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= 045906
(125 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1PXZ|A Chain A, 1.7 Angstrom Crystal Structure Of Jun A 1, The Major
Allergen From Cedar Pollen
pdb|1PXZ|B Chain B, 1.7 Angstrom Crystal Structure Of Jun A 1, The Major
Allergen From Cedar Pollen
Length = 346
Score = 66.6 bits (161), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 42/110 (38%), Positives = 61/110 (55%), Gaps = 6/110 (5%)
Query: 6 AHVDCSLRALAGQAEGFGRLAIGGLHGPLYHVTTLADD----GPGSLREGCRMKEPLWIV 61
++ D + LA A GFG +GG G Y VT+ D+ PG+LR G ++ LWI+
Sbjct: 12 SNWDQNRMKLADCAVGFGSSTMGGKGGDFYTVTSTDDNPVNPTPGTLRYGATREKALWII 71
Query: 62 FEVSGTIHLRSHLSVSSYKTIDGRGQRVKLTGKG--LRLKECEHVIICNL 109
F + I L+ L V+ +KTIDGRG V L G L +++ HVI+ +L
Sbjct: 72 FSQNMNIKLKMPLYVAGHKTIDGRGADVHLGNGGPCLFMRKVSHVILHSL 121
>pdb|3ZSC|A Chain A, Catalytic Function And Substrate Recognition Of The
Pectate Lyase From Thermotoga Maritima
Length = 340
Score = 33.9 bits (76), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 35/110 (31%), Positives = 49/110 (44%), Gaps = 18/110 (16%)
Query: 26 AIGGLHGPLYHVTTLADDGPGSLREGCRMKEPLWIVFEVSGTIHL--RSHLSVSSYKTID 83
+GGL G + V T + + EG V V GTI + + V S KTI
Sbjct: 21 TVGGLGGEIVFVRTAEELEKYTTAEGKY-------VIVVDGTIVFEPKREIKVLSDKTIV 73
Query: 84 GRGQRVKLTGKGLRLKECEHVIICNLEFEC--------GKGPDADAIQIK 125
G K+ G GL +K+ ++VII N+ FE GK D D I ++
Sbjct: 74 GIND-AKIVGGGLVIKDAQNVIIRNIHFEGFYMEDDPRGKKYDFDYINVE 122
>pdb|1VBL|A Chain A, Structure Of The Thermostable Pectate Lyase Pl 47
Length = 416
Score = 32.7 bits (73), Expect = 0.046, Method: Composition-based stats.
Identities = 17/42 (40%), Positives = 25/42 (59%)
Query: 71 RSHLSVSSYKTIDGRGQRVKLTGKGLRLKECEHVIICNLEFE 112
R + V S +I G G+ K+ G G +K ++VII N+EFE
Sbjct: 125 RIMVYVGSNTSIIGVGKDAKIKGGGFLIKNVDNVIIRNIEFE 166
>pdb|3QHX|A Chain A, Crystal Structure Of Cystathionine Gamma-Synthase Metb
(Cgs) From Mycobacterium Ulcerans Agy99 Bound To Hepes
pdb|3QHX|B Chain B, Crystal Structure Of Cystathionine Gamma-Synthase Metb
(Cgs) From Mycobacterium Ulcerans Agy99 Bound To Hepes
pdb|3QHX|C Chain C, Crystal Structure Of Cystathionine Gamma-Synthase Metb
(Cgs) From Mycobacterium Ulcerans Agy99 Bound To Hepes
pdb|3QHX|D Chain D, Crystal Structure Of Cystathionine Gamma-Synthase Metb
(Cgs) From Mycobacterium Ulcerans Agy99 Bound To Hepes
pdb|3QI6|A Chain A, Crystal Structure Of Cystathionine Gamma-Synthase Metb
(Cgs) From Mycobacterium Ulcerans Agy99
pdb|3QI6|B Chain B, Crystal Structure Of Cystathionine Gamma-Synthase Metb
(Cgs) From Mycobacterium Ulcerans Agy99
pdb|3QI6|C Chain C, Crystal Structure Of Cystathionine Gamma-Synthase Metb
(Cgs) From Mycobacterium Ulcerans Agy99
pdb|3QI6|D Chain D, Crystal Structure Of Cystathionine Gamma-Synthase Metb
(Cgs) From Mycobacterium Ulcerans Agy99
Length = 392
Score = 28.9 bits (63), Expect = 0.70, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 26 AIGGLHGPLYHVTTLADDGPGSLREG 51
A G ++ P+Y +T A DG G LR G
Sbjct: 32 ATGAVNAPIYASSTFAQDGVGGLRGG 57
>pdb|1QCX|A Chain A, Pectin Lyase B
Length = 359
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 26/37 (70%), Gaps = 1/37 (2%)
Query: 74 LSVSSYKTIDGRGQRVKLTGKGLRLKE-CEHVIICNL 109
++V+S K+I G+G + + GKGLR+ ++VII N+
Sbjct: 104 ITVNSNKSIVGQGTKGVIKGKGLRVVSGAKNVIIQNI 140
>pdb|1IDK|A Chain A, Pectin Lyase A
Length = 359
Score = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 24/37 (64%), Gaps = 1/37 (2%)
Query: 74 LSVSSYKTIDGRGQRVKLTGKGLRLKE-CEHVIICNL 109
++V+S K++ G G + GKGLR+ E++II N+
Sbjct: 104 ITVTSNKSLIGEGSSGAIKGKGLRIVSGAENIIIQNI 140
>pdb|2HW2|A Chain A, Crystal Structure Of Rifampin Adp-Ribosyl Transferase In
Complex With Rifampin
Length = 143
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 20 EGFGRLAIGGLHGPLYHVTTLADDG-PGSLREGCRMKEPLWIVFEVSGTI 68
EG GR+ I G + + D PG+ R +EP+WIV E++ +
Sbjct: 67 EGRGRIFIVEPEGAIEDDPNVTDKKLPGNPTRSYRTREPVWIVGELTDWV 116
>pdb|1IDJ|A Chain A, Pectin Lyase A
pdb|1IDJ|B Chain B, Pectin Lyase A
Length = 359
Score = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 24/37 (64%), Gaps = 1/37 (2%)
Query: 74 LSVSSYKTIDGRGQRVKLTGKGLRLKE-CEHVIICNL 109
++V+S K++ G G + GKGLR+ E++II N+
Sbjct: 104 ITVTSNKSLIGEGSSGAIKGKGLRIVSGAENIIIQNI 140
>pdb|1T3I|A Chain A, Structure Of Slr0077SUFS, THE ESSENTIAL CYSTEINE
Desulfurase From Synechocystis Pcc 6803
pdb|1T3I|B Chain B, Structure Of Slr0077SUFS, THE ESSENTIAL CYSTEINE
Desulfurase From Synechocystis Pcc 6803
Length = 420
Score = 26.2 bits (56), Expect = 5.3, Method: Composition-based stats.
Identities = 14/51 (27%), Positives = 22/51 (43%), Gaps = 2/51 (3%)
Query: 17 GQAEGFGRLAIGGLHGPLYHVTTLADDGPGSLREGCRMKEPLWIVFEVSGT 67
G + GLH V T+ D ++R G +PL +F+ SG+
Sbjct: 337 GDRAALASFNVAGLHAS--DVATMVDQDGIAIRSGHHCTQPLHRLFDASGS 385
>pdb|2P3N|A Chain A, Thermotoga Maritima Impase Tm1415
pdb|2P3N|B Chain B, Thermotoga Maritima Impase Tm1415
pdb|2P3N|C Chain C, Thermotoga Maritima Impase Tm1415
pdb|2P3N|D Chain D, Thermotoga Maritima Impase Tm1415
pdb|2P3V|A Chain A, Thermotoga Maritima Impase Tm1415
pdb|2P3V|B Chain B, Thermotoga Maritima Impase Tm1415
pdb|2P3V|C Chain C, Thermotoga Maritima Impase Tm1415
pdb|2P3V|D Chain D, Thermotoga Maritima Impase Tm1415
Length = 256
Score = 25.8 bits (55), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 10/33 (30%), Positives = 19/33 (57%)
Query: 23 GRLAIGGLHGPLYHVTTLADDGPGSLREGCRMK 55
G + +G +H P + T A++G G+ G R++
Sbjct: 104 GEVKLGVVHAPALNETLYAEEGSGAFFNGERIR 136
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 0.141 0.439
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,992,427
Number of Sequences: 62578
Number of extensions: 155444
Number of successful extensions: 327
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 320
Number of HSP's gapped (non-prelim): 10
length of query: 125
length of database: 14,973,337
effective HSP length: 86
effective length of query: 39
effective length of database: 9,591,629
effective search space: 374073531
effective search space used: 374073531
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: 45 (21.9 bits)