L EV + V+ V + + S+ CL+ELV I +++
Sbjct: 32 LVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFAVVVVSENYAASSWCLDELVTIMDFE 91
Query: 154 RKNGQFVIPVFYHGTVYELQGQRVFFGGDAFVEHERWFKEHPEIVQKWREELTDASRLSG 213
+K V+P+FY ++ Q + F +H +E PE V KWR+ LT+ ++LSG
Sbjct: 92 KKGSITVMPIFYGVEPNHVRWQTGVL-AEQFKKHAS--REDPEKVLKWRQALTNFAQLSG 148
>pdb|3OZI|A Chain A, Crystal Structure Of The Tir Domain From The Flax Disease
Resistance Protein L6
pdb|3OZI|B Chain B, Crystal Structure Of The Tir Domain From The Flax Disease
Resistance Protein L6
Length = 204
Score = 54.3 bits (129), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 36/124 (29%), Positives = 63/124 (50%), Gaps = 4/124 (3%)
Query: 92 HALCRKSMKTFIDDRELRQVEEIRPDLLKGFEVVKIWVITVMKKHRFSTLCLNELVEIFE 151
+L R + TF DD EL + +EI P+LL+ + KI+V + + S CL EL EI
Sbjct: 57 QSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYVPIISSGYADSKWCLMELAEIVR 116
Query: 152 YKRKNG-QFVIPVFYHGTVYELQGQRVFFGGDAFVEHERWFKEHPEIVQKWREELTDASR 210
+ ++ + ++P+FY +++ Q + AF +H F + +Q W++ L
Sbjct: 117 RQEEDPRRIILPIFYMVDPSDVRHQTGCYKK-AFRKHANKF--DGQTIQNWKDALKKVGD 173
Query: 211 LSGF 214
L G+
Sbjct: 174 LKGW 177
>pdb|3SBP|A Chain A, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form
pdb|3SBP|B Chain B, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form
pdb|3SBP|C Chain C, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form
pdb|3SBP|D Chain D, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form
pdb|3SBP|E Chain E, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form
pdb|3SBP|F Chain F, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form
pdb|3SBP|G Chain G, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form
pdb|3SBP|H Chain H, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form
pdb|3SBQ|A Chain A, Pseudomonas Stutzeri Nitrous Oxide Reductase, P65 Crystal
Form
pdb|3SBQ|B Chain B, Pseudomonas Stutzeri Nitrous Oxide Reductase, P65 Crystal
Form
pdb|3SBR|A Chain A, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form With Substrate
pdb|3SBR|B Chain B, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form With Substrate
pdb|3SBR|C Chain C, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form With Substrate
pdb|3SBR|D Chain D, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form With Substrate
pdb|3SBR|E Chain E, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form With Substrate
pdb|3SBR|F Chain F, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form With Substrate
pdb|3SBR|G Chain G, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form With Substrate
pdb|3SBR|H Chain H, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form With Substrate
Length = 638
Score = 30.8 bits (68), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 38/77 (49%), Gaps = 6/77 (7%)
Query: 102 FIDDRELRQVEEIRPDLLKGFEVVKIWVITVMKKHRFSTLCLNELVEIFEYKRKNGQFVI 161
FI+D+ +V IR D++K +++ + + + R + V +Y N +F+I
Sbjct: 146 FINDKANSRVARIRLDIMKCDKMITVPNVQAIHGLRL------QKVPHTKYVFANAEFII 199
Query: 162 PVFYHGTVYELQGQRVF 178
P G V++LQ + +
Sbjct: 200 PHPNDGKVFDLQDENSY 216
>pdb|1DBG|A Chain A, Crystal Structure Of Chondroitinase B
pdb|1DBO|A Chain A, Crystal Structure Of Chondroitinase B
Length = 506
Score = 28.9 bits (63), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 32/74 (43%), Gaps = 20/74 (27%)
Query: 146 LVEIFEYKRKNGQFVI--------PVFYHGTVYELQGQRVFFGGDAFVE--------HER 189
LV+I + K+ Q ++ P+ T+ L +VFF GDA VE
Sbjct: 46 LVQIADGTYKDVQLIVSNSGKSGLPI----TIKALNPGKVFFTGDAKVELRGEHLILEGI 101
Query: 190 WFKEHPEIVQKWRE 203
WFK+ +Q W+
Sbjct: 102 WFKDGNRAIQAWKS 115
>pdb|1OFM|A Chain A, Crystal Structure Of Chondroitinase B Complexed To
Chondroitin 4-sulfate Tetrasaccharide
pdb|1OFL|A Chain A, Crystal Structure Of Chondroitinase B Complexed To
Dermatan Sulfate Hexasaccharide
Length = 481
Score = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 20/73 (27%)
Query: 146 LVEIFEYKRKNGQFVI--------PVFYHGTVYELQGQRVFFGGDAFVE--------HER 189
LV+I + K+ Q ++ P+ T+ L +VFF GDA VE
Sbjct: 21 LVQIADGTYKDVQLIVSNSGKSGLPI----TIKALNPGKVFFTGDAKVELRGEHLILEGI 76
Query: 190 WFKEHPEIVQKWR 202
WFK+ +Q W+
Sbjct: 77 WFKDGNRAIQAWK 89
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
0.323 0.137 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,172,086
Number of Sequences: 62578
Number of extensions: 196442
Number of successful extensions: 522
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 517
Number of HSP's gapped (non-prelim): 5
length of query: 221
length of database: 14,973,337
effective HSP length: 95
effective length of query: 126
effective length of database: 9,028,427
effective search space: 1137581802
effective search space used: 1137581802
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 49 (23.5 bits)