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= 008421
(566 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 61.6 bits (148), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 35/85 (41%), Positives = 48/85 (56%), Gaps = 11/85 (12%)
Query: 434 EHAFCYS--KFYHERCL----TPKQLKRYGPCWFCPSC-LCRACLTDKDDEKIVMCDGCD 486
+ FC + + YH CL TP LKR G W CP C +C+ C +D K+++CD CD
Sbjct: 21 DQFFCTTCGQHYHGMCLDIAVTP--LKRAG--WQCPECKVCQNCKQSGEDSKMLVCDTCD 76
Query: 487 QGYHLYCMDPPRTSVPKGNWFCRKC 511
+GYH +C+ P SVP W C+ C
Sbjct: 77 KGYHTFCLQPVMKSVPTNGWKCKNC 101
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 26/46 (56%)
Query: 298 TCRQCEEKAGEKDGLVCDSCEEMYHLSCIEPAFKDIPPKSWYCARC 343
C+ C++ + LVCD+C++ YH C++P K +P W C C
Sbjct: 56 VCQNCKQSGEDSKMLVCDTCDKGYHTFCLQPVMKSVPTNGWKCKNC 101
>pdb|2E6R|A Chain A, Solution Structure Of The Phd Domain In Smcy Protein
Length = 92
Score = 60.5 bits (145), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 27/82 (32%), Positives = 46/82 (56%), Gaps = 2/82 (2%)
Query: 461 FCPSCLCRACLTDKDDEKIVMCDGCDQGYHLYCMDPPRTSVPKGNWFCRKCDAGIQEIRR 520
F S +C+ C +D+K++ CDGCD YH++C+ PP +P+G W C KC + E ++
Sbjct: 13 FIDSYICQVCSRGDEDDKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKCI--LAECKQ 70
Query: 521 VKKAYMHKRKKQDEEESDKGRG 542
+A+ ++ Q+ S G
Sbjct: 71 PPEAFGFEQATQEYSLSGPSSG 92
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 26/57 (45%)
Query: 297 HTCRQCEEKAGEKDGLVCDSCEEMYHLSCIEPAFKDIPPKSWYCARCTAKGFGSPHE 353
+ C+ C + L CD C++ YH+ C+ P +IP W C +C P E
Sbjct: 17 YICQVCSRGDEDDKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKCILAECKQPPE 73
>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 = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 23/52 (44%), Positives = 33/52 (63%), Gaps = 1/52 (1%)
Query: 461 FCPSCLCRACLTDKDDEKIVMCDGCDQGYHLYCMDPPRTSVP-KGNWFCRKC 511
C C C C +D +K +MCD CD +H+YC+DPP +SVP + W+C +C
Sbjct: 171 LCRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 222
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 295 KVHTCRQCEEKAGEKDGLVCDSCEEMYHLSCIEPAFKDIPPKS-WYCARC 343
+V C C + L+CD C+ +H+ C++P +P + WYC C
Sbjct: 173 RVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 222
>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 = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 23/52 (44%), Positives = 33/52 (63%), Gaps = 1/52 (1%)
Query: 461 FCPSCLCRACLTDKDDEKIVMCDGCDQGYHLYCMDPPRTSVP-KGNWFCRKC 511
C C C C +D +K +MCD CD +H+YC+DPP +SVP + W+C +C
Sbjct: 187 LCRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 238
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 295 KVHTCRQCEEKAGEKDGLVCDSCEEMYHLSCIEPAFKDIPPKS-WYCARC 343
+V C C + L+CD C+ +H+ C++P +P + WYC C
Sbjct: 189 RVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 238
>pdb|2KWJ|A Chain A, Solution Structures Of The Double Phd Fingers Of Human
Transcriptional Protein Dpf3 Bound To A Histone Peptide
Containing Acetylation At Lysine 14
pdb|2KWK|A Chain A, Solution Structures Of The Double Phd Fingers Of Human
Transcriptional Protein Dpf3b Bound To A H3 Peptide Wild
Type
pdb|2KWN|A Chain A, Solution Structure Of The Double Phd (Plant Homeodomain)
Fingers Of Human Transcriptional Protein Dpf3b Bound To
A Histone H4 Peptide Containing Acetylation At Lysine 16
pdb|2KWO|A Chain A, Solution Structure Of The Double Phd (Plant Homeodomain)
Fingers Of Human Transcriptional Protein Dpf3b Bound To
A Histone H4 Peptide Containing N-Terminal Acetylation
At Serine 1
Length = 114
Score = 57.0 bits (136), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 38/59 (64%), Gaps = 1/59 (1%)
Query: 460 WFCPSC-LCRACLTDKDDEKIVMCDGCDQGYHLYCMDPPRTSVPKGNWFCRKCDAGIQE 517
W C C C C T ++D++++ CD CD+GYH+YC++PP P+G+W C C ++E
Sbjct: 53 WQCIECKSCILCGTSENDDQLLFCDDCDRGYHMYCLNPPVAEPPEGSWSCHLCWELLKE 111
Score = 35.0 bits (79), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 21/46 (45%)
Query: 298 TCRQCEEKAGEKDGLVCDSCEEMYHLSCIEPAFKDIPPKSWYCARC 343
+C C + L CD C+ YH+ C+ P + P SW C C
Sbjct: 60 SCILCGTSENDDQLLFCDDCDRGYHMYCLNPPVAEPPEGSWSCHLC 105
>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 = 52.8 bits (125), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 23/52 (44%), Positives = 33/52 (63%), Gaps = 1/52 (1%)
Query: 461 FCPSCLCRACLTDKDDEKIVMCDGCDQGYHLYCMDPPRTSVP-KGNWFCRKC 511
C C C C +D +K +MCD CD +H+YC+DPP +SVP + W+C +C
Sbjct: 17 LCRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 68
Score = 36.6 bits (83), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 26/52 (50%), Gaps = 1/52 (1%)
Query: 293 VYKVHTCRQCEEKAGEKDGLVCDSCEEMYHLSCIEPAFKDIPPKS-WYCARC 343
+ +V C C + L+CD C+ +H+ C++P +P + WYC C
Sbjct: 17 LCRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 68
>pdb|3SHB|A Chain A, Crystal Structure Of Phd Domain Of Uhrf1
Length = 77
Score = 52.8 bits (125), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 23/52 (44%), Positives = 33/52 (63%), Gaps = 1/52 (1%)
Query: 461 FCPSCLCRACLTDKDDEKIVMCDGCDQGYHLYCMDPPRTSVPKGN-WFCRKC 511
C C C C +D +K +MCD CD +H+YC+DPP +SVP + W+C +C
Sbjct: 23 LCRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 74
Score = 37.0 bits (84), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 26/52 (50%), Gaps = 1/52 (1%)
Query: 293 VYKVHTCRQCEEKAGEKDGLVCDSCEEMYHLSCIEPAFKDIPPKS-WYCARC 343
+ +V C C + L+CD C+ +H+ C++P +P + WYC C
Sbjct: 23 LCRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 74
>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 = 52.8 bits (125), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 23/52 (44%), Positives = 33/52 (63%), Gaps = 1/52 (1%)
Query: 461 FCPSCLCRACLTDKDDEKIVMCDGCDQGYHLYCMDPPRTSVPKGN-WFCRKC 511
C C C C +D +K +MCD CD +H+YC+DPP +SVP + W+C +C
Sbjct: 20 LCRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 71
Score = 36.2 bits (82), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 295 KVHTCRQCEEKAGEKDGLVCDSCEEMYHLSCIEPAFKDIPPKS-WYCARC 343
+V C C + L+CD C+ +H+ C++P +P + WYC C
Sbjct: 22 RVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 71
>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 = 52.4 bits (124), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 23/52 (44%), Positives = 33/52 (63%), Gaps = 1/52 (1%)
Query: 461 FCPSCLCRACLTDKDDEKIVMCDGCDQGYHLYCMDPPRTSVPKGN-WFCRKC 511
C C C C +D +K +MCD CD +H+YC+DPP +SVP + W+C +C
Sbjct: 15 LCRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 66
Score = 36.6 bits (83), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 26/52 (50%), Gaps = 1/52 (1%)
Query: 293 VYKVHTCRQCEEKAGEKDGLVCDSCEEMYHLSCIEPAFKDIPPKS-WYCARC 343
+ +V C C + L+CD C+ +H+ C++P +P + WYC C
Sbjct: 15 LCRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 66
>pdb|3ZVZ|B Chain B, Phd Finger Of Human Uhrf1
Length = 57
Score = 52.4 bits (124), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 22/48 (45%), Positives = 32/48 (66%), Gaps = 1/48 (2%)
Query: 465 CLCRACLTDKDDEKIVMCDGCDQGYHLYCMDPPRTSVPKGN-WFCRKC 511
C C C +D +K +MCD CD +H+YC+DPP +SVP + W+C +C
Sbjct: 6 CACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 53
Score = 37.0 bits (84), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 295 KVHTCRQCEEKAGEKDGLVCDSCEEMYHLSCIEPAFKDIPPKS-WYCARC 343
+V C C + L+CD C+ +H+ C++P +P + WYC C
Sbjct: 4 RVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 53
>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 = 52.4 bits (124), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 23/52 (44%), Positives = 33/52 (63%), Gaps = 1/52 (1%)
Query: 461 FCPSCLCRACLTDKDDEKIVMCDGCDQGYHLYCMDPPRTSVPKGN-WFCRKC 511
C C C C +D +K +MCD CD +H+YC+DPP +SVP + W+C +C
Sbjct: 15 LCRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 66
Score = 36.6 bits (83), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 26/52 (50%), Gaps = 1/52 (1%)
Query: 293 VYKVHTCRQCEEKAGEKDGLVCDSCEEMYHLSCIEPAFKDIPPKS-WYCARC 343
+ +V C C + L+CD C+ +H+ C++P +P + WYC C
Sbjct: 15 LCRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 66
>pdb|1XWH|A Chain A, Nmr Structure Of The First Phd Finger Of Autoimmune
Regulator Protein (Aire1): Insights Into Apeced
pdb|2KE1|A Chain A, Molecular Basis Of Non-Modified Histone H3 Tail
Recognition By The First Phd Finger Of Autoimmune
Regulator
Length = 66
Score = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 30/51 (58%), Gaps = 1/51 (1%)
Query: 470 CLTDKDDEKIVMCDGCDQGYHLYCMDPPRTSVPKGNWFCRKC-DAGIQEIR 519
C +D +++ CDGC + +HL C+ PP +P G W C C A +QE++
Sbjct: 11 CAVCRDGGELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQATVQEVQ 61
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 20/32 (62%)
Query: 312 LVCDSCEEMYHLSCIEPAFKDIPPKSWYCARC 343
+ CD C +HL+C+ P ++IP +W C+ C
Sbjct: 21 ICCDGCPRAFHLACLSPPLREIPSGTWRCSSC 52
>pdb|2LN0|A Chain A, Structure Of Moz
Length = 110
Score = 50.4 bits (119), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 18/38 (47%), Positives = 27/38 (71%)
Query: 474 KDDEKIVMCDGCDQGYHLYCMDPPRTSVPKGNWFCRKC 511
K+ + ++ CD CD+G+H+ C DPP T +PKG W C+ C
Sbjct: 70 KNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQIC 107
Score = 37.4 bits (85), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 31/69 (44%), Gaps = 2/69 (2%)
Query: 279 PDSVVKVEQTAACDVYKVHTCRQCEEKAGEKDG-LVCDSCEEMYHLSCIEPAFKDIPPKS 337
P+ V+V+ + TC C ++ D L CDSC+ +H+ C +P +P
Sbjct: 43 PELTVRVKALRW-QCIECKTCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGM 101
Query: 338 WYCARCTAK 346
W C C +
Sbjct: 102 WICQICRPR 110
>pdb|3V43|A Chain A, Crystal Structure Of Moz
Length = 112
Score = 50.4 bits (119), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 18/38 (47%), Positives = 27/38 (71%)
Query: 474 KDDEKIVMCDGCDQGYHLYCMDPPRTSVPKGNWFCRKC 511
K+ + ++ CD CD+G+H+ C DPP T +PKG W C+ C
Sbjct: 72 KNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQIC 109
Score = 37.4 bits (85), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 31/69 (44%), Gaps = 2/69 (2%)
Query: 279 PDSVVKVEQTAACDVYKVHTCRQCEEKAGEKDG-LVCDSCEEMYHLSCIEPAFKDIPPKS 337
P+ V+V+ + TC C ++ D L CDSC+ +H+ C +P +P
Sbjct: 45 PELTVRVKALRW-QCIECKTCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGM 103
Query: 338 WYCARCTAK 346
W C C +
Sbjct: 104 WICQICRPR 112
>pdb|2PUY|A Chain A, Crystal Structure Of The Bhc80 Phd Finger
pdb|2PUY|B Chain B, Crystal Structure Of The Bhc80 Phd Finger
Length = 60
Score = 49.7 bits (117), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 17/34 (50%), Positives = 25/34 (73%)
Query: 478 KIVMCDGCDQGYHLYCMDPPRTSVPKGNWFCRKC 511
+++MCD C + YHL C+DPP ++PKG W C +C
Sbjct: 16 QLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRC 49
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 16/32 (50%), Positives = 21/32 (65%)
Query: 312 LVCDSCEEMYHLSCIEPAFKDIPPKSWYCARC 343
L+CD+C +YHL C++P K IP W C RC
Sbjct: 18 LMCDTCSRVYHLDCLDPPLKTIPKGMWICPRC 49
>pdb|2YQL|A Chain A, Solution Structure Of The Phd Domain In Phd Finger Protein
21a
Length = 56
Score = 48.9 bits (115), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 17/34 (50%), Positives = 25/34 (73%)
Query: 478 KIVMCDGCDQGYHLYCMDPPRTSVPKGNWFCRKC 511
+++MCD C + YHL C+DPP ++PKG W C +C
Sbjct: 20 QLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRC 53
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 16/32 (50%), Positives = 21/32 (65%)
Query: 312 LVCDSCEEMYHLSCIEPAFKDIPPKSWYCARC 343
L+CD+C +YHL C++P K IP W C RC
Sbjct: 22 LMCDTCSRVYHLDCLDPPLKTIPKGMWICPRC 53
>pdb|2KFT|A Chain A, Nmr Solution Structure Of The First Phd Finger Domain Of
Human Autoimmune Regulator (Aire) In Complex With
Histone H3(1-20cys) Peptide
Length = 56
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 470 CLTDKDDEKIVMCDGCDQGYHLYCMDPPRTSVPKGNWFCRKC-DAGIQE 517
C +D +++ CDGC + +HL C+ PP +P G W C C A +QE
Sbjct: 8 CAVCRDGGELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQATVQE 56
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 26/44 (59%), Gaps = 3/44 (6%)
Query: 303 EEKAGEKDG---LVCDSCEEMYHLSCIEPAFKDIPPKSWYCARC 343
+E A +DG + CD C +HL+C+ P ++IP +W C+ C
Sbjct: 6 DECAVCRDGGELICCDGCPRAFHLACLSPPLREIPSGTWRCSSC 49
>pdb|1F62|A Chain A, Wstf-Phd
Length = 51
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 28/45 (62%)
Query: 467 CRACLTDKDDEKIVMCDGCDQGYHLYCMDPPRTSVPKGNWFCRKC 511
C+ C +D+K+++CD C++ +HL+C+ P VP G W C C
Sbjct: 3 CKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPAC 47
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 25/45 (55%)
Query: 299 CRQCEEKAGEKDGLVCDSCEEMYHLSCIEPAFKDIPPKSWYCARC 343
C+ C +K + ++CD C + +HL C+ PA ++P W C C
Sbjct: 3 CKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPAC 47
>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 = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 27/46 (58%), Gaps = 3/46 (6%)
Query: 466 LCRACLTDKDDEKIVMCDGCDQGYHLYCMDPPRTSVPKGNWFCRKC 511
CR C KD +++ CD C YH++C++PP +P G W C +C
Sbjct: 11 FCRVC---KDGGELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRC 53
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 3/50 (6%)
Query: 299 CRQCEEKAGEKDGLVCDSCEEMYHLSCIEPAFKDIPPKSWYCARCTAKGF 348
CR C++ GE L CD+C YH+ C+ P +IP W C RCT
Sbjct: 12 CRVCKD-GGEL--LCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPAL 58
>pdb|2E6S|A Chain A, Solution Structure Of The Phd Domain In Ring Finger
Protein 107
Length = 77
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 462 CPSCLCRACLTDKDDEKIVMCDGCDQGYHLYCMDPPRTSVPKGN-WFCRKC 511
C SC CR C + ++CD C+ YH+YC++PP VP+ W+C C
Sbjct: 24 CHSCSCRVCGGKHEPNMQLLCDECNVAYHIYCLNPPLDKVPEEEYWYCPSC 74
Score = 37.0 bits (84), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 298 TCRQCEEKAGEKDGLVCDSCEEMYHLSCIEPAFKDIPPKS-WYCARC 343
+CR C K L+CD C YH+ C+ P +P + WYC C
Sbjct: 28 SCRVCGGKHEPNMQLLCDECNVAYHIYCLNPPLDKVPEEEYWYCPSC 74
>pdb|2L5U|A Chain A, Structure Of The First Phd Finger (Phd1) From Chd4 (Mi2b)
Length = 61
Score = 42.7 bits (99), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 25/40 (62%), Gaps = 1/40 (2%)
Query: 478 KIVMCDGCDQGYHLYCMDPPRTSVPKGNWFCRKCDA-GIQ 516
+I++CD C + YH+ C+DP P+G W C C+ GIQ
Sbjct: 22 EIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKEGIQ 61
Score = 37.0 bits (84), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 312 LVCDSCEEMYHLSCIEPAFKDIPPKSWYCARCTAKGF 348
++CD+C YH+ C++P + P W C C +G
Sbjct: 24 ILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKEGI 60
>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 = 42.7 bits (99), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 27/50 (54%), Gaps = 3/50 (6%)
Query: 299 CRQCEEKAGEKDGLVCDSCEEMYHLSCIEPAFKDIPPKSWYCARCTAKGF 348
CR C++ GE L CD+C YH+ C+ PA ++P W C RCT
Sbjct: 12 CRVCKD-GGEL--LCCDTCPSSYHIHCLRPALYEVPDGEWQCPRCTCPAL 58
Score = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 25/46 (54%), Gaps = 3/46 (6%)
Query: 466 LCRACLTDKDDEKIVMCDGCDQGYHLYCMDPPRTSVPKGNWFCRKC 511
CR C KD +++ CD C YH++C+ P VP G W C +C
Sbjct: 11 FCRVC---KDGGELLCCDTCPSSYHIHCLRPALYEVPDGEWQCPRC 53
>pdb|2RO1|A Chain A, Nmr Solution Structures Of Human Kap1 Phd
Finger-Bromodomain
Length = 189
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 27/45 (60%), Gaps = 3/45 (6%)
Query: 299 CRQCEEKAGEKDGLVCDSCEEMYHLSCIEPAFKDIPPKSWYCARC 343
CR C++ D ++C+ CE +HL C PA +D+P + W C+ C
Sbjct: 5 CRVCQKPG---DLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLC 46
Score = 34.7 bits (78), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 22/46 (47%), Gaps = 3/46 (6%)
Query: 466 LCRACLTDKDDEKIVMCDGCDQGYHLYCMDPPRTSVPKGNWFCRKC 511
+CR C D +VMC+ C+ +HL C P VP W C C
Sbjct: 4 ICRVCQKPGD---LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLC 46
>pdb|1FP0|A Chain A, Solution Structure Of The Phd Domain From The Kap-1
Corepressor
Length = 88
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 27/46 (58%), Gaps = 3/46 (6%)
Query: 298 TCRQCEEKAGEKDGLVCDSCEEMYHLSCIEPAFKDIPPKSWYCARC 343
CR C++ D ++C+ CE +HL C PA +D+P + W C+ C
Sbjct: 27 ICRVCQKPG---DLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLC 69
Score = 33.1 bits (74), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 22/46 (47%), Gaps = 3/46 (6%)
Query: 466 LCRACLTDKDDEKIVMCDGCDQGYHLYCMDPPRTSVPKGNWFCRKC 511
+CR C D +VMC+ C+ +HL C P VP W C C
Sbjct: 27 ICRVCQKPGD---LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLC 69
>pdb|1WEV|A Chain A, Solution Structure Of Phd Domain In Protein Np_082203
Length = 88
Score = 35.8 bits (81), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 21/52 (40%), Positives = 25/52 (48%), Gaps = 7/52 (13%)
Query: 298 TCRQCEEKAGEKDGLV-CDSCEEMYHLSCIEPAFKDI----PPKSWYCARCT 344
CRQ +G + LV C C +YH C +P D P WYCARCT
Sbjct: 21 VCRQMTVASGNQ--LVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCT 70
>pdb|3U5M|A Chain A, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|B Chain B, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|C Chain C, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|D Chain D, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|E Chain E, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|F Chain F, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|G Chain G, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|H Chain H, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|I Chain I, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|J Chain J, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|K Chain K, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|L Chain L, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5N|A Chain A, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-20) K9me3k14ac Histone Peptide
pdb|3U5N|B Chain B, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-20) K9me3k14ac Histone Peptide
pdb|3U5O|A Chain A, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|B Chain B, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|C Chain C, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|D Chain D, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|E Chain E, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|F Chain F, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|G Chain G, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|H Chain H, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5P|A Chain A, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|B Chain B, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|C Chain C, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|D Chain D, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|E Chain E, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|F Chain F, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|G Chain G, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|H Chain H, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
Length = 207
Score = 35.0 bits (79), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 25/53 (47%), Gaps = 1/53 (1%)
Query: 479 IVMCDGCDQGYHLYCMDPPRTSVPKGNWFCRKC-DAGIQEIRRVKKAYMHKRK 530
++ C+ C + +HL C P S P G+W C C D G E+ H +K
Sbjct: 19 LLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFCRDIGKPEVEYDCDNLQHSKK 71
Score = 34.3 bits (77), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 20/42 (47%), Gaps = 2/42 (4%)
Query: 310 DGLVCDSCEEMYHLSCIEPAFKDIPPKSWYCARCTAKGFGSP 351
D L C+ C +++HL+C P P W C C + G P
Sbjct: 18 DLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFC--RDIGKP 57
>pdb|3O33|A Chain A, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O33|B Chain B, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O33|C Chain C, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O33|D Chain D, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O34|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(13-32)k23ac Peptide
pdb|3O35|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(23-31)k27ac Peptide
pdb|3O35|B Chain B, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(23-31)k27ac Peptide
pdb|3O36|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H4(14-19)k16ac Peptide
pdb|3O36|B Chain B, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H4(14-19)k16ac Peptide
pdb|3O37|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
pdb|3O37|B Chain B, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
pdb|3O37|C Chain C, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
pdb|3O37|D Chain D, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
Length = 184
Score = 34.7 bits (78), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 28/59 (47%), Gaps = 1/59 (1%)
Query: 478 KIVMCDGCDQGYHLYCMDPPRTSVPKGNWFCRKC-DAGIQEIRRVKKAYMHKRKKQDEE 535
+++ C+ C + +HL C P T+ P G W C C D E+ A H +K+ E
Sbjct: 15 ELLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRDLSKPEVEYDCDAPSHNSEKKKTE 73
Score = 33.1 bits (74), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 17/32 (53%)
Query: 312 LVCDSCEEMYHLSCIEPAFKDIPPKSWYCARC 343
L C+ C +++HLSC P + P W C C
Sbjct: 17 LCCEKCPKVFHLSCHVPTLTNFPSGEWICTFC 48
>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 = 33.9 bits (76), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 25/55 (45%)
Query: 466 LCRACLTDKDDEKIVMCDGCDQGYHLYCMDPPRTSVPKGNWFCRKCDAGIQEIRR 520
+C C D ++ CD CD YH C+ + WFC KC I++ ++
Sbjct: 20 ICPGCNKPDDGSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIKKDKK 74
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/54 (25%), Positives = 24/54 (44%), Gaps = 4/54 (7%)
Query: 295 KVHTCRQCEEKAGEKDGLVCDSCEEMYHLSCIEPAFKDIPPK--SWYCARCTAK 346
++ C C + + CD C++ YH C+ PP+ W+C +C K
Sbjct: 17 QIWICPGCNKPDDGSPMIGCDDCDDWYHWPCV--GIMAAPPEEMQWFCPKCANK 68
>pdb|2KU3|A Chain A, Solution Structure Of Brd1 Phd1 Finger
Length = 71
Score = 33.1 bits (74), Expect = 0.38, Method: Composition-based stats.
Identities = 15/48 (31%), Positives = 23/48 (47%), Gaps = 4/48 (8%)
Query: 466 LCRACL--TDKDDEKIVMCDGCDQGYHLYCMDPPRTSVPKGNWFCRKC 511
+C C+ ++ I+ CD C+ H C P +P+G W CR C
Sbjct: 18 VCSICMDGESQNSNVILFCDMCNLAVHQECYGVP--YIPEGQWLCRHC 63
>pdb|2L43|A Chain A, Structural Basis For Histone Code Recognition By
Brpf2-Phd1 Finger
Length = 88
Score = 33.1 bits (74), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 23/48 (47%), Gaps = 4/48 (8%)
Query: 466 LCRACL--TDKDDEKIVMCDGCDQGYHLYCMDPPRTSVPKGNWFCRKC 511
+C C+ ++ I+ CD C+ H C P +P+G W CR C
Sbjct: 27 VCSICMDGESQNSNVILFCDMCNLAVHQECYGVP--YIPEGQWLCRHC 72
>pdb|2YT5|A Chain A, Solution Structure Of The Phd Domain Of Metal-Response
Element-Binding Transcription Factor 2
Length = 66
Score = 32.3 bits (72), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 22/37 (59%), Gaps = 3/37 (8%)
Query: 478 KIVMCDGCDQGYHLYCMDP-PRTSVPKGN--WFCRKC 511
++V+CD C QGYH C P +SV + W CR+C
Sbjct: 22 EMVICDKCGQGYHQLCHTPHIDSSVIDSDEKWLCRQC 58
>pdb|2LV9|A Chain A, Solution Nmr Structure Of The Phd Domain Of Human Mll5,
Northeast Structural Genomics Consortium Target Hr6512a
Length = 98
Score = 30.4 bits (67), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 15/64 (23%), Positives = 31/64 (48%), Gaps = 3/64 (4%)
Query: 475 DDEKIVMCDGCDQGYHLYCMDPPRTSVPKGNWFCRKCDAGIQEIRRVKKAYMHKRKKQDE 534
DD ++ CD C H+ CM R +P + C +C + + + + + +RK+++
Sbjct: 38 DDGYMICCDKCSVWQHIDCMGIDRQHIPD-TYLCERCQP--RNLDKERAVLLQRRKRENM 94
Query: 535 EESD 538
+ D
Sbjct: 95 SDGD 98
>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 = 30.0 bits (66), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 24/47 (51%), Gaps = 6/47 (12%)
Query: 470 CLTDKDDEKIVMCD--GCDQGYHLYCMDPPRTSVPKGNWFC--RKCD 512
C D ++VMCD C + YHL C++ T P G W C +CD
Sbjct: 18 CFQCGDGGELVMCDKKDCPKAYHLLCLN--LTQPPYGKWECPWHQCD 62
>pdb|2LRI|C Chain C, Nmr Structure Of The Second Phd Finger Of Aire (aire-phd2)
Length = 66
Score = 28.5 bits (62), Expect = 9.2, Method: Composition-based stats.
Identities = 15/53 (28%), Positives = 19/53 (35%), Gaps = 3/53 (5%)
Query: 463 PSCLCRACLTDKDDEKIVMCDGCDQGYHLYCMDPPRTSVPKGNWFCRKCDAGI 515
P C C D ++ C C +H C P TS P CR C +
Sbjct: 11 PGARCGVC---GDGTDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDV 60
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
0.317 0.133 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,803,686
Number of Sequences: 62578
Number of extensions: 755259
Number of successful extensions: 1865
Number of sequences better than 100.0: 45
Number of HSP's better than 100.0 without gapping: 29
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 1783
Number of HSP's gapped (non-prelim): 97
length of query: 566
length of database: 14,973,337
effective HSP length: 104
effective length of query: 462
effective length of database: 8,465,225
effective search space: 3910933950
effective search space used: 3910933950
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)