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= 043725
(150 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3APR|E Chain E, Binding Of A Reduced Peptide Inhibitor To The Aspartic
Proteinase From Rhizopus Chinensis. Implications For A
Mechanism Of Action
pdb|4APR|E Chain E, Structures Of Complexes Of Rhizopuspepsin With Pepstatin
And Other Statine-Containing Inhibitors
pdb|5APR|E Chain E, Structures Of Complexes Of Rhizopuspepsin With Pepstatin
And Other Statine-Containing Inhibitors
pdb|6APR|E Chain E, Structures Of Complexes Of Rhizopuspepsin With Pepstatin
And Other Statine-Containing Inhibitors
pdb|2APR|A Chain A, Structure And Refinement At 1.8 Angstroms Resolution Of
The Aspartic Proteinase From Rhizopus Chinensis
Length = 325
Score = 27.7 bits (60), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 21/45 (46%)
Query: 83 QGPLAIPCDESLFEEAIRFISRSESGHSARFVNFEDFQRYCHVGF 127
G I CD S F+ + I+ + S + FE+FQ C GF
Sbjct: 245 DGTYTISCDTSAFKPLVFSINGASFQVSPDSLVFEEFQGQCIAGF 289
>pdb|1UH7|A Chain A, Crystal Structure Of Rhizopuspepsin At Ph 4.6
pdb|1UH8|A Chain A, Crystal Structure Of Rhizopuspepsin At Ph 8.0
pdb|1UH9|A Chain A, Crystal Structure Of Rhizopuspepsin At Ph 7.0
Length = 325
Score = 27.7 bits (60), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 24/52 (46%), Gaps = 1/52 (1%)
Query: 83 QGPLAIPCDESLFEEAIRFISRSESGHSARFVNFEDFQRYCHVGFK-KNIDF 133
G I CD S F+ + I+ + S + FE+FQ C GF N DF
Sbjct: 245 DGTYTISCDTSRFKPLVFSINGASFQVSPDSLVFEEFQGQCIAGFGYGNWDF 296
>pdb|3OLJ|A Chain A, Crystal Structure Of Human Ribonucleotide Reductase
Subunit M2 (Hrrm2)
pdb|3OLJ|B Chain B, Crystal Structure Of Human Ribonucleotide Reductase
Subunit M2 (Hrrm2)
pdb|3OLJ|C Chain C, Crystal Structure Of Human Ribonucleotide Reductase
Subunit M2 (Hrrm2)
pdb|3OLJ|D Chain D, Crystal Structure Of Human Ribonucleotide Reductase
Subunit M2 (Hrrm2)
Length = 286
Score = 26.2 bits (56), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 37/86 (43%), Gaps = 11/86 (12%)
Query: 60 TYLNHPVFKKLLVQAEEEYGFTNQGPLAIPCDESLFEEAIRFISRSESGHSARFVNFEDF 119
TY+ P ++ L A E +PC + + A+R+I E+ + R V F
Sbjct: 118 TYIKDPKEREFLFNAIE----------TMPCVKKKADWALRWIGDKEATYGERVVAFAAV 167
Query: 120 QRYCHVGFKKNIDFWTESRPLLHGIA 145
+ G +I FW + R L+ G+
Sbjct: 168 EGIFFSGSFASI-FWLKKRGLMPGLT 192
>pdb|2O5H|A Chain A, Uncharacterized Protein Conserved In Bacteria, Cog3792
From Neisseria Meningitidis
pdb|2O5H|B Chain B, Uncharacterized Protein Conserved In Bacteria, Cog3792
From Neisseria Meningitidis
Length = 136
Score = 25.8 bits (55), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 31/68 (45%), Gaps = 3/68 (4%)
Query: 63 NHPVFKKLLVQAEEEYGFTNQGPLAIPCDESLFEEAIRFISRSESGHSARFVNFEDFQRY 122
NH V K+ + EE+ FT L + C L+ F S E A F+ F++ R
Sbjct: 9 NHDVHKRYQDRLEEDVEFTINYELPLSC---LWSTIKDFSSDFEEKTEAFFILFKELLRR 65
Query: 123 CHVGFKKN 130
H+ +++
Sbjct: 66 GHLKLQRD 73
>pdb|1H0N|A Chain A, Cobalt Substitution Of Mouse R2 Ribonucleotide Reductase
To Model The Reactive Diferrous State
pdb|1H0O|A Chain A, Cobalt Substitution Of Mouse R2 Ribonucleotide Reductase
To Model The Reactive Diferrous State
pdb|1W68|A Chain A, Crystal Structure Of Mouse Ribonucleotide Reductase
Subunit R2 Under Oxidizing Conditions. A Fully Occupied
Dinuclear Iron Cluster.
pdb|1W69|A Chain A, Crystal Structure Of Mouse Ribonucleotide Reductase
Subunit R2 Under Reducing Conditions. A Fully Occupied
Dinuclear Iron Cluster And Bound Acetate.
pdb|1XSM|A Chain A, Protein R2 Of Ribonucleotide Reductase From Mouse
Length = 390
Score = 25.8 bits (55), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 37/86 (43%), Gaps = 11/86 (12%)
Query: 60 TYLNHPVFKKLLVQAEEEYGFTNQGPLAIPCDESLFEEAIRFISRSESGHSARFVNFEDF 119
TY+ P ++ L A E +PC + + A+R+I E+ + R V F
Sbjct: 183 TYIKDPKEREYLFNAIE----------TMPCVKKKADWALRWIGDKEATYGERVVAFAAV 232
Query: 120 QRYCHVGFKKNIDFWTESRPLLHGIA 145
+ G +I FW + R L+ G+
Sbjct: 233 EGIFFSGSFASI-FWLKKRGLMPGLT 257
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
0.327 0.138 0.441
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,241,325
Number of Sequences: 62578
Number of extensions: 154727
Number of successful extensions: 381
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 379
Number of HSP's gapped (non-prelim): 6
length of query: 150
length of database: 14,973,337
effective HSP length: 90
effective length of query: 60
effective length of database: 9,341,317
effective search space: 560479020
effective search space used: 560479020
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 47 (22.7 bits)