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= 034345
(97 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2YWI|A Chain A, Crystal Structure Of Uncharacterized Conserved Protein
From Geobacillus Kaustophilus
pdb|2YWI|B Chain B, Crystal Structure Of Uncharacterized Conserved Protein
From Geobacillus Kaustophilus
Length = 196
Score = 86.7 bits (213), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 40/83 (48%), Positives = 56/83 (67%), Gaps = 8/83 (9%)
Query: 17 QSQDVARDFGAACTPEFFLFKKDGRRPFQLVYHGQFDDSRPSNNLPVTGRDIRLAIECVL 76
++Q+VA+ + AACTP+F++F +D + VY GQ DDSRP+N +PVTG IR A++ +L
Sbjct: 118 ETQEVAKAYDAACTPDFYIFDRD----LKCVYRGQLDDSRPNNGIPVTGESIRAALDALL 173
Query: 77 SGQPVSSNQKP----SIKWHPQT 95
G+PV QKP SIKW P
Sbjct: 174 EGRPVPEKQKPSIGCSIKWKPSA 196
>pdb|3U5R|E Chain E, Crystal Structure Of A Hypothetical Protein Smc02350 From
Sinorhizobium Meliloti 1021
pdb|3U5R|F Chain F, Crystal Structure Of A Hypothetical Protein Smc02350 From
Sinorhizobium Meliloti 1021
pdb|3U5R|G Chain G, Crystal Structure Of A Hypothetical Protein Smc02350 From
Sinorhizobium Meliloti 1021
pdb|3U5R|H Chain H, Crystal Structure Of A Hypothetical Protein Smc02350 From
Sinorhizobium Meliloti 1021
Length = 218
Score = 86.3 bits (212), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 42/78 (53%), Positives = 54/78 (69%), Gaps = 8/78 (10%)
Query: 18 SQDVARDFGAACTPEFFLFKKDGRRPFQLVYHGQFDDSRPSNNLPVTGRDIRLAIECVLS 77
SQ VA+ +GAACTP+FFL+ ++ R LVYHGQFDD+RP N VTG D+R A++ VL
Sbjct: 132 SQSVAKAYGAACTPDFFLYDRERR----LVYHGQFDDARPGNGKDVTGADLRAAVDAVLK 187
Query: 78 GQPVSSNQKPS----IKW 91
G+ V + Q PS IKW
Sbjct: 188 GKDVGTTQVPSIGCNIKW 205
>pdb|2CVB|A Chain A, Crystal Structure Of A Thioredoxin-Like Protein From
Thermus Thermophilus Hb8
pdb|2YWO|A Chain A, Crystal Structure Of Reduced Thioredoxin-Like Protein From
Thermus Thermophilus Hb8
Length = 188
Score = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 32/83 (38%), Positives = 46/83 (55%), Gaps = 9/83 (10%)
Query: 15 LFQSQDVARDFGAACTPEFFLFKKDGRRPFQLVYHGQFDDSRPSNNLPVTGRDIRLAIEC 74
L ++Q+VA+ + A TPE FLF D RR L YHG+ +D+ P + V D+ AIE
Sbjct: 102 LDETQEVAKAYRALRTPEVFLF--DERR--LLRYHGRVNDN-PKDPSKVQSHDLEAAIEA 156
Query: 75 VLSGQPVSSNQKPS----IKWHP 93
+L G+ + P+ IKW P
Sbjct: 157 LLRGEEPPLKEAPAIGCTIKWRP 179
>pdb|1YBE|A Chain A, Crystal Structure Of A Nicotinate
Phosphoribosyltransferase
pdb|1YBE|B Chain B, Crystal Structure Of A Nicotinate
Phosphoribosyltransferase
Length = 449
Score = 28.1 bits (61), Expect = 1.2, Method: Composition-based stats.
Identities = 11/25 (44%), Positives = 20/25 (80%), Gaps = 2/25 (8%)
Query: 31 PEFFLFKKDGRRPFQLVYHGQFDDS 55
PE+ LFK+DG+ ++L +HG++ D+
Sbjct: 122 PEYELFKRDGQ--YELNFHGRWMDT 144
>pdb|2L3R|A Chain A, Nmr Structure Of Uhrf1 Tandem Tudor Domains In A Complex
With Histone H3 Peptide
Length = 162
Score = 26.6 bits (57), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 10/48 (20%), Positives = 24/48 (50%)
Query: 46 LVYHGQFDDSRPSNNLPVTGRDIRLAIECVLSGQPVSSNQKPSIKWHP 93
++YH ++DD + + + RD+R ++ Q + Q + ++P
Sbjct: 59 VIYHVKYDDYPENGVVQMNSRDVRARARTIIKWQDLEVGQVVMLNYNP 106
>pdb|3DB3|A Chain A, Crystal Structure Of The Tandem Tudor Domains Of The E3
Ubiquitin- Protein Ligase Uhrf1 In Complex With
Trimethylated Histone H3-K9 Peptide
pdb|3DB4|A Chain A, Crystal Structure Of The Tandem Tudor Domains Of The E3
Ubiquitin- Protein Ligase Uhrf1
Length = 161
Score = 25.8 bits (55), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 10/48 (20%), Positives = 23/48 (47%)
Query: 46 LVYHGQFDDSRPSNNLPVTGRDIRLAIECVLSGQPVSSNQKPSIKWHP 93
++YH ++DD + + RD+R ++ Q + Q + ++P
Sbjct: 58 VIYHVKYDDYPENGVVQXNSRDVRARARTIIKWQDLEVGQVVXLNYNP 105
>pdb|3ASK|A Chain A, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|B Chain B, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|C Chain C, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|D Chain D, Structure Of Uhrf1 In Complex With Histone Tail
Length = 226
Score = 25.8 bits (55), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 10/50 (20%), Positives = 24/50 (48%)
Query: 46 LVYHGQFDDSRPSNNLPVTGRDIRLAIECVLSGQPVSSNQKPSIKWHPQT 95
++YH ++DD + + + RD+R ++ Q + Q + ++P
Sbjct: 41 VIYHVKYDDYPENGVVQMNSRDVRARARTIIKWQDLEVGQVVMLNYNPDN 90
>pdb|4GY5|A Chain A, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|B Chain B, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|C Chain C, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|D Chain D, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
Length = 241
Score = 25.4 bits (54), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 10/50 (20%), Positives = 24/50 (48%)
Query: 46 LVYHGQFDDSRPSNNLPVTGRDIRLAIECVLSGQPVSSNQKPSIKWHPQT 95
++YH ++DD + + + RD+R ++ Q + Q + ++P
Sbjct: 57 VIYHVKYDDYPENGVVQMNSRDVRARARTIIKWQDLEVGQVVMLNYNPDN 106
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
0.323 0.138 0.431
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,680,203
Number of Sequences: 62578
Number of extensions: 96902
Number of successful extensions: 143
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 133
Number of HSP's gapped (non-prelim): 9
length of query: 97
length of database: 14,973,337
effective HSP length: 63
effective length of query: 34
effective length of database: 11,030,923
effective search space: 375051382
effective search space used: 375051382
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)