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= 002270
(944 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1MM3|A Chain A, Solution Structure Of The 2nd Phd Domain From Mi2b With C-
Terminal Loop Replaced By Corresponding Loop From Wstf
Length = 61
Score = 36.2 bits (82), Expect = 0.090, Method: Composition-based stats.
Identities = 13/28 (46%), Positives = 18/28 (64%), Gaps = 2/28 (7%)
Query: 737 PSTFHQSCLDIQM--LPPGDWHCPNCTC 762
PS++H CL + +P G+W CP CTC
Sbjct: 28 PSSYHIHCLRPALYEVPDGEWQCPRCTC 55
>pdb|2YSM|A Chain A, Solution Structure Of The First And Second Phd Domain From
MyeloidLYMPHOID OR MIXED-Lineage Leukemia Protein 3
Homolog
Length = 111
Score = 33.9 bits (76), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 28/65 (43%), Gaps = 12/65 (18%)
Query: 740 FHQSCLDIQMLPP--GDWHCPNC-TCKFCGLXXXXXXXXXXXXXSALLPCAMCEKKYHKL 796
+H CLDI + P W CP C C+ C S +L C C+K YH
Sbjct: 32 YHGMCLDIAVTPLKRAGWQCPECKVCQNC---------KQSGEDSKMLVCDTCDKGYHTF 82
Query: 797 CMQEM 801
C+Q +
Sbjct: 83 CLQPV 87
>pdb|3C6W|A Chain A, Crystal Structure Of The Ing5 Phd Finger In Complex With
H3k4me3 Peptide
pdb|3C6W|C Chain C, Crystal Structure Of The Ing5 Phd Finger In Complex With
H3k4me3 Peptide
Length = 59
Score = 33.1 bits (74), Expect = 0.73, Method: Composition-based stats.
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 740 FHQSCLDIQMLPPGDWHCPNC 760
FH +C+D+ P G W CP C
Sbjct: 35 FHFACVDLTTKPKGKWFCPRC 55
>pdb|2G6Q|A Chain A, Crystal Structure Of Ing2 Phd Domain In Complex With
H3k4me3 Peptide
Length = 62
Score = 32.3 bits (72), Expect = 1.2, Method: Composition-based stats.
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 740 FHQSCLDIQMLPPGDWHCPNC 760
FH SC+ + P G W+CP C
Sbjct: 37 FHFSCVSLTYKPKGKWYCPKC 57
>pdb|1X4I|A Chain A, Solution Structure Of Phd Domain In Inhibitor Of Growth
Protein 3 (Ing3)
Length = 70
Score = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 740 FHQSCLDIQMLPPGDWHCPNCT 761
FH C+ + P G W+CP CT
Sbjct: 32 FHYGCVGLTEAPKGKWYCPQCT 53
>pdb|2L5U|A Chain A, Structure Of The First Phd Finger (Phd1) From Chd4 (Mi2b)
Length = 61
Score = 31.6 bits (70), Expect = 1.9, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 14/26 (53%), Gaps = 2/26 (7%)
Query: 737 PSTFHQSCLDIQM--LPPGDWHCPNC 760
P +H CLD M P G W CP+C
Sbjct: 30 PRAYHMVCLDPDMEKAPEGKWSCPHC 55
>pdb|3B2D|A Chain A, Crystal Structure Of Human Rp105MD-1 Complex
pdb|3B2D|B Chain B, Crystal Structure Of Human Rp105MD-1 Complex
Length = 603
Score = 31.6 bits (70), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 33/59 (55%), Gaps = 5/59 (8%)
Query: 852 DSDTSLRGLPQRVECNSKLAVALNVMDECFLPIVDRRSGINLIHNVLYNSGSNFNRLNY 910
DS + L+G+ + NS +N++ LPI+ ++S INL HN L + SN + L +
Sbjct: 515 DSLSHLKGIYLNLAANS-----INIISPRLLPILSQQSTINLSHNPLDCTCSNIHFLTW 568
>pdb|4GND|A Chain A, Crystal Structure Of Nsd3 Tandem Phd5-C5hch Domains
pdb|4GND|C Chain C, Crystal Structure Of Nsd3 Tandem Phd5-C5hch Domains
pdb|4GNE|A Chain A, Crystal Structure Of Nsd3 Tandem Phd5-C5hch Domains
Complexed With H3 Peptide 1-7
pdb|4GNF|A Chain A, Crystal Structure Of Nsd3 Tandem Phd5-C5hch Domains
Complexed With H3 Peptide 1-15
pdb|4GNG|A Chain A, Crystal Structure Of Nsd3 Tandem Phd5-C5hch Domains
Complexed With H3k9me3 Peptide
pdb|4GNG|D Chain D, Crystal Structure Of Nsd3 Tandem Phd5-C5hch Domains
Complexed With H3k9me3 Peptide
Length = 107
Score = 31.2 bits (69), Expect = 3.1, Method: Composition-based stats.
Identities = 11/29 (37%), Positives = 14/29 (48%)
Query: 737 PSTFHQSCLDIQMLPPGDWHCPNCTCKFC 765
P +H CL++ P G W CP C C
Sbjct: 36 PKAYHLLCLNLTQPPYGKWECPWHQCDEC 64
>pdb|1MM2|A Chain A, Solution Structure Of The 2nd Phd Domain From Mi2b
pdb|2L75|A Chain A, Solution Structure Of Chd4-Phd2 In Complex With H3k9me3
Length = 61
Score = 30.4 bits (67), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 19/29 (65%), Gaps = 2/29 (6%)
Query: 737 PSTFHQSCLDIQM--LPPGDWHCPNCTCK 763
PS++H CL+ + +P G+W CP CTC
Sbjct: 28 PSSYHIHCLNPPLPEIPNGEWLCPRCTCP 56
>pdb|2VNF|A Chain A, Molecular Basis Of Histone H3k4me3 Recognition By Ing4
pdb|2VNF|C Chain C, Molecular Basis Of Histone H3k4me3 Recognition By Ing4
Length = 60
Score = 30.0 bits (66), Expect = 5.9, Method: Composition-based stats.
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 740 FHQSCLDIQMLPPGDWHCPNCT 761
FH +C+ + P G W CP C+
Sbjct: 36 FHFACVGLTTKPRGKWFCPRCS 57
>pdb|1WES|A Chain A, Solution Structure Of Phd Domain In Inhibitor Of Growth
Family, Member 1-Like
Length = 71
Score = 30.0 bits (66), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 740 FHQSCLDIQMLPPGDWHCPNC 760
FH SC+ + P G W+CP C
Sbjct: 42 FHFSCVSLTYKPKGKWYCPKC 62
>pdb|2M1R|A Chain A, Phd Domain Of Ing4 N214d Mutant
Length = 63
Score = 30.0 bits (66), Expect = 6.9, Method: Composition-based stats.
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 740 FHQSCLDIQMLPPGDWHCPNCT 761
FH +C+ + P G W CP C+
Sbjct: 36 FHFACVGLTTKPRGKWFCPRCS 57
>pdb|2K1J|A Chain A, Plan Homeodomain Finger Of Tumour Supressor Ing4
Length = 63
Score = 30.0 bits (66), Expect = 6.9, Method: Composition-based stats.
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 740 FHQSCLDIQMLPPGDWHCPNCT 761
FH +C+ + P G W CP C+
Sbjct: 36 FHFACVGLTTKPRGKWFCPRCS 57
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
0.315 0.133 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,872,304
Number of Sequences: 62578
Number of extensions: 873834
Number of successful extensions: 1650
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1634
Number of HSP's gapped (non-prelim): 23
length of query: 944
length of database: 14,973,337
effective HSP length: 108
effective length of query: 836
effective length of database: 8,214,913
effective search space: 6867667268
effective search space used: 6867667268
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 56 (26.2 bits)