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= psy18011
(163 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4EDJ|A Chain A, Crystal Structure Of The Grasp55 Grasp Domain With A
Phosphomimetic Mutation (S189d)
pdb|4EDJ|B Chain B, Crystal Structure Of The Grasp55 Grasp Domain With A
Phosphomimetic Mutation (S189d)
Length = 209
Score = 173 bits (438), Expect = 4e-44, Method: Compositional matrix adjust.
Identities = 86/175 (49%), Positives = 119/175 (68%), Gaps = 26/175 (14%)
Query: 1 VQDNSPGQKAGLEAFFDFIVAIDNIRLDQDNDTLKELLKNGIDKELKMAVYSSKTQDVRT 60
VQ+NSPG +AGLE FFDFIV+I+ RL++DNDTLK+LLK ++K +KM +YSSKT ++R
Sbjct: 23 VQENSPGHRAGLEPFFDFIVSINGSRLNKDNDTLKDLLKANVEKPVKMLIYSSKTLELRE 82
Query: 61 VNITPSNSWGGQGLLGVSIRFCSFEGANENVWHILDQDNDT------------------- 101
++TPSN WGGQGLLGVSIRFCSF+GANENVWH+L+ ++++
Sbjct: 83 TSVTPSNLWGGQGLLGVSIRFCSFDGANENVWHVLEVESNSPAALAGLRPHSDYIIGADT 142
Query: 102 -------LKELLKNGIDKELKMAVYSSKTQDVRTVNITPSNSWGGQGLLGVSIRF 149
L L++ K LK+ VY++ T + R V ITP+++WGG+G LG I +
Sbjct: 143 VMNESEDLFSLIETHEAKPLKLYVYNTDTDNCREVIITPNSAWGGEGDLGCGIGY 197
Score = 109 bits (273), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 48/69 (69%), Positives = 61/69 (88%)
Query: 95 LDQDNDTLKELLKNGIDKELKMAVYSSKTQDVRTVNITPSNSWGGQGLLGVSIRFCSFEG 154
L++DNDTLK+LLK ++K +KM +YSSKT ++R ++TPSN WGGQGLLGVSIRFCSF+G
Sbjct: 49 LNKDNDTLKDLLKANVEKPVKMLIYSSKTLELRETSVTPSNLWGGQGLLGVSIRFCSFDG 108
Query: 155 ANENVWHIL 163
ANENVWH+L
Sbjct: 109 ANENVWHVL 117
>pdb|3RLE|A Chain A, Crystal Structure Of Grasp55 Grasp Domain (residues 7-208)
Length = 209
Score = 171 bits (434), Expect = 1e-43, Method: Compositional matrix adjust.
Identities = 85/175 (48%), Positives = 118/175 (67%), Gaps = 26/175 (14%)
Query: 1 VQDNSPGQKAGLEAFFDFIVAIDNIRLDQDNDTLKELLKNGIDKELKMAVYSSKTQDVRT 60
VQ+NSPG +AGLE FFDFIV+I+ RL++DNDTLK+LLK ++K +K +YSSKT ++R
Sbjct: 23 VQENSPGHRAGLEPFFDFIVSINGSRLNKDNDTLKDLLKANVEKPVKXLIYSSKTLELRE 82
Query: 61 VNITPSNSWGGQGLLGVSIRFCSFEGANENVWHILDQDNDT------------------- 101
++TPSN WGGQGLLGVSIRFCSF+GANENVWH+L+ ++++
Sbjct: 83 TSVTPSNLWGGQGLLGVSIRFCSFDGANENVWHVLEVESNSPAALAGLRPHSDYIIGADT 142
Query: 102 -------LKELLKNGIDKELKMAVYSSKTQDVRTVNITPSNSWGGQGLLGVSIRF 149
L L++ K LK+ VY++ T + R V ITP+++WGG+G LG I +
Sbjct: 143 VXNESEDLFSLIETHEAKPLKLYVYNTDTDNCREVIITPNSAWGGEGSLGCGIGY 197
Score = 107 bits (266), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 47/69 (68%), Positives = 60/69 (86%)
Query: 95 LDQDNDTLKELLKNGIDKELKMAVYSSKTQDVRTVNITPSNSWGGQGLLGVSIRFCSFEG 154
L++DNDTLK+LLK ++K +K +YSSKT ++R ++TPSN WGGQGLLGVSIRFCSF+G
Sbjct: 49 LNKDNDTLKDLLKANVEKPVKXLIYSSKTLELRETSVTPSNLWGGQGLLGVSIRFCSFDG 108
Query: 155 ANENVWHIL 163
ANENVWH+L
Sbjct: 109 ANENVWHVL 117
>pdb|2EXR|A Chain A, X-Ray Structure Of Cytokinin OxidaseDEHYDROGENASE (CKX)
FROM Arabidopsis Thaliana At5g21482
pdb|2Q4W|A Chain A, Ensemble Refinement Of The Protein Crystal Structure Of
Cytokinin OxidaseDEHYDROGENASE (CKX) FROM ARABIDOPSIS
THALIANA AT5G21482
Length = 524
Score = 33.1 bits (74), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 25/100 (25%), Positives = 44/100 (44%), Gaps = 2/100 (2%)
Query: 28 DQDNDTLKELLKNGIDKELKMAVYSSKTQDVRTVNITPSNSWGGQGLLGVSIRFCSFEGA 87
D + KEL+KNG++ + D RT + P G + +RF
Sbjct: 394 DFNRTVFKELVKNGVNGPXLVYPLLRSRWDDRTSVVIPEE--GEIFYIVALLRFVPPCAK 451
Query: 88 NENVWHILDQDNDTLKELLKNGIDKELKMAVYSSKTQDVR 127
+V + Q+ + + +KNGID +L + Y S+ + +R
Sbjct: 452 VSSVEKXVAQNQEIVHWCVKNGIDYKLYLPHYKSQEEWIR 491
>pdb|2RHS|B Chain B, Phers From Staphylococcus Haemolyticus- Rational Protein
Engineering And Inhibitor Studies
pdb|2RHS|D Chain D, Phers From Staphylococcus Haemolyticus- Rational Protein
Engineering And Inhibitor Studies
Length = 800
Score = 28.5 bits (62), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 29/114 (25%), Positives = 44/114 (38%), Gaps = 14/114 (12%)
Query: 42 IDKELKMAVYSSKTQDVRTVNITPSNSWGGQGLLGVSIR----------FCSFEGANENV 91
ID K+ YS++ V+ V+I PS W L+ IR + E
Sbjct: 215 IDNPEKVPYYSARV--VKNVSIEPSPIWVQARLIKAGIRPINNVVDISNYVLLEYGQP-- 270
Query: 92 WHILDQDNDTLKELLKNGIDKELKMAVYSSKTQDVRTVNITPSNSWGGQGLLGV 145
H+ DQD+ KE++ E M + + + +I SN L GV
Sbjct: 271 LHMFDQDHIGSKEIVVRQAKDEETMTTLDNNERKLVDTDIVISNGQEPIALAGV 324
>pdb|2RHQ|B Chain B, Phers From Staphylococcus Haemolyticus- Rational Protein
Engineering And Inhibitor Studies
Length = 795
Score = 28.5 bits (62), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 29/114 (25%), Positives = 44/114 (38%), Gaps = 14/114 (12%)
Query: 42 IDKELKMAVYSSKTQDVRTVNITPSNSWGGQGLLGVSIR----------FCSFEGANENV 91
ID K+ YS++ V+ V+I PS W L+ IR + E
Sbjct: 211 IDNPEKVPYYSARV--VKNVSIEPSPIWVQARLIKAGIRPINNVVDISNYVLLEYGQP-- 266
Query: 92 WHILDQDNDTLKELLKNGIDKELKMAVYSSKTQDVRTVNITPSNSWGGQGLLGV 145
H+ DQD+ KE++ E M + + + +I SN L GV
Sbjct: 267 LHMFDQDHIGSKEIVVRQAKDEETMTTLDNNERKLVDTDIVISNGQEPIALAGV 320
>pdb|2YVA|A Chain A, Crystal Structure Of Escherichia Coli Diaa
pdb|2YVA|B Chain B, Crystal Structure Of Escherichia Coli Diaa
Length = 196
Score = 26.6 bits (57), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 32/72 (44%), Gaps = 3/72 (4%)
Query: 27 LDQDNDTLKELLKNGIDKELKMAVYSSKTQDVRTVNITPSNSWGGQGLLG---VSIRFCS 83
L D L + G +++ AV ++ T+D+ V +T + GLLG V IR S
Sbjct: 106 LGHAGDVLLAISTRGNSRDIVKAVEAAVTRDMTIVALTGYDGGELAGLLGPQDVEIRIPS 165
Query: 84 FEGANENVWHIL 95
A H+L
Sbjct: 166 HRSARIQEMHML 177
Score = 26.6 bits (57), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 32/72 (44%), Gaps = 3/72 (4%)
Query: 95 LDQDNDTLKELLKNGIDKELKMAVYSSKTQDVRTVNITPSNSWGGQGLLG---VSIRFCS 151
L D L + G +++ AV ++ T+D+ V +T + GLLG V IR S
Sbjct: 106 LGHAGDVLLAISTRGNSRDIVKAVEAAVTRDMTIVALTGYDGGELAGLLGPQDVEIRIPS 165
Query: 152 FEGANENVWHIL 163
A H+L
Sbjct: 166 HRSARIQEMHML 177
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
0.315 0.134 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,193,178
Number of Sequences: 62578
Number of extensions: 217143
Number of successful extensions: 463
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 437
Number of HSP's gapped (non-prelim): 26
length of query: 163
length of database: 14,973,337
effective HSP length: 91
effective length of query: 72
effective length of database: 9,278,739
effective search space: 668069208
effective search space used: 668069208
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 47 (22.7 bits)