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= 000398
(1570 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 = 0.16, 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|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 = 35.8 bits (81), Expect = 0.17, Method: Composition-based stats.
Identities = 13/28 (46%), Positives = 19/28 (67%), Gaps = 2/28 (7%)
Query: 737 PSTFHQSCLD--IQMLPPGDWHCPNCTC 762
PS++H CL+ + +P G+W CP CTC
Sbjct: 28 PSSYHIHCLNPPLPEIPNGEWLCPRCTC 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 = 0.80, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 28/65 (43%), Gaps = 12/65 (18%)
Query: 740 FHQSCLDIQMLP--PGDWHCPNC-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|3ZW5|A Chain A, Crystal Structure Of The Human Glyoxalase Domain-Containing
Protein 5
pdb|3ZW5|B Chain B, Crystal Structure Of The Human Glyoxalase Domain-Containing
Protein 5
Length = 147
Score = 33.5 bits (75), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 25/45 (55%), Gaps = 1/45 (2%)
Query: 1435 ELENKSAEPKSASETECLVSETDLKEPHMQHEWSSDSPFEDNSLP 1479
E E K+A P S CL++E L+E +QH + D P E+ +P
Sbjct: 78 EFEPKAAHPVPGSLDICLITEVPLEE-MIQHLKACDVPIEEGPVP 121
>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 = 1.3, 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|1LLA|A Chain A, Crystal Structure Of Deoxygenated Limulus Polyphemus Subunit
Ii Hemocyanin At 2.18 Angstroms Resolution: Clues For A
Mechanism For Allosteric Regulation
pdb|1NOL|A Chain A, Oxygenated Hemocyanin (Subunit Type Ii)
Length = 628
Score = 33.1 bits (74), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 45/169 (26%), Positives = 76/169 (44%), Gaps = 18/169 (10%)
Query: 982 LMHTWTRVFG--FTSLEESLKQEMRSLNMLVFPGIDMLQKLLLEQEGIKENISASQGSKQ 1039
+ + W R F + +LK ++L FP I +Q + L +N+ ++
Sbjct: 359 IFYNWHRFIDNIFHEYKNTLKP--YDHDVLNFPDI-QVQDVTLHAR--VDNV-VHTFMRE 412
Query: 1040 KELEVKHEITPEMENKADLDSSTEHDSHKSSAY-VSVEGTCADSKSAD-KIECASDGKCL 1097
+ELE+KH I P N + + H H+ +Y V+V+ A K A +I A L
Sbjct: 413 QELELKHGINP--GNARSIKARYYHLDHEPFSYAVNVQNNSASDKHATVRIFLAPKYDEL 470
Query: 1098 SNS-ETSQIRDTEIKPESDSTDVDITQSSKEVVMDVDHAIDVNVAASHE 1145
N + ++R T I+ + TD+ K V V H++D +V SH+
Sbjct: 471 GNEIKADELRRTAIELDKFKTDL---HPGKNTV--VRHSLDSSVTLSHQ 514
>pdb|1OXY|A Chain A, Crystallographic Analysis Of Oxygenated And Deoxygenated
States Of Arthropod Hemocyanin Shows Unusual Differences
Length = 628
Score = 33.1 bits (74), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 45/169 (26%), Positives = 76/169 (44%), Gaps = 18/169 (10%)
Query: 982 LMHTWTRVFG--FTSLEESLKQEMRSLNMLVFPGIDMLQKLLLEQEGIKENISASQGSKQ 1039
+ + W R F + +LK ++L FP I +Q + L +N+ ++
Sbjct: 359 IFYNWHRFIDNIFHEYKNTLKP--YDHDVLNFPDI-QVQDVTLHAR--VDNV-VHTFMRE 412
Query: 1040 KELEVKHEITPEMENKADLDSSTEHDSHKSSAY-VSVEGTCADSKSAD-KIECASDGKCL 1097
+ELE+KH I P N + + H H+ +Y V+V+ A K A +I A L
Sbjct: 413 QELELKHGINP--GNARSIKAKYYHLDHEPFSYAVNVQNNSASDKHATVRIFLAPKYDEL 470
Query: 1098 SNS-ETSQIRDTEIKPESDSTDVDITQSSKEVVMDVDHAIDVNVAASHE 1145
N + ++R T I+ + TD+ K V V H++D +V SH+
Sbjct: 471 GNEIKADELRRTAIELDKFKTDL---HPGKNTV--VRHSLDSSVTLSHQ 514
>pdb|1LL1|A Chain A, Hydroxo Bridge Met Form Hemocyanin From Limulus
Length = 628
Score = 33.1 bits (74), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 45/169 (26%), Positives = 76/169 (44%), Gaps = 18/169 (10%)
Query: 982 LMHTWTRVFG--FTSLEESLKQEMRSLNMLVFPGIDMLQKLLLEQEGIKENISASQGSKQ 1039
+ + W R F + +LK ++L FP I +Q + L +N+ ++
Sbjct: 359 IFYNWHRFIDNIFHEYKNTLKP--YDHDVLNFPDI-QVQDVTLHAR--VDNV-VHTFMRE 412
Query: 1040 KELEVKHEITPEMENKADLDSSTEHDSHKSSAY-VSVEGTCADSKSAD-KIECASDGKCL 1097
+ELE+KH I P N + + H H+ +Y V+V+ A K A +I A L
Sbjct: 413 QELELKHGINP--GNARSIKARYYHLDHEPFSYAVNVQNNSASDKHATVRIFLAPKYDEL 470
Query: 1098 SNS-ETSQIRDTEIKPESDSTDVDITQSSKEVVMDVDHAIDVNVAASHE 1145
N + ++R T I+ + TD+ K V V H++D +V SH+
Sbjct: 471 GNEIKADELRRTAIELDKFKTDL---HPGKNTV--VRHSLDSSVTLSHQ 514
>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 = 32.7 bits (73), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 44/89 (49%), Gaps = 5/89 (5%)
Query: 852 DSDTSLRGLPQRVECNSKLAVALNVMDECFLPIVDRRSGINLIHNVLYNSGSNFNRLNYS 911
DS + L+G+ + NS +N++ LPI+ ++S INL HN L + SN + L +
Sbjct: 515 DSLSHLKGIYLNLAANS-----INIISPRLLPILSQQSTINLSHNPLDCTCSNIHFLTWY 569
Query: 912 GFYTAILERGDEIISAASIRFHGTQLAEM 940
LE +E A G +L+++
Sbjct: 570 KENLHKLEGSEETTCANPPSLRGVKLSDV 598
>pdb|2G6Q|A Chain A, Crystal Structure Of Ing2 Phd Domain In Complex With
H3k4me3 Peptide
Length = 62
Score = 32.3 bits (72), Expect = 2.1, 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 = 32.3 bits (72), Expect = 2.1, 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|2QIC|A Chain A, Crystal Structure Of The Ing1 Phd Finger In Complex With A
Histone H3k4me3 Peptide
Length = 62
Score = 31.6 bits (70), Expect = 3.3, 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 FHFSCVGLNHKPKGKWYCPKC 57
>pdb|2L5U|A Chain A, Structure Of The First Phd Finger (Phd1) From Chd4 (Mi2b)
Length = 61
Score = 30.8 bits (68), Expect = 5.5, 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|1WES|A Chain A, Solution Structure Of Phd Domain In Inhibitor Of Growth
Family, Member 1-Like
Length = 71
Score = 30.8 bits (68), Expect = 6.2, 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
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
0.312 0.130 0.374
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 40,650,715
Number of Sequences: 62578
Number of extensions: 1566375
Number of successful extensions: 2391
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 2381
Number of HSP's gapped (non-prelim): 24
length of query: 1570
length of database: 14,973,337
effective HSP length: 112
effective length of query: 1458
effective length of database: 7,964,601
effective search space: 11612388258
effective search space used: 11612388258
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 58 (26.9 bits)