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= psy11049
(237 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2L43|A Chain A, Structural Basis For Histone Code Recognition By
Brpf2-Phd1 Finger
Length = 88
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 21/47 (44%), Positives = 28/47 (59%), Gaps = 2/47 (4%)
Query: 43 CCVCSDDSGWAENPLVYCDGQGCNVAVHQACYGIVTVPVGSWFCRKC 89
C +C D N +++CD CN+AVHQ CYG+ +P G W CR C
Sbjct: 28 CSICMDGESQNSNVILFCDM--CNLAVHQECYGVPYIPEGQWLCRHC 72
>pdb|2KU3|A Chain A, Solution Structure Of Brd1 Phd1 Finger
Length = 71
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 21/47 (44%), Positives = 28/47 (59%), Gaps = 2/47 (4%)
Query: 43 CCVCSDDSGWAENPLVYCDGQGCNVAVHQACYGIVTVPVGSWFCRKC 89
C +C D N +++CD CN+AVHQ CYG+ +P G W CR C
Sbjct: 19 CSICMDGESQNSNVILFCDM--CNLAVHQECYGVPYIPEGQWLCRHC 63
>pdb|2LQ6|A Chain A, Solution Structure Of Brd1 Phd2 Finger
Length = 87
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 33/74 (44%), Gaps = 14/74 (18%)
Query: 150 RFNKVCYICEENGHKASRSKFGACMMCNKPGCRQQFHVTCAQTQGLLCE-------EAGN 202
R+ CY+C++ G GA + C+K C FHVTCAQ GL + G
Sbjct: 15 RWKLTCYLCKQKG-------VGASIQCHKANCYTAFHVTCAQKAGLYMKMEPVKELTGGG 67
Query: 203 YLDNVKYCGYCSHH 216
+V+ YC H
Sbjct: 68 TTFSVRKTAYCDVH 81
>pdb|2K1J|A Chain A, Plan Homeodomain Finger Of Tumour Supressor Ing4
Length = 63
Score = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 25/42 (59%), Gaps = 2/42 (4%)
Query: 57 LVYCDGQGCNVA-VHQACYGIVTVPVGSWFCRKCESQEKSTK 97
++ CD C++ H AC G+ T P G WFC +C SQE+ K
Sbjct: 23 MIGCDNPDCSIEWFHFACVGLTTKPRGKWFCPRC-SQERKKK 63
>pdb|2M1R|A Chain A, Phd Domain Of Ing4 N214d Mutant
Length = 63
Score = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 25/42 (59%), Gaps = 2/42 (4%)
Query: 57 LVYCDGQGCNVA-VHQACYGIVTVPVGSWFCRKCESQEKSTK 97
++ CD C++ H AC G+ T P G WFC +C SQE+ K
Sbjct: 23 MIGCDDPDCSIEWFHFACVGLTTKPRGKWFCPRC-SQERKKK 63
>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 = 35.4 bits (80), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 24/39 (61%), Gaps = 2/39 (5%)
Query: 57 LVYCDGQGCNVA-VHQACYGIVTVPVGSWFCRKCESQEK 94
++ CD C++ H AC G+ T P G WFC +C SQE+
Sbjct: 23 MIGCDNPDCSIEWFHFACVGLTTKPRGKWFCPRC-SQER 60
>pdb|2PNX|A Chain A, The Phd Finger Of Ing4 In Complex With An H3k4me3
Histone Peptide
pdb|2PNX|C Chain C, The Phd Finger Of Ing4 In Complex With An H3k4me3
Histone Peptide
Length = 55
Score = 35.0 bits (79), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 24/39 (61%), Gaps = 2/39 (5%)
Query: 57 LVYCDGQGCNVA-VHQACYGIVTVPVGSWFCRKCESQEK 94
++ CD C++ H AC G+ T P G WFC +C SQE+
Sbjct: 18 MIGCDNPDCSIEWFHFACVGLTTKPRGKWFCPRC-SQER 55
>pdb|1X4I|A Chain A, Solution Structure Of Phd Domain In Inhibitor Of Growth
Protein 3 (Ing3)
Length = 70
Score = 34.7 bits (78), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 30/65 (46%), Gaps = 4/65 (6%)
Query: 42 GCCVCSDDSGWAENPLVYCDGQGCNVA-VHQACYGIVTVPVGSWFCRKCESQEKSTKVRC 100
G C+C+ S +V CD Q C + H C G+ P G W+C +C + K R
Sbjct: 7 GYCICNQVS---YGEMVGCDNQDCPIEWFHYGCVGLTEAPKGKWYCPQCTAAMKRRGSRH 63
Query: 101 ELCPS 105
+ PS
Sbjct: 64 KSGPS 68
>pdb|1WEU|A Chain A, Solution Structure Of Phd Domain In Ing1-Like Protein
Bac25009
Length = 91
Score = 34.7 bits (78), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 23/39 (58%), Gaps = 2/39 (5%)
Query: 57 LVYCDGQGCNVA-VHQACYGIVTVPVGSWFCRKCESQEK 94
++ CD C++ H AC G+ T P G WFC +C SQE
Sbjct: 49 MIGCDNPDCSIEWFHFACVGLTTKPRGKWFCPRC-SQES 86
>pdb|1WEN|A Chain A, Solution Structure Of Phd Domain In Ing1-Like Protein
Bac25079
Length = 71
Score = 34.7 bits (78), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 23/39 (58%), Gaps = 2/39 (5%)
Query: 57 LVYCDGQGCNVA-VHQACYGIVTVPVGSWFCRKCESQEK 94
++ CD C++ H AC G+ T P G WFC +C SQE
Sbjct: 29 MIGCDNPDCSIEWFHFACVGLTTKPRGKWFCPRC-SQES 66
>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 = 33.9 bits (76), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 22/50 (44%), Gaps = 2/50 (4%)
Query: 57 LVYCDGQGCNVAVHQACYGIVTVPVGSWFC--RKCESQEKSTKVRCELCP 104
LV CD + C A H C + P G W C +C+ + CE CP
Sbjct: 27 LVMCDKKDCPKAYHLLCLNLTQPPYGKWECPWHQCDECSSAAVSFCEFCP 76
>pdb|2HUC|A Chain A, Structural Studies Examining The Substrate Specificity
Profiles Of Pc-Plcbc Protein Variants
Length = 245
Score = 32.7 bits (73), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 18/42 (42%)
Query: 63 QGCNVAVHQACYGIVTVPVGSWFCRKCESQEKSTKVRCELCP 104
G V Q GIV WF + SQE + K R E+ P
Sbjct: 177 HGAAVVAKQDYSGIVNDNTKDWFVKAAVSQEYADKWRAEVTP 218
>pdb|1AH7|A Chain A, Phospholipase C From Bacillus Cereus
Length = 245
Score = 32.7 bits (73), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 18/42 (42%)
Query: 63 QGCNVAVHQACYGIVTVPVGSWFCRKCESQEKSTKVRCELCP 104
G V Q GIV WF + SQE + K R E+ P
Sbjct: 177 HGAAVVAKQDYSGIVNDNTKDWFVKAAVSQEYADKWRAEVTP 218
>pdb|2FGN|A Chain A, Structural Studies Examining The Substrate Specificity
Profiles Of Pc-Plcbc Protein Variants
Length = 245
Score = 32.7 bits (73), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 18/42 (42%)
Query: 63 QGCNVAVHQACYGIVTVPVGSWFCRKCESQEKSTKVRCELCP 104
G V Q GIV WF + SQE + K R E+ P
Sbjct: 177 HGAAVVAKQDYSGIVNDNTKDWFVKAAVSQEYADKWRAEVTP 218
>pdb|2FFZ|A Chain A, Structural Studies Examining The Substrate Specificity
Profiles Of Pc-Plcbc Protein Variants
Length = 245
Score = 32.7 bits (73), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 18/42 (42%)
Query: 63 QGCNVAVHQACYGIVTVPVGSWFCRKCESQEKSTKVRCELCP 104
G V Q GIV WF + SQE + K R E+ P
Sbjct: 177 HGAAVVAKQDYSGIVNDNTKDWFVKAAVSQEYADKWRAEVTP 218
>pdb|1P5X|A Chain A, Structure Of The D55n Mutant Of Phospholipase C From
Bacillus Cereus
pdb|1P6D|A Chain A, Structure Of The D55n Mutant Of Phospholipase C From
Bacillus Cereus In Complex With (3s)-3,4,di-n-
Hexanoyloxybutyl-1-phosphocholine
pdb|1P6E|A Chain A, Structure Of The D55n Mutant Of Phospholipase C From
Bacillus Cereus In Complex With 1,2-di-n-pentanoyl-sn-
Glycero-3-dithiophosphocholine
Length = 245
Score = 32.7 bits (73), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 18/42 (42%)
Query: 63 QGCNVAVHQACYGIVTVPVGSWFCRKCESQEKSTKVRCELCP 104
G V Q GIV WF + SQE + K R E+ P
Sbjct: 177 HGAAVVAKQDYSGIVNDNTKDWFVKAAVSQEYADKWRAEVTP 218
>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 = 30.8 bits (68), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 21/39 (53%), Gaps = 2/39 (5%)
Query: 57 LVYCDGQGCNVA-VHQACYGIVTVPVGSWFCRKCESQEK 94
++ CD C + H AC + T P G WFC +C QEK
Sbjct: 22 MIGCDNPDCPIEWFHFACVDLTTKPKGKWFCPRC-VQEK 59
>pdb|2JMI|A Chain A, Nmr Solution Structure Of Phd Finger Fragment Of Yeast
Yng1 Protein In Free State
pdb|2JMJ|A Chain A, Nmr Solution Structure Of The Phd Domain From The Yeast
Yng1 Protein In Complex With H3(1-9)k4me3 Peptide
Length = 90
Score = 30.8 bits (68), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 56 PLVYCDGQGCNVA-VHQACYGIVTVPVGSWFCRK 88
P+V CD C H C G+ P G W+C K
Sbjct: 38 PMVACDNPACPFEWFHYGCVGLKQAPKGKWYCSK 71
>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 = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 4/45 (8%)
Query: 55 NPLVYCDGQGCNVAVHQACYGIVTVPVGS--WFCRKCESQEKSTK 97
+P++ CD C+ H C GI+ P WFC KC ++ K K
Sbjct: 31 SPMIGCDD--CDDWYHWPCVGIMAAPPEEMQWFCPKCANKIKKDK 73
>pdb|2QIC|A Chain A, Crystal Structure Of The Ing1 Phd Finger In Complex With
A Histone H3k4me3 Peptide
Length = 62
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 57 LVYCDGQGCNVA-VHQACYGIVTVPVGSWFCRKCESQEK 94
++ CD C + H +C G+ P G W+C KC + +
Sbjct: 24 MIGCDNDECPIEWFHFSCVGLNHKPKGKWYCPKCRGENE 62
>pdb|2G6Q|A Chain A, Crystal Structure Of Ing2 Phd Domain In Complex With
H3k4me3 Peptide
Length = 62
Score = 27.7 bits (60), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 11/34 (32%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 57 LVYCDGQGCNVA-VHQACYGIVTVPVGSWFCRKC 89
++ CD + C + H +C + P G W+C KC
Sbjct: 24 MIGCDNEQCPIEWFHFSCVSLTYKPKGKWYCPKC 57
>pdb|1WES|A Chain A, Solution Structure Of Phd Domain In Inhibitor Of Growth
Family, Member 1-Like
Length = 71
Score = 27.7 bits (60), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 11/34 (32%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 57 LVYCDGQGCNVA-VHQACYGIVTVPVGSWFCRKC 89
++ CD + C + H +C + P G W+C KC
Sbjct: 29 MIGCDNEQCPIEWFHFSCVSLTYKPKGKWYCPKC 62
>pdb|2YT5|A Chain A, Solution Structure Of The Phd Domain Of Metal-Response
Element-Binding Transcription Factor 2
Length = 66
Score = 27.3 bits (59), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 26/54 (48%), Gaps = 7/54 (12%)
Query: 41 GGCCVCSDDSGWAENPLVYCDGQGCNVAVHQACYG--IVTVPVGS---WFCRKC 89
G C +C ++ A N +V CD C HQ C+ I + + S W CR+C
Sbjct: 7 GVCTICQEEYSEAPNEMVICD--KCGQGYHQLCHTPHIDSSVIDSDEKWLCRQC 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
0.323 0.138 0.485
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,758,143
Number of Sequences: 62578
Number of extensions: 309634
Number of successful extensions: 602
Number of sequences better than 100.0: 34
Number of HSP's better than 100.0 without gapping: 27
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 566
Number of HSP's gapped (non-prelim): 39
length of query: 237
length of database: 14,973,337
effective HSP length: 96
effective length of query: 141
effective length of database: 8,965,849
effective search space: 1264184709
effective search space used: 1264184709
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 50 (23.9 bits)