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= 046513
(660 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WEE|A Chain A, Solution Structure Of Phd Domain In Phd Finger Family
Protein
Length = 72
Score = 74.7 bits (182), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 34/62 (54%), Positives = 41/62 (66%)
Query: 593 EGGNDKWIVKCECGAQDDDGERMVACDICEVWQHTRCHGIEDSGTVPPLFVCPRCCSSFA 652
E G D W V C+CG +DDDGERM+ACD C VW HTRC GI ++ +P F+C RC
Sbjct: 9 ERGVDNWKVDCKCGTKDDDGERMLACDGCGVWHHTRCIGINNADALPSKFLCFRCIELSG 68
Query: 653 PS 654
PS
Sbjct: 69 PS 70
>pdb|2LV9|A Chain A, Solution Nmr Structure Of The Phd Domain Of Human Mll5,
Northeast Structural Genomics Consortium Target Hr6512a
Length = 98
Score = 46.6 bits (109), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 22/48 (45%), Positives = 28/48 (58%), Gaps = 2/48 (4%)
Query: 600 IVKCECGAQDDDGERMVACDICEVWQHTRCHGIEDSGTVPPLFVCPRC 647
+ +C CG DDG M+ CD C VWQH C GI D +P ++C RC
Sbjct: 28 VTRCICGFTHDDGY-MICCDKCSVWQHIDCMGI-DRQHIPDTYLCERC 73
>pdb|2K16|A Chain A, Solution Structure Of The Free Taf3 Phd Domain
pdb|2K17|A Chain A, Solution Structure Of The Taf3 Phd Domain In Complex With
A H3k4me3 Peptide
Length = 75
Score = 40.0 bits (92), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/58 (37%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 590 LRYEGGNDKWIVKCECGAQDDDGERMVACDICEVWQHTRCHGIEDSGTVPPLFVCPRC 647
+R E GN WI C + DDG M+ CD C+ W H C GI + + CP+C
Sbjct: 10 IRDEWGNQIWI--CPGCNKPDDGSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKC 65
>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 = 40.0 bits (92), Expect = 0.004, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 603 CECGAQDDDGERMVACDICEVWQHTRCHGI-EDSGTVPPLFVCPRCCSS 650
C C D+ + + CD C+ W H RC GI + + +VCP+C S+
Sbjct: 11 CICKTPYDESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQST 59
>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 = 38.9 bits (89), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 601 VKCECGAQDDDGERMVACDICEVWQHTRCHGIEDSGTVP-PLFVCPRC 647
V C C D M+ CDIC+ W H C G+E+ V L+ CP C
Sbjct: 38 VYCVCRQPYDVNRFMIECDICKDWFHGSCVGVEEHHAVDIDLYHCPNC 85
>pdb|2RI7|A Chain A, Crystal Structure Of Phd Finger-Linker-Bromodomain Y17e
Mutant From Human Bptf In The H3(1-9)k4me2 Bound State
Length = 174
Score = 38.9 bits (89), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 603 CECGAQDDDGERMVACDICEVWQHTRCHGI-EDSGTVPPLFVCPRCCSS 650
C C +D+ + + CD C+ W H RC GI + + +VCP+C S+
Sbjct: 11 CICKTPEDESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQST 59
>pdb|3QZV|A Chain A, Crystal Structure Of Bptf Phd-Linker-Bromo In Complex With
Histone H4k12ac Peptide
Length = 174
Score = 37.4 bits (85), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 603 CECGAQDDDGERMVACDICEVWQHTRCHGI-EDSGTVPPLFVCPRCCSS 650
C C D+ + + CD C+ W H RC GI + + +VCP+C S+
Sbjct: 11 CICKTPYDESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQST 59
>pdb|3KV4|A Chain A, Structure Of Phf8 In Complex With Histone H3
Length = 447
Score = 37.0 bits (84), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 25/55 (45%), Gaps = 1/55 (1%)
Query: 601 VKCECGAQDDDGERMVACDICEVWQHTRCHGIEDSGTVP-PLFVCPRCCSSFAPS 654
V C C D M+ CD+C+ W H C G+E+ L+ CP C PS
Sbjct: 6 VYCLCRLPYDVTRFMIECDMCQDWFHGSCVGVEEEKAADIDLYHCPNCEVLHGPS 60
>pdb|1WEP|A Chain A, Solution Structure Of Phd Domain In Phf8
Length = 79
Score = 34.7 bits (78), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 1/55 (1%)
Query: 601 VKCECGAQDDDGERMVACDICEVWQHTRCHGIEDSGTVP-PLFVCPRCCSSFAPS 654
V C C + M+ C +C+ W H C GIE+ V ++ CP C + F PS
Sbjct: 13 VYCLCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVFGPS 67
>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 = 33.9 bits (76), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 603 CECGAQDDDGERMVACDICEVWQHTRCHGI-EDSGTVPPLFVCPRC 647
C C D+ + + CD C+ W H RC GI + + +VCP+C
Sbjct: 11 CICKTPYDESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQC 56
>pdb|3O70|A Chain A, Phd-Type Zinc Finger Of Human Phd Finger Protein 13
Length = 68
Score = 33.1 bits (74), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 24/48 (50%), Gaps = 2/48 (4%)
Query: 600 IVKCECGAQDDDGERMVACDICEVWQHTRCHGIEDSGTVPPLFVCPRC 647
+V C C + G M+ C+ C W H C I S VP +FVC +C
Sbjct: 19 LVTCFC-MKPFAGRPMIECNECHTWIHLSCAKIRKSN-VPEVFVCQKC 64
>pdb|3O7A|A Chain A, Crystal Structure Of Phf13 In Complex With H3k4me3
Length = 52
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 612 GERMVACDICEVWQHTRCHGIEDSGTVPPLFVCPRC 647
G M+ C+ C W H C I S VP +FVC +C
Sbjct: 15 GRPMIECNECHTWIHLSCAKIRKSN-VPEVFVCQKC 49
>pdb|3N9L|A Chain A, Cekdm7a From C.Elegans, Complex With H3k4me3 Peptide And
Nog
pdb|3N9M|A Chain A, Cekdm7a From C.Elegans, Alone
pdb|3N9M|C Chain C, Cekdm7a From C.Elegans, Alone
pdb|3N9N|A Chain A, Cekdm7a From C.Elegans, Complex With H3k4me3k9me2 Peptide
And Nog
pdb|3N9O|A Chain A, Cekdm7a From C.Elegans, Complex With H3k4me3 Peptide,
H3k9me2 Peptide And Nog
pdb|3N9P|A Chain A, Cekdm7a From C.Elegans, Complex With H3k4me3k27me2 Peptide
And Nog
pdb|3N9Q|A Chain A, Cekdm7a From C.Elegans, Complex With H3k4me3 Peptide,
H3k27me2 Peptide And Nog
pdb|3PUQ|A Chain A, Cekdm7a From C.Elegans, Complex With Alpha-Kg
pdb|3PUQ|C Chain C, Cekdm7a From C.Elegans, Complex With Alpha-Kg
pdb|3PUR|A Chain A, Cekdm7a From C.Elegans, Complex With D-2-Hg
pdb|3PUR|C Chain C, Cekdm7a From C.Elegans, Complex With D-2-Hg
Length = 528
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
Query: 616 VACDICEVWQHTRCHGIED-SGTVPPLFVCPRCC 648
+ CD C+ W H C G+E + F CP+C
Sbjct: 59 IGCDSCQTWYHFLCSGLEQFEYYLYEKFFCPKCV 92
>pdb|2RSD|A Chain A, Solution Structure Of The Plant Homeodomain (Phd) Of The
E3 Sumo Ligase Siz1 From Rice
Length = 68
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 22/42 (52%), Gaps = 6/42 (14%)
Query: 612 GERMVACD--ICEVWQHTRCHGIED----SGTVPPLFVCPRC 647
+ M+ C+ C+VWQH C I D S VPP+F C C
Sbjct: 21 NDSMIQCEDQRCQVWQHLNCVLIPDKPGESAEVPPVFYCELC 62
>pdb|1ZED|A Chain A, Alkaline Phosphatase From Human Placenta In Complex With
P- Nitrophenyl-Phosphonate
Length = 484
Score = 30.8 bits (68), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 38/70 (54%), Gaps = 3/70 (4%)
Query: 475 LDSKHFVKEWPFRDEDDQFLRFKCQVMPSFVD-SETDLTGKLPPGELVMIPLHSTVLE-- 531
LD K+ V+EW + + +++ + ++M + +D S T L G PG++ + L+
Sbjct: 228 LDGKNLVQEWLAKRQGARYVWNRTELMQASLDPSVTHLMGLFEPGDMKYEIHRDSTLDPS 287
Query: 532 LKEAAESALR 541
L E E+ALR
Sbjct: 288 LMEMTEAALR 297
>pdb|3MK0|A Chain A, Refinement Of Placental Alkaline Phosphatase Complexed
With Nitrophenyl
pdb|3MK1|A Chain A, Refinement Of Placental Alkaline Phosphatase Complexed
With Nitrophenyl
pdb|3MK2|A Chain A, Placental Alkaline Phosphatase Complexed With Phe
pdb|2GLQ|A Chain A, X-Ray Structure Of Human Alkaline Phosphatase In Complex
With Strontium
pdb|1ZEF|A Chain A, Structure Of Alkaline Phosphatase From Human Placenta In
Complex With Its Uncompetitive Inhibitor L-Phe
pdb|1ZEB|A Chain A, X-ray Structure Of Alkaline Phosphatase From Human
Placenta In Complex With 5'-amp
Length = 484
Score = 30.8 bits (68), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 38/70 (54%), Gaps = 3/70 (4%)
Query: 475 LDSKHFVKEWPFRDEDDQFLRFKCQVMPSFVD-SETDLTGKLPPGELVMIPLHSTVLE-- 531
LD K+ V+EW + + +++ + ++M + +D S T L G PG++ + L+
Sbjct: 228 LDGKNLVQEWLAKRQGARYVWNRTELMQASLDPSVTHLMGLFEPGDMKYEIHRDSTLDPS 287
Query: 532 LKEAAESALR 541
L E E+ALR
Sbjct: 288 LMEMTEAALR 297
>pdb|3JXP|A Chain A, Crystal Structure Of The Coenzyme Pqq Synthesis Protein
(pqqb) From Pseudomonas Putida
Length = 321
Score = 30.4 bits (67), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 16/67 (23%), Positives = 29/67 (43%), Gaps = 8/67 (11%)
Query: 25 MESGCPISPTGAFRDNVRQFLSACGELEDYKVEGMS--------IWCTLLVHESSSIVFP 76
+++ P+ P A RD + D+ +S +WCT +VH+ + FP
Sbjct: 66 LQAFAPMQPARALRDTGINAIVLLDSQIDHTTGLLSLREGCPHQVWCTDMVHQDLTTGFP 125
Query: 77 LYTIEEH 83
L+ + H
Sbjct: 126 LFNMLSH 132
>pdb|1EW2|A Chain A, Crystal Structure Of A Human Phosphatase
Length = 513
Score = 30.4 bits (67), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 38/70 (54%), Gaps = 3/70 (4%)
Query: 475 LDSKHFVKEWPFRDEDDQFLRFKCQVMPSFVD-SETDLTGKLPPGELVMIPLHSTVLE-- 531
LD K+ V+EW + + +++ + ++M + +D S T L G PG++ + L+
Sbjct: 228 LDGKNLVQEWLAKRQGARYVWNRTELMQASLDPSVTHLMGLFEPGDMKYEIHRDSTLDPS 287
Query: 532 LKEAAESALR 541
L E E+ALR
Sbjct: 288 LMEMTEAALR 297
>pdb|3KQI|A Chain A, Crystal Structure Of Phf2 Phd Domain Complexed With
H3k4me3 Peptide
Length = 75
Score = 29.3 bits (64), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 22/48 (45%), Gaps = 1/48 (2%)
Query: 601 VKCECGAQDDDGERMVACDICEVWQHTRCHGIEDSGTVP-PLFVCPRC 647
V C C D M+ CD C+ W H C G+E+ ++ CP C
Sbjct: 11 VYCVCRLPYDVTRFMIECDACKDWFHGSCVGVEEEEAPDIDIYHCPNC 58
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
0.321 0.137 0.430
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,972,931
Number of Sequences: 62578
Number of extensions: 836410
Number of successful extensions: 1792
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1774
Number of HSP's gapped (non-prelim): 24
length of query: 660
length of database: 14,973,337
effective HSP length: 105
effective length of query: 555
effective length of database: 8,402,647
effective search space: 4663469085
effective search space used: 4663469085
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: 55 (25.8 bits)