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= 013613
(439 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3BQ3|A Chain A, Crystal Structure Of S. Cerevisiae Dcn1
Length = 270
Score = 33.5 bits (75), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 25/41 (60%)
Query: 4 PTQETVDTFTSITGASQSVALQKLEEYGGNLNEAVNAYFSE 44
P QE +++FTS+T V+ + L+ N+N A+N Y+ +
Sbjct: 14 PEQEAIESFTSLTKCDPKVSRKYLQRNHWNINYALNDYYDK 54
>pdb|2L4E|A Chain A, Nmr Structure Of The Uba Domain Of S. Cerevisiae Dcn1
pdb|2L4F|A Chain A, Nmr Structure Of The Uba Domain Of S. Cerevisiae Dcn1
Bound To Ubiquitin
Length = 59
Score = 33.5 bits (75), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 24/39 (61%)
Query: 4 PTQETVDTFTSITGASQSVALQKLEEYGGNLNEAVNAYF 42
P QE +++FTS+T V+ + L+ N+N A+N Y+
Sbjct: 10 PEQEAIESFTSLTKCDPKVSRKYLQRNHWNINYALNDYY 48
>pdb|2DAL|A Chain A, Solution Structure Of The Novel Identified Uba-Like
Domain In The N-Terminal Of Human Fas Associated Factor
1 Protein
Length = 62
Score = 30.8 bits (68), Expect = 1.4, Method: Composition-based stats.
Identities = 15/34 (44%), Positives = 19/34 (55%)
Query: 9 VDTFTSITGASQSVALQKLEEYGGNLNEAVNAYF 42
+ FT+ITGAS+SV LE NL AV +
Sbjct: 19 IQQFTTITGASESVGKHMLEACNNNLEMAVTMFL 52
>pdb|2KDI|A Chain A, Solution Structure Of A UbiquitinUIM FUSION PROTEIN
Length = 114
Score = 30.4 bits (67), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 31/66 (46%), Gaps = 6/66 (9%)
Query: 136 WNEQPYHSGQMPYDYDGARTSSYHGRDTRDNLLRDNGSHFYGNDIEEQMIQAAIEASKQE 195
W + G+ DY+ R S+ H +LR G G EE++I+ AIE S +E
Sbjct: 54 WAGKQLEDGRTLSDYNIQRESTLH------LVLRLRGGSMGGAADEEELIRKAIELSLKE 107
Query: 196 ASSGSG 201
+ + G
Sbjct: 108 SRNSGG 113
>pdb|3M4X|A Chain A, Structure Of A Ribosomal Methyltransferase
Length = 456
Score = 28.5 bits (62), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 26/45 (57%), Gaps = 1/45 (2%)
Query: 381 KEMNALKE-AESLQLSRDESQKKILEEEVVKLLSFGCLIYSPCSF 424
K+ NA+KE E L + Q++IL + L + G LIYS C+F
Sbjct: 193 KDPNAIKEWTEESPLYCQKRQQEILSSAIKXLKNKGQLIYSTCTF 237
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
0.310 0.126 0.349
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,735,695
Number of Sequences: 62578
Number of extensions: 463349
Number of successful extensions: 980
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 976
Number of HSP's gapped (non-prelim): 20
length of query: 439
length of database: 14,973,337
effective HSP length: 102
effective length of query: 337
effective length of database: 8,590,381
effective search space: 2894958397
effective search space used: 2894958397
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 53 (25.0 bits)