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= 017784
(366 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1F62|A Chain A, Wstf-Phd
Length = 51
Score = 35.0 bits (79), Expect = 0.058, Method: Composition-based stats.
Identities = 20/50 (40%), Positives = 28/50 (56%), Gaps = 4/50 (8%)
Query: 5 CQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFE-DDVLWYCEDCEP 53
C+ C KG + LI C++C A H++CL PA +E D W C C+P
Sbjct: 3 CKVCRKKGEDDKLILCDECN-KAFHLFCLR--PALYEVPDGEWQCPACQP 49
>pdb|3ZVZ|B Chain B, Phd Finger Of Human Uhrf1
Length = 57
Score = 35.0 bits (79), Expect = 0.064, Method: Composition-based stats.
Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 2 VTVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDC 51
V C CG + + + C++C A HIYCL +S + WYC +C
Sbjct: 5 VCACHLCGGRQDPDKQLMCDECDM-AFHIYCLDPPLSSVPSEDEWYCPEC 53
>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 = 35.0 bits (79), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 2 VTVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDC 51
V C CG + + + C++C A HIYCL +S + WYC +C
Sbjct: 190 VCACHLCGGRQDPDKQLMCDECDM-AFHIYCLDPPLSSVPSEDEWYCPEC 238
>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 = 34.7 bits (78), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 2 VTVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDC 51
V C CG + + + C++C A HIYCL +S + WYC +C
Sbjct: 174 VCACHLCGGRQDPDKQLMCDECDM-AFHIYCLDPPLSSVPSEDEWYCPEC 222
>pdb|3T6R|A Chain A, Structure Of Uhrf1 In Complex With Unmodified H3
N-Terminal Tail
pdb|3T6R|B Chain B, Structure Of Uhrf1 In Complex With Unmodified H3
N-Terminal Tail
Length = 72
Score = 34.3 bits (77), Expect = 0.10, Method: Composition-based stats.
Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 2 VTVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDC 51
V C CG + + + C++C A HIYCL +S + WYC +C
Sbjct: 23 VCACHLCGGRQDPDKQLMCDECDM-AFHIYCLDPPLSSVPSEDEWYCPEC 71
>pdb|3SHB|A Chain A, Crystal Structure Of Phd Domain Of Uhrf1
Length = 77
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 2 VTVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDC 51
V C CG + + + C++C A HIYCL +S + WYC +C
Sbjct: 26 VCACHLCGGRQDPDKQLMCDECDM-AFHIYCLDPPLSSVPSEDEWYCPEC 74
>pdb|3ZVY|A Chain A, Phd Finger Of Human Uhrf1 In Complex With Unmodified
Histone H3 N-Terminal Tail
pdb|3ZVY|B Chain B, Phd Finger Of Human Uhrf1 In Complex With Unmodified
Histone H3 N-Terminal Tail
Length = 72
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 2 VTVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDC 51
V C CG + + + C++C A HIYCL +S + WYC +C
Sbjct: 20 VCACHLCGGRQDPDKQLMCDECDM-AFHIYCLDPPLSSVPSEDEWYCPEC 68
>pdb|3SOU|A Chain A, Structure Of Uhrf1 Phd Finger In Complex With Histone H3
1-9 Peptide
pdb|3SOU|B Chain B, Structure Of Uhrf1 Phd Finger In Complex With Histone H3
1-9 Peptide
pdb|3SOW|A Chain A, Structure Of Uhrf1 Phd Finger In Complex With Histone
H3k4me3 1-9 Peptide
pdb|3SOW|B Chain B, Structure Of Uhrf1 Phd Finger In Complex With Histone
H3k4me3 1-9 Peptide
pdb|3SOX|A Chain A, Structure Of Uhrf1 Phd Finger In The Free Form
pdb|3SOX|B Chain B, Structure Of Uhrf1 Phd Finger In The Free Form
pdb|3ASL|A Chain A, Structure Of Uhrf1 In Complex With Histone Tail
Length = 70
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 27/52 (51%), Gaps = 5/52 (9%)
Query: 2 VTVCQQCGDKGFYEALIGCEKCQTTAVHIYCL--PVLPASFEDDVLWYCEDC 51
V C CG + + + C++C A HIYCL P+ ED+ WYC +C
Sbjct: 18 VCACHLCGGRQDPDKQLMCDECDM-AFHIYCLDPPLSSVPSEDE--WYCPEC 66
>pdb|2LGG|A Chain A, Structure Of Phd Domain Of Uhrf1 In Complex With H3
Peptide
pdb|2LGK|A Chain A, Nmr Structure Of Uhrf1 Phd Domains In A Complex With
Histone H3 Peptide
pdb|2LGL|A Chain A, Nmr Structure Of The Uhrf1 Phd Domain
Length = 69
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 2 VTVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDC 51
V C CG + + + C++C A HIYCL +S + WYC +C
Sbjct: 18 VCACHLCGGRQDPDKQLMCDECDM-AFHIYCLDPPLSSVPSEDEWYCPEC 66
>pdb|1WL4|A Chain A, Human Cytosolic Acetoacetyl-Coa Thiolase Complexed With
Coa
pdb|1WL5|A Chain A, Human Cytosolic Acetoacetyl-Coa Thiolase
Length = 397
Score = 28.5 bits (62), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 35/86 (40%), Gaps = 8/86 (9%)
Query: 236 KVVVIEVHSMGNDKKGYQFRRQRELVKNSSDTGTKSLKNSLVTTSHSFSIPKHSSNVSEK 295
KV V+ + N +K F ++ V S+ G +K P+H SN+
Sbjct: 180 KVAVLSQNRTENAQKAGHFDKEIVPVLVSTRKGLIEVKTD--------EFPRHGSNIEAM 231
Query: 296 SIFEVQFKEDAVKDLSPIRWSGLNGG 321
S + F D ++P SG+N G
Sbjct: 232 SKLKPYFLTDGTGTVTPANASGINDG 257
>pdb|3M4S|A Chain A, Crystal Structure Of A Putative Endoribonuclease L-Psp
From Entamoeba Histolytica, Orthorhombic Form
pdb|3M4S|B Chain B, Crystal Structure Of A Putative Endoribonuclease L-Psp
From Entamoeba Histolytica, Orthorhombic Form
pdb|3M4S|C Chain C, Crystal Structure Of A Putative Endoribonuclease L-Psp
From Entamoeba Histolytica, Orthorhombic Form
pdb|3M4S|D Chain D, Crystal Structure Of A Putative Endoribonuclease L-Psp
From Entamoeba Histolytica, Orthorhombic Form
pdb|3M4S|E Chain E, Crystal Structure Of A Putative Endoribonuclease L-Psp
From Entamoeba Histolytica, Orthorhombic Form
pdb|3M4S|F Chain F, Crystal Structure Of A Putative Endoribonuclease L-Psp
From Entamoeba Histolytica, Orthorhombic Form
Length = 148
Score = 28.1 bits (61), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 4/61 (6%)
Query: 178 YSRELLCNESDKNYEKLGRQIGLDGSSFNDEAESFRTRTSQVVTNDPPYTRECSSNAHKV 237
YS+ ++CN QIGLD + + ++ ++ QV+TN E S+ KV
Sbjct: 40 YSQAIICN----GMVYCSGQIGLDRKTGDFAGKTIEEQSKQVMTNLKYVLEEAGSSMDKV 95
Query: 238 V 238
V
Sbjct: 96 V 96
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
0.312 0.128 0.373
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,550,629
Number of Sequences: 62578
Number of extensions: 402113
Number of successful extensions: 643
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 633
Number of HSP's gapped (non-prelim): 16
length of query: 366
length of database: 14,973,337
effective HSP length: 100
effective length of query: 266
effective length of database: 8,715,537
effective search space: 2318332842
effective search space used: 2318332842
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: 52 (24.6 bits)