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= 025061
(258 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2XB3|A Chain A, The Structure Of Cyanobacterial Psbp
Length = 165
Score = 34.7 bits (78), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 43/168 (25%), Positives = 73/168 (43%), Gaps = 21/168 (12%)
Query: 100 AANDLRVYTDELNKFEISIPQDW-QLGAGEPNGFKSITAFYPQEASSSSVSVVITGLGPD 158
A + L+ Y D + +E P+ W Q+ +P F+ ++ +VSVV+ +
Sbjct: 4 ATSGLQAYVDSYDGYEFLYPRGWVQVQVEDPVDV----VFHDIIETTENVSVVVNTVA-S 58
Query: 159 FTRMESFGKVEAFADTLVSGL---DRSWRRPPGVAA---KLIDWFYYI-EYTLQNPGES- 210
+E G E D L+ + S R +AA K D YYI EY + PG+
Sbjct: 59 TKSLEELGSPEEVGDRLLRNIIAPSESGRSSALIAATSQKADDKTYYILEYAVTLPGDGN 118
Query: 211 ---RKHLFSAIGMASNGWYNRLYTVTGQFVEEESEKYGSNIEKAVASF 255
++H S+I ++ ++YT++ EE K + V+SF
Sbjct: 119 TAQQRHNLSSIAVSR----GKVYTLSVSAPEERWPKVEDQFKTIVSSF 162
>pdb|1F6F|A Chain A, Crystal Structure Of The Ternary Complex Between Ovine
Placental Lactogen And The Extracellular Domain Of The
Rat Prolactin Receptor
Length = 199
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 26/48 (54%), Gaps = 6/48 (12%)
Query: 14 ISPLHTWSQRPHHASFTAFSNNKGTNQYKKQFVFCCKKQEQEDDARTL 61
IS LH+W + HHA T +N+KGT+ K QE ++ A+ L
Sbjct: 87 ISLLHSWDEPLHHA-VTELANSKGTSP-----ALLTKAQEIKEKAKVL 128
>pdb|1MCO|H Chain H, Three-Dimensional Structure Of A Human Immunoglobulin With
A Hinge Deletion
Length = 428
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 2/54 (3%)
Query: 182 SW-RRPPGVAAKLIDWFYYIEYTLQNPGESRKHLFSAIGMASNGWYNRLYTVTG 234
SW R+PPG + I + YY T NP + S + + N +Y++L +VT
Sbjct: 37 SWIRQPPGKGLEWIGYIYYSGSTYGNPSLKSRVTIS-VNTSKNQFYSKLSSVTA 89
>pdb|3NFZ|A Chain A, Crystal Structure Of Murine Aminoacylase 3 In Complex With
N-Acetyl-L- Tyrosine
pdb|3NH5|A Chain A, Crystal Structure Of E177a-Mutant Murine Aminoacylase 3
pdb|3NH8|A Chain A, Crystal Structure Of Murine Aminoacylase 3 In Complex With
N-Acetyl-S- 1,2-Dichlorovinyl-L-Cysteine
Length = 327
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 29/68 (42%), Gaps = 10/68 (14%)
Query: 157 PDFTRMESF-GKVEAFADTLVSGLDRSWRRPPGVAAKLIDWFYYIEYTLQNPGESRKHLF 215
P F +M S G E V+G G + Y Y LQNPGE ++ F
Sbjct: 5 PQFEKMSSLPGSREPLLRVAVTG---------GTHGNEMCGVYLARYWLQNPGELQRPSF 55
Query: 216 SAIGMASN 223
SA+ + +N
Sbjct: 56 SAMPVLAN 63
>pdb|3NH4|A Chain A, Crystal Structure Of Murine Aminoacylase 3
Length = 327
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 29/68 (42%), Gaps = 10/68 (14%)
Query: 157 PDFTRMESF-GKVEAFADTLVSGLDRSWRRPPGVAAKLIDWFYYIEYTLQNPGESRKHLF 215
P F +M S G E V+G G + Y Y LQNPGE ++ F
Sbjct: 5 PQFEKMSSLPGSREPLLRVAVTG---------GTHGNEMCGVYLARYWLQNPGELQRPSF 55
Query: 216 SAIGMASN 223
SA+ + +N
Sbjct: 56 SAMPVLAN 63
>pdb|3MLY|H Chain H, Crystal Structure Of Anti-Hiv-1 V3 Fab 3074 In Complex
With A Ur29 V3 Peptide
pdb|3MLY|I Chain I, Crystal Structure Of Anti-Hiv-1 V3 Fab 3074 In Complex
With A Ur29 V3 Peptide
pdb|3MLZ|H Chain H, Crystal Structure Of Anti-Hiv-1 V3 Fab 3074 In Complex
With A Vi191 V3 Peptide
Length = 230
Score = 28.9 bits (63), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 24/54 (44%), Gaps = 2/54 (3%)
Query: 156 GPDFTR-MESFGKVEAFADTLVSGLDRSW-RRPPGVAAKLIDWFYYIEYTLQNP 207
GP + E+ + +SG SW R+PPG + I + YY T NP
Sbjct: 8 GPGLVKPSETLSLTCTVSGGSISGFHWSWIRQPPGKGLEYIGYIYYSGSTSYNP 61
>pdb|3MLX|H Chain H, Crystal Structure Of Anti-Hiv-1 V3 Fab 3074 In Complex
With An Mn V3 Peptide
pdb|3MLX|I Chain I, Crystal Structure Of Anti-Hiv-1 V3 Fab 3074 In Complex
With An Mn V3 Peptide
Length = 228
Score = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 24/54 (44%), Gaps = 2/54 (3%)
Query: 156 GPDFTR-MESFGKVEAFADTLVSGLDRSW-RRPPGVAAKLIDWFYYIEYTLQNP 207
GP + E+ + +SG SW R+PPG + I + YY T NP
Sbjct: 8 GPGLVKPSETLSLTCTVSGGSISGFHWSWIRQPPGKGLEYIGYIYYSGSTSYNP 61
>pdb|1FRF|L Chain L, Crystal Structure Of The Ni-Fe Hydrogenase From
Desulfovibrio Fructosovorans
Length = 564
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 10/31 (32%), Positives = 18/31 (58%)
Query: 104 LRVYTDELNKFEISIPQDWQLGAGEPNGFKS 134
+R+ +++ F++ +P W LG P G KS
Sbjct: 483 IRIKGKKIDNFQLVVPSTWNLGPRGPQGDKS 513
>pdb|1PS9|A Chain A, The Crystal Structure And Reaction Mechanism Of E. Coli
2,4- Dienoyl Coa Reductase
Length = 671
Score = 28.1 bits (61), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 17/32 (53%)
Query: 129 PNGFKSITAFYPQEASSSSVSVVITGLGPDFT 160
P+G + + AFY + A +V G+ PD T
Sbjct: 33 PDGAERLAAFYAERARHGVALIVSGGIAPDLT 64
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
0.318 0.131 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,713,361
Number of Sequences: 62578
Number of extensions: 310733
Number of successful extensions: 1006
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1002
Number of HSP's gapped (non-prelim): 11
length of query: 258
length of database: 14,973,337
effective HSP length: 97
effective length of query: 161
effective length of database: 8,903,271
effective search space: 1433426631
effective search space used: 1433426631
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)