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= 013355
(444 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1M7X|A Chain A, The X-Ray Crystallographic Structure Of Branching Enzyme
pdb|1M7X|B Chain B, The X-Ray Crystallographic Structure Of Branching Enzyme
pdb|1M7X|C Chain C, The X-Ray Crystallographic Structure Of Branching Enzyme
pdb|1M7X|D Chain D, The X-Ray Crystallographic Structure Of Branching Enzyme
Length = 617
Score = 34.3 bits (77), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 25/97 (25%), Positives = 36/97 (37%), Gaps = 12/97 (12%)
Query: 264 DNSFLLTS---------YAIWCGSIEMLSLDTSSKFYDGFWAYLPCKIHRKVLEFS--KE 312
DN+F L+ YA W G + L + +DG W Y P ++ F +
Sbjct: 147 DNNFWLSYRELADQLVPYAKWMGFTHLELLPINEHPFDGSWGYQPTGLYAPTRRFGTRDD 206
Query: 313 MPGVISCSSVPCCNISLEVFQNDMPNIDDIALIFFPG 349
I + N+ L+ P DD AL F G
Sbjct: 207 FRYFIDAAHAAGLNVILDWVPGHFP-TDDFALAEFDG 242
>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 = 32.0 bits (71), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 28/55 (50%), Gaps = 3/55 (5%)
Query: 38 MLQVKPCDICGDGGWPEQIATCYLCKSAREHIYCMKFLLFSRPIV--WFCEECRS 90
+ +V C +CG P++ C C A HIYC+ L S P W+C ECR+
Sbjct: 187 LCRVCACHLCGGRQDPDKQLMCDECDMAF-HIYCLDPPLSSVPSEDEWYCPECRN 240
>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 = 32.0 bits (71), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 28/55 (50%), Gaps = 3/55 (5%)
Query: 38 MLQVKPCDICGDGGWPEQIATCYLCKSAREHIYCMKFLLFSRPIV--WFCEECRS 90
+ +V C +CG P++ C C A HIYC+ L S P W+C ECR+
Sbjct: 171 LCRVCACHLCGGRQDPDKQLMCDECDMAF-HIYCLDPPLSSVPSEDEWYCPECRN 224
>pdb|2L5L|A Chain A, Solution Structure Of Thioredoxin From Bacteroides
Vulgatus
Length = 136
Score = 31.6 bits (70), Expect = 0.81, Method: Composition-based stats.
Identities = 20/64 (31%), Positives = 31/64 (48%), Gaps = 7/64 (10%)
Query: 262 EPDNSFLLTSYAIWCGSIEMLS--LDTSSKFYDGFWAYLPCKIHRKVLEFSKEMPGVISC 319
E D ++ YA WCG +M++ LD +K YDG I++ E +E+ G
Sbjct: 36 EGDKPAIVDFYADWCGPCKMVAPILDELAKEYDG-----QIVIYKVDTEKEQELAGAFGI 90
Query: 320 SSVP 323
S+P
Sbjct: 91 RSIP 94
>pdb|3ZVZ|B Chain B, Phd Finger Of Human Uhrf1
Length = 57
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 22/58 (37%), Positives = 30/58 (51%), Gaps = 5/58 (8%)
Query: 35 GHFMLQVKPCDICGDGGWPEQIATCYLCKSAREHIYCMKFLLFSRPIV--WFCEECRS 90
GH ++V C +CG P++ C C A HIYC+ L S P W+C ECR+
Sbjct: 1 GH--MRVCACHLCGGRQDPDKQLMCDECDMAF-HIYCLDPPLSSVPSEDEWYCPECRN 55
>pdb|3SHB|A Chain A, Crystal Structure Of Phd Domain Of Uhrf1
Length = 77
Score = 30.4 bits (67), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 28/55 (50%), Gaps = 3/55 (5%)
Query: 38 MLQVKPCDICGDGGWPEQIATCYLCKSAREHIYCMKFLLFSRPIV--WFCEECRS 90
+ +V C +CG P++ C C A HIYC+ L S P W+C ECR+
Sbjct: 23 LCRVCACHLCGGRQDPDKQLMCDECDMAF-HIYCLDPPLSSVPSEDEWYCPECRN 76
>pdb|3I4E|A Chain A, Crystal Structure Of Isocitrate Lyase From Burkholderia
Pseudomallei
pdb|3I4E|B Chain B, Crystal Structure Of Isocitrate Lyase From Burkholderia
Pseudomallei
pdb|3I4E|C Chain C, Crystal Structure Of Isocitrate Lyase From Burkholderia
Pseudomallei
pdb|3I4E|D Chain D, Crystal Structure Of Isocitrate Lyase From Burkholderia
Pseudomallei
Length = 439
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 39/80 (48%), Gaps = 7/80 (8%)
Query: 184 GIEEIHSITQQQVLQTSKELKGKNWIVCKEEPVEILEAMGSRVEVAADITPPPSVNALPI 243
G +H Q ++ + GK + +E ++ A +AAD+ P+V L
Sbjct: 180 GASGVHFEDQLASVKKCGHMGGKVLVPTREAVAKLTAA-----RLAADVMGTPTV--LVA 232
Query: 244 ISSAQSFDIQTSNLDPNDEP 263
+ A++ D+ TS++D ND+P
Sbjct: 233 RTDAEAADLITSDIDDNDKP 252
>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 = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 28/55 (50%), Gaps = 3/55 (5%)
Query: 38 MLQVKPCDICGDGGWPEQIATCYLCKSAREHIYCMKFLLFSRPIV--WFCEECRS 90
+ +V C +CG P++ C C A HIYC+ L S P W+C ECR+
Sbjct: 15 LCRVCACHLCGGRQDPDKQLMCDECDMAF-HIYCLDPPLSSVPSEDEWYCPECRN 68
>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 = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 28/55 (50%), Gaps = 3/55 (5%)
Query: 38 MLQVKPCDICGDGGWPEQIATCYLCKSAREHIYCMKFLLFSRPIV--WFCEECRS 90
+ +V C +CG P++ C C A HIYC+ L S P W+C ECR+
Sbjct: 15 LCRVCACHLCGGRQDPDKQLMCDECDMAF-HIYCLDPPLSSVPSEDEWYCPECRN 68
>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 = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 28/55 (50%), Gaps = 3/55 (5%)
Query: 38 MLQVKPCDICGDGGWPEQIATCYLCKSAREHIYCMKFLLFSRPIV--WFCEECRS 90
+ +V C +CG P++ C C A HIYC+ L S P W+C ECR+
Sbjct: 17 LCRVCACHLCGGRQDPDKQLMCDECDMAF-HIYCLDPPLSSVPSEDEWYCPECRN 70
>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 = 29.6 bits (65), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 38 MLQVKPCDICGDGGWPEQIATCYLCKSAREHIYCMKFLLFSRPIV--WFCEECR 89
+ +V C +CG P++ C C A HIYC+ L S P W+C ECR
Sbjct: 20 LCRVCACHLCGGRQDPDKQLMCDECDMAF-HIYCLDPPLSSVPSEDEWYCPECR 72
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 0.135 0.419
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,709,844
Number of Sequences: 62578
Number of extensions: 499216
Number of successful extensions: 1339
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 1337
Number of HSP's gapped (non-prelim): 14
length of query: 444
length of database: 14,973,337
effective HSP length: 102
effective length of query: 342
effective length of database: 8,590,381
effective search space: 2937910302
effective search space used: 2937910302
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: 53 (25.0 bits)