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= 031197
(164 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1W4S|A Chain A, Crystal Structure Of The Proximal Bah Domain Of Polybromo
Length = 174
Score = 60.8 bits (146), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 41/136 (30%), Positives = 63/136 (46%), Gaps = 3/136 (2%)
Query: 20 NKVVRPGDCVLMRPADSDKPPYVARVEKIEADHRNNVKVRVRWYYRPEESIGGRRQFHGA 79
N + GD V + PA+++ P++ +E++ D + W+YRP E+ +
Sbjct: 24 NSMYHVGDYVYVEPAEANLQPHIVCIERLWEDSAGEKWLYGCWFYRPNETFHLATRKFLE 83
Query: 80 KELFLSDHYDVQSAHTIEGKCTVHTFKNYTKL--ENVGAED-YFCRFEYKAATGGFTPDR 136
KE+F SD+Y+ I GKC V K Y KL EN ED Y C Y A T F +
Sbjct: 84 KEVFKSDYYNKVPVSKILGKCVVMFVKEYFKLCPENFRDEDVYVCESRYSAKTKSFKKIK 143
Query: 137 VAVYCKCEMPYNPDDL 152
+ + + P D+
Sbjct: 144 LWTMPVSSVRFVPRDV 159
>pdb|3PTA|A Chain A, Crystal Structure Of Human Dnmt1(646-1600) In Complex With
Dna
Length = 956
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 33/77 (42%), Gaps = 2/77 (2%)
Query: 26 GDCVLMRPADSDKPPYVARVEKIEADHRNNVKVRVRWYYRPEESIGGRRQFHGAKELFLS 85
GDCV + P DS KP Y+ARV + D N W+ +++ G ELFL
Sbjct: 116 GDCVSVIPDDSSKPLYLARVTALWEDSSNGQMFHAHWFCAGTDTVLGATS--DPLELFLV 173
Query: 86 DHYDVQSAHTIEGKCTV 102
D + I K V
Sbjct: 174 DECEDMQLSYIHSKVKV 190
Score = 32.0 bits (71), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 28/116 (24%), Positives = 50/116 (43%), Gaps = 26/116 (22%)
Query: 13 SYNIKGTNKVVRP-----------------GDCVLMRPADSDKPPYVARVEKIEADHRNN 55
++NIK ++ V RP D + D+ +P + R+++I ++N
Sbjct: 303 TFNIKLSSPVKRPRKEPVDEDLYPEHYRKYSDYIKGSNLDAPEPYRIGRIKEIFCPKKSN 362
Query: 56 -------VKVRVRWYYRPEESIGGRRQFHGA--KELFLSDHYDVQSAHTIEGKCTV 102
+K+RV +YRPE + + A L+ SD V ++G+CTV
Sbjct: 363 GRPNETDIKIRVNKFYRPENTHKSTPASYHADINLLYWSDEEAVVDFKAVQGRCTV 418
>pdb|3SWR|A Chain A, Structure Of Human Dnmt1 (601-1600) In Complex With
Sinefungin
Length = 1002
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 33/77 (42%), Gaps = 2/77 (2%)
Query: 26 GDCVLMRPADSDKPPYVARVEKIEADHRNNVKVRVRWYYRPEESIGGRRQFHGAKELFLS 85
GDCV + P DS KP Y+ARV + D N W+ +++ G ELFL
Sbjct: 162 GDCVSVIPDDSSKPLYLARVTALWEDSSNGQMFHAHWFCAGTDTVLGATS--DPLELFLV 219
Query: 86 DHYDVQSAHTIEGKCTV 102
D + I K V
Sbjct: 220 DECEDMQLSYIHSKVKV 236
Score = 32.0 bits (71), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 28/116 (24%), Positives = 50/116 (43%), Gaps = 26/116 (22%)
Query: 13 SYNIKGTNKVVRP-----------------GDCVLMRPADSDKPPYVARVEKIEADHRNN 55
++NIK ++ V RP D + D+ +P + R+++I ++N
Sbjct: 349 TFNIKLSSPVKRPRKEPVDEDLYPEHYRKYSDYIKGSNLDAPEPYRIGRIKEIFCPKKSN 408
Query: 56 -------VKVRVRWYYRPEESIGGRRQFHGA--KELFLSDHYDVQSAHTIEGKCTV 102
+K+RV +YRPE + + A L+ SD V ++G+CTV
Sbjct: 409 GRPNETDIKIRVNKFYRPENTHKSTPASYHADINLLYWSDEEAVVDFKAVQGRCTV 464
>pdb|3KV4|A Chain A, Structure Of Phf8 In Complex With Histone H3
Length = 447
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 19/28 (67%)
Query: 137 VAVYCKCEMPYNPDDLMVQCEGCKDWIY 164
V VYC C +PY+ M++C+ C+DW +
Sbjct: 4 VPVYCLCRLPYDVTRFMIECDMCQDWFH 31
>pdb|3KQI|A Chain A, Crystal Structure Of Phf2 Phd Domain Complexed With
H3k4me3 Peptide
Length = 75
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 19/28 (67%)
Query: 137 VAVYCKCEMPYNPDDLMVQCEGCKDWIY 164
V VYC C +PY+ M++C+ CKDW +
Sbjct: 9 VPVYCVCRLPYDVTRFMIECDACKDWFH 36
>pdb|3KV5|D Chain D, Structure Of Kiaa1718, Human Jumonji Demethylase, In
Complex With N-Oxalylglycine
pdb|3KV5|A Chain A, Structure Of Kiaa1718, Human Jumonji Demethylase, In
Complex With N-Oxalylglycine
pdb|3KV6|A Chain A, Structure Of Kiaa1718, Human Jumonji Demethylase, In
Complex With Alpha-Ketoglutarate
pdb|3KV6|D Chain D, Structure Of Kiaa1718, Human Jumonji Demethylase, In
Complex With Alpha-Ketoglutarate
Length = 488
Score = 37.0 bits (84), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 18/26 (69%)
Query: 139 VYCKCEMPYNPDDLMVQCEGCKDWIY 164
VYC C PY+ + M++C+ CKDW +
Sbjct: 38 VYCVCRQPYDVNRFMIECDICKDWFH 63
>pdb|1WEP|A Chain A, Solution Structure Of Phd Domain In Phf8
Length = 79
Score = 37.0 bits (84), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 21/38 (55%)
Query: 127 AATGGFTPDRVAVYCKCEMPYNPDDLMVQCEGCKDWIY 164
++G V VYC C PYN + M++C C+DW +
Sbjct: 1 GSSGSSGMALVPVYCLCRQPYNVNHFMIECGLCQDWFH 38
>pdb|3PT9|A Chain A, Crystal Structure Of Mouse Dnmt1(731-1602) In The Free
State
pdb|4DA4|A Chain A, Structure Of Mouse Dnmt1 (731-1602) Bound To
Hemimethylated Cpg Dna
pdb|4DA4|B Chain B, Structure Of Mouse Dnmt1 (731-1602) Bound To
Hemimethylated Cpg Dna
Length = 873
Score = 36.2 bits (82), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 35/82 (42%), Gaps = 2/82 (2%)
Query: 21 KVVRPGDCVLMRPADSDKPPYVARVEKIEADHRNNVKVRVRWYYRPEESIGGRRQFHGAK 80
+++ GDCV + P DS KP Y+ARV + D + W+ +++ G
Sbjct: 29 EMLEVGDCVSVIPDDSSKPLYLARVTALWEDKNGQMMFHAHWFCAGTDTVLGATS--DPL 86
Query: 81 ELFLSDHYDVQSAHTIEGKCTV 102
ELFL + I K V
Sbjct: 87 ELFLVGECENMQLSYIHSKVKV 108
Score = 30.8 bits (68), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 41/79 (51%), Gaps = 14/79 (17%)
Query: 35 DSDKPPYVARVEKIEADHRN------NVKVRVRWYYRPEESIGGRRQFHGA-----KELF 83
D+ +P + R+++I + ++K+R+ +YRPE + R ++G+ L+
Sbjct: 261 DAPEPYRIGRIKEIHCGKKKGKVNEADIKLRLYKFYRPENT---HRSYNGSYHTDINMLY 317
Query: 84 LSDHYDVQSAHTIEGKCTV 102
SD V + ++G+CTV
Sbjct: 318 WSDEEAVVNFSDVQGRCTV 336
>pdb|3PT6|A Chain A, Crystal Structure Of Mouse Dnmt1(650-1602) In Complex With
Dna
pdb|3PT6|B Chain B, Crystal Structure Of Mouse Dnmt1(650-1602) In Complex With
Dna
Length = 954
Score = 36.2 bits (82), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 35/82 (42%), Gaps = 2/82 (2%)
Query: 21 KVVRPGDCVLMRPADSDKPPYVARVEKIEADHRNNVKVRVRWYYRPEESIGGRRQFHGAK 80
+++ GDCV + P DS KP Y+ARV + D + W+ +++ G
Sbjct: 110 EMLEVGDCVSVIPDDSSKPLYLARVTALWEDKNGQMMFHAHWFCAGTDTVLGATS--DPL 167
Query: 81 ELFLSDHYDVQSAHTIEGKCTV 102
ELFL + I K V
Sbjct: 168 ELFLVGECENMQLSYIHSKVKV 189
Score = 31.2 bits (69), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 41/79 (51%), Gaps = 14/79 (17%)
Query: 35 DSDKPPYVARVEKIEADHRN------NVKVRVRWYYRPEESIGGRRQFHGA-----KELF 83
D+ +P + R+++I + ++K+R+ +YRPE + R ++G+ L+
Sbjct: 342 DAPEPYRIGRIKEIHCGKKKGKVNEADIKLRLYKFYRPENT---HRSYNGSYHTDINMLY 398
Query: 84 LSDHYDVQSAHTIEGKCTV 102
SD V + ++G+CTV
Sbjct: 399 WSDEEAVVNFSDVQGRCTV 417
>pdb|3AV4|A Chain A, Crystal Structure Of Mouse Dna Methyltransferase 1
pdb|3AV5|A Chain A, Crystal Structure Of Mouse Dna Methyltransferase 1 With
Adohcy
pdb|3AV6|A Chain A, Crystal Structure Of Mouse Dna Methyltransferase 1 With
Adomet
Length = 1330
Score = 36.2 bits (82), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 35/82 (42%), Gaps = 2/82 (2%)
Query: 21 KVVRPGDCVLMRPADSDKPPYVARVEKIEADHRNNVKVRVRWYYRPEESIGGRRQFHGAK 80
+++ GDCV + P DS KP Y+ARV + D + W+ +++ G
Sbjct: 468 EMLEVGDCVSVIPDDSSKPLYLARVTALWEDKNGQMMFHAHWFCAGTDTVLGATS--DPL 525
Query: 81 ELFLSDHYDVQSAHTIEGKCTV 102
ELFL + I K V
Sbjct: 526 ELFLVGECENMQLSYIHSKVKV 547
Score = 30.8 bits (68), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 29/115 (25%), Positives = 55/115 (47%), Gaps = 22/115 (19%)
Query: 35 DSDKPPYVARVEKIEADHRN------NVKVRVRWYYRPEESIGGRRQFHGA-----KELF 83
D+ +P + R+++I + ++K+R+ +YRPE + R ++G+ L+
Sbjct: 700 DAPEPYRIGRIKEIHCGKKKGKVNEADIKLRLYKFYRPENT---HRSYNGSYHTDINMLY 756
Query: 84 LSDHYDVQSAHTIEGKCTVHTFKNYTKLENV-----GAEDYFCRFE-YKAATGGF 132
SD V + ++G+CTV ++ LE++ G D F E Y + T F
Sbjct: 757 WSDEEAVVNFSDVQGRCTVEYGEDL--LESIQDYSQGGPDRFYFLEAYNSKTKNF 809
>pdb|2F6J|A Chain A, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me3 Bound State
pdb|2F6J|B Chain B, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me3 Bound State
pdb|2F6J|C Chain C, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me3 Bound State
pdb|2F6N|A Chain A, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The Free Form
pdb|2F6N|B Chain B, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The Free Form
pdb|2FSA|A Chain A, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me2 Bound State
pdb|2FSA|B Chain B, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me2 Bound State
pdb|2FSA|C Chain C, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me2 Bound State
Length = 174
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 8/24 (33%), Positives = 15/24 (62%)
Query: 139 VYCKCEMPYNPDDLMVQCEGCKDW 162
+YC C+ PY+ + C+ C++W
Sbjct: 9 LYCICKTPYDESKFYIGCDRCQNW 32
>pdb|3QZV|A Chain A, Crystal Structure Of Bptf Phd-Linker-Bromo In Complex With
Histone H4k12ac Peptide
Length = 174
Score = 28.1 bits (61), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 8/24 (33%), Positives = 15/24 (62%)
Query: 139 VYCKCEMPYNPDDLMVQCEGCKDW 162
+YC C+ PY+ + C+ C++W
Sbjct: 9 LYCICKTPYDESKFYIGCDRCQNW 32
>pdb|1WEM|A Chain A, Solution Structure Of Phd Domain In Death Inducer-
Obliterator 1(Dio-1)
Length = 76
Score = 27.7 bits (60), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 135 DRVAVYCKCEMPYNPDDLMVQCEGCKDWIY 164
D A+YC C P+N + M+ C+ C++W +
Sbjct: 13 DPNALYCICRQPHN-NRFMICCDRCEEWFH 41
>pdb|2FUI|A Chain A, Nmr Solution Structure Of Phd Finger Fragment Of Human
Bptf In Free State
pdb|2FUU|A Chain A, Nmr Solution Structure Of The Phd Domain From The Human
Bptf In Complex With H3(1-15)k4me3 Peptide
Length = 62
Score = 26.6 bits (57), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 8/24 (33%), Positives = 15/24 (62%)
Query: 139 VYCKCEMPYNPDDLMVQCEGCKDW 162
+YC C+ PY+ + C+ C++W
Sbjct: 9 LYCICKTPYDESKFYIGCDRCQNW 32
>pdb|2RCN|A Chain A, Crystal Structure Of The Ribosomal Interacting Gtpase Yjeq
From The Enterobacterial Species Salmonella Typhimurium
Length = 358
Score = 26.2 bits (56), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 5 KPGKKDLDSYNIKGTNKVVRPGDCVLMRPADSDK-PPYVARVEKI 48
+PGK + N+KG + V VL RP D P A +++I
Sbjct: 90 RPGKAAAEGVNVKGIVEAVHERTSVLTRPDFYDGVKPIAANIDQI 134
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
0.320 0.138 0.442
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,715,192
Number of Sequences: 62578
Number of extensions: 235620
Number of successful extensions: 474
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 452
Number of HSP's gapped (non-prelim): 24
length of query: 164
length of database: 14,973,337
effective HSP length: 91
effective length of query: 73
effective length of database: 9,278,739
effective search space: 677347947
effective search space used: 677347947
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 47 (22.7 bits)