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= 003175
(842 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2QBY|A Chain A, Crystal Structure Of A Heterodimer Of Cdc6ORC1 INITIATORS
Bound To Origin Dna (From S. Solfataricus)
Length = 386
Score = 80.5 bits (197), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 61/215 (28%), Positives = 113/215 (52%), Gaps = 16/215 (7%)
Query: 490 LYIHGVPGTGKTMSVLAVMRSLRSEVESGSIRPYCFVEVNGLKLASPENIYRVIYEALSG 549
++I+G+ GTGKT AV++ + S++ + + V +N ++ +P YRV+ + L
Sbjct: 48 IFIYGLTGTGKT----AVVKFVLSKLHKKFLGKFKHVYINTRQIDTP---YRVLADLLES 100
Query: 550 HRVSWKKALHSLNERFLDGKKIGKEDDRPCILLIDELDLLVTR-NQSVLYNILDWPTKPN 608
V S+ E + K ++ ++++DE+D V + N +LY + ++ N
Sbjct: 101 LDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVN 160
Query: 609 -SKLIVIGIANTMDLPEKLLPRISSRMGVQRLCFGPYNHQQLQEIISSRLKGIEAFE--- 664
SK+ IGI N + + L PR+ S + + + F PYN ++L++I++ R + AF+
Sbjct: 161 KSKISFIGITNDVKFVDLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQM--AFKPGV 218
Query: 665 --KQAIEFASRKVAAISGDARRALEICRRAAEIAD 697
I+ + A GDARRAL++ R + EIA+
Sbjct: 219 LPDNVIKLCAALAAREHGDARRALDLLRVSGEIAE 253
>pdb|2V1U|A Chain A, Structure Of The Aeropyrum Pernix Orc1 Protein In Complex
With Dna
Length = 387
Score = 73.2 bits (178), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 69/221 (31%), Positives = 111/221 (50%), Gaps = 29/221 (13%)
Query: 492 IHGVPGTGKTMSVLAVMRSLRSEVESGSI--RPYCFVEVNGLKLASPENIYRVIYEALSG 549
++G+ GTGKT V+R L + S + +P + VN +P + I EA+ G
Sbjct: 49 LYGLTGTGKTAVARLVLRRLEARASSLGVLVKP---IYVNARHRETPYRVASAIAEAV-G 104
Query: 550 HRVSWKK-ALHSLNERFLDGKKIGKEDDRPCILLIDELDLLVTR--NQSVLYNILDWPTK 606
RV + ++ + ER + K++ + I+++DE+D L R Q +LY I T+
Sbjct: 105 VRVPFTGLSVGEVYERLV--KRLSRLRG-IYIIVLDEIDFLPKRPGGQDLLYRI----TR 157
Query: 607 PNSKL------IVIGIANTMDLPEKLLPRISSRMGVQRLCFGPYNHQQLQEIISSRLKGI 660
N +L ++GI N++ E L PR+ S +G L F PY QL++I+ +R +
Sbjct: 158 INQELGDRVWVSLVGITNSLGFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAE-- 215
Query: 661 EAF-----EKQAIEFASRKVAAISGDARRALEICRRAAEIA 696
EAF + + + A GDARRAL++ R A EIA
Sbjct: 216 EAFNPGVLDPDVVPLCAALAAREHGDARRALDLLRVAGEIA 256
>pdb|2QBY|B Chain B, Crystal Structure Of A Heterodimer Of Cdc6ORC1 INITIATORS
Bound To Origin Dna (From S. Solfataricus)
Length = 384
Score = 60.8 bits (146), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 60/217 (27%), Positives = 107/217 (49%), Gaps = 30/217 (13%)
Query: 494 GVPGTGKTMS---VLAVMRSLRSEVESGSIRPYCFV---EVNGLKLASPENIYRVIYEAL 547
G+ GTGKT + + ++ E E +V EV G +P+ + +L
Sbjct: 52 GLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGG----TPQ----AVLSSL 103
Query: 548 SGHRVSWKKALHSLN-ERFLDGKKIGKEDDRPCILLIDELDLLVTR--NQSVLYNILDWP 604
+G + H +N ++D K G + R I L DE+D LV R VLY +L
Sbjct: 104 AGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYL-DEVDTLVKRRGGDIVLYQLL--- 159
Query: 605 TKPNSKLIVIGIANTMDLPEKLLPRISSRMGVQRLCFGPYNHQQLQEIISSR-----LKG 659
+ ++ + VI I+N +++ + + PR+ S +G + F PY+ +QL+ I+S +KG
Sbjct: 160 -RSDANISVIMISNDINVRDYMEPRVLSSLG-PSVIFKPYDAEQLKFILSKYAEYGLIKG 217
Query: 660 IEAFEKQAIEFASRKVAAISGDARRALEICRRAAEIA 696
++ + + + + A GDAR+A+ + RAA++A
Sbjct: 218 --TYDDEILSYIAAISAKEHGDARKAVNLLFRAAQLA 252
>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 = 52.4 bits (124), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 25/58 (43%), Positives = 32/58 (55%), Gaps = 2/58 (3%)
Query: 185 DPEVEECRICFRAGRSVMLECDDCLGGFHLKCLKPPLKEVPEGEWVCEFCEARKLGKK 242
D +E CR+C G +L CD C +H+ CL PPL E+P GEW+C C L K
Sbjct: 6 DHHMEFCRVCKDGGE--LLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPALKGK 61
>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 = 50.8 bits (120), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/52 (42%), Positives = 34/52 (65%), Gaps = 2/52 (3%)
Query: 191 CRICFRAGRSVMLECDDCLGGFHLKCLKPPLKEVPEGEWVCEFCEARKLGKK 242
C +C ++G+ +M CD C +HL CL PPLK +P+G W+C C+ + L K+
Sbjct: 8 CSVCRKSGQLLM--CDTCSRVYHLDCLDPPLKTIPKGMWICPRCQDQMLKKE 57
>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 = 50.4 bits (119), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 23/49 (46%), Positives = 28/49 (57%), Gaps = 4/49 (8%)
Query: 190 ECRICFRAGRS----VMLECDDCLGGFHLKCLKPPLKEVPEGEWVCEFC 234
EC+ C G S +L CDDC G+H+ CL PP+ E PEG W C C
Sbjct: 57 ECKSCILCGTSENDDQLLFCDDCDRGYHMYCLNPPVAEPPEGSWSCHLC 105
>pdb|3V43|A Chain A, Crystal Structure Of Moz
Length = 112
Score = 49.7 bits (117), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 31/53 (58%), Gaps = 2/53 (3%)
Query: 187 EVEECRICFRAGRSV--MLECDDCLGGFHLKCLKPPLKEVPEGEWVCEFCEAR 237
E + C C G++ ML CD C GFH++C PPL +P+G W+C+ C R
Sbjct: 60 ECKTCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQICRPR 112
>pdb|2LN0|A Chain A, Structure Of Moz
Length = 110
Score = 49.3 bits (116), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 31/53 (58%), Gaps = 2/53 (3%)
Query: 187 EVEECRICFRAGRSV--MLECDDCLGGFHLKCLKPPLKEVPEGEWVCEFCEAR 237
E + C C G++ ML CD C GFH++C PPL +P+G W+C+ C R
Sbjct: 58 ECKTCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQICRPR 110
>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 = 48.9 bits (115), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/58 (43%), Positives = 32/58 (55%), Gaps = 2/58 (3%)
Query: 185 DPEVEECRICFRAGRSVMLECDDCLGGFHLKCLKPPLKEVPEGEWVCEFCEARKLGKK 242
D +E CR+C G +L CD C +H+ CL+P L EVP+GEW C C L K
Sbjct: 6 DHHMEFCRVCKDGGE--LLCCDTCPSSYHIHCLRPALYEVPDGEWQCPRCTCPALKGK 61
>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 = 48.9 bits (115), Expect = 1e-05, Method: Composition-based stats.
Identities = 22/50 (44%), Positives = 30/50 (60%), Gaps = 1/50 (2%)
Query: 186 PEVEECRICFRAGR-SVMLECDDCLGGFHLKCLKPPLKEVPEGEWVCEFC 234
PE + C+ C ++G S ML CD C G+H CL+P +K VP W C+ C
Sbjct: 52 PECKVCQNCKQSGEDSKMLVCDTCDKGYHTFCLQPVMKSVPTNGWKCKNC 101
>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 = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/46 (45%), Positives = 27/46 (58%), Gaps = 2/46 (4%)
Query: 189 EECRICFRAGRSVMLECDDCLGGFHLKCLKPPLKEVPEGEWVCEFC 234
+EC +C G ++ CD C FHL CL PPL+E+P G W C C
Sbjct: 9 DECAVCRDGGE--LICCDGCPRAFHLACLSPPLREIPSGTWRCSSC 52
>pdb|2YQL|A Chain A, Solution Structure Of The Phd Domain In Phd Finger Protein
21a
Length = 56
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/57 (42%), Positives = 34/57 (59%), Gaps = 6/57 (10%)
Query: 179 ASSDEEDPEVEECRICFRAGRSVMLECDDCLGGFHLKCLKPPLKEVPEGEWVCEFCE 235
SS ED C +C ++G+ +L CD C +HL CL PPLK +P+G W+C C+
Sbjct: 4 GSSGHED----FCSVCRKSGQ--LLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQ 54
>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 = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/59 (38%), Positives = 32/59 (54%), Gaps = 4/59 (6%)
Query: 183 EEDPEVEECRICFRAGRSVMLECDDCLGGFHLKCLKPPLKEVPEGEWVCEFCEARKLGK 241
++DP + C +C G +L C+ C FHL C P L P G+W+C FC R +GK
Sbjct: 2 DDDPNEDWCAVCQNGGD--LLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFC--RDIGK 56
>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 = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/46 (45%), Positives = 27/46 (58%), Gaps = 2/46 (4%)
Query: 189 EECRICFRAGRSVMLECDDCLGGFHLKCLKPPLKEVPEGEWVCEFC 234
+EC +C G ++ CD C FHL CL PPL+E+P G W C C
Sbjct: 6 DECAVCRDGGE--LICCDGCPRAFHLACLSPPLREIPSGTWRCSSC 49
>pdb|1W4S|A Chain A, Crystal Structure Of The Proximal Bah Domain Of Polybromo
Length = 174
Score = 47.4 bits (111), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 48/94 (51%), Gaps = 3/94 (3%)
Query: 272 IQSMWKEVDGNYWCRVFWYMIPEETAAGRQPHNLRRELYRTNDFANIEMESIIRHCSVMS 331
I+ +W++ G W W+ P ET L +E+++++ + + + I+ C VM
Sbjct: 49 IERLWEDSAGEKWLYGCWFYRPNETFHLATRKFLEKEVFKSDYYNKVPVSKILGKCVVMF 108
Query: 332 PKDFVKA---NDQGDDIFLCEYEYDIHWHSFKRI 362
K++ K N + +D+++CE Y SFK+I
Sbjct: 109 VKEYFKLCPENFRDEDVYVCESRYSAKTKSFKKI 142
>pdb|1F62|A Chain A, Wstf-Phd
Length = 51
Score = 47.0 bits (110), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 21/46 (45%), Positives = 30/46 (65%), Gaps = 1/46 (2%)
Query: 191 CRICFRAGRS-VMLECDDCLGGFHLKCLKPPLKEVPEGEWVCEFCE 235
C++C + G ++ CD+C FHL CL+P L EVP+GEW C C+
Sbjct: 3 CKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQ 48
>pdb|1FP0|A Chain A, Solution Structure Of The Phd Domain From The Kap-1
Corepressor
Length = 88
Score = 45.8 bits (107), Expect = 9e-05, Method: Composition-based stats.
Identities = 20/44 (45%), Positives = 25/44 (56%), Gaps = 2/44 (4%)
Query: 191 CRICFRAGRSVMLECDDCLGGFHLKCLKPPLKEVPEGEWVCEFC 234
CR+C + G VM C+ C FHL C P L++VP EW C C
Sbjct: 28 CRVCQKPGDLVM--CNQCEFCFHLDCHLPALQDVPGEEWSCSLC 69
>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 = 45.1 bits (105), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/56 (41%), Positives = 28/56 (50%), Gaps = 4/56 (7%)
Query: 186 PEVEECRICFRAGRSVMLECDDCLGGFHLKCLKPPLKEVPEGEWVCEFCEARKLGK 241
P + C +C G +L C+ C FHL C P L P GEW+C FC R L K
Sbjct: 2 PNEDWCAVCQNGGE--LLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFC--RDLSK 53
>pdb|2RO1|A Chain A, Nmr Solution Structures Of Human Kap1 Phd
Finger-Bromodomain
Length = 189
Score = 43.9 bits (102), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/44 (45%), Positives = 25/44 (56%), Gaps = 2/44 (4%)
Query: 191 CRICFRAGRSVMLECDDCLGGFHLKCLKPPLKEVPEGEWVCEFC 234
CR+C + G VM C+ C FHL C P L++VP EW C C
Sbjct: 5 CRVCQKPGDLVM--CNQCEFCFHLDCHLPALQDVPGEEWSCSLC 46
>pdb|2L5U|A Chain A, Structure Of The First Phd Finger (Phd1) From Chd4 (Mi2b)
Length = 61
Score = 43.1 bits (100), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 28/49 (57%), Gaps = 2/49 (4%)
Query: 191 CRICFRAGRSVMLECDDCLGGFHLKCLKPPLKEVPEGEWVCEFCEARKL 239
C +C + G ++ CD C +H+ CL P +++ PEG+W C CE +
Sbjct: 14 CEVCQQGGEIIL--CDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKEGI 60
>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 = 42.7 bits (99), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 25/51 (49%), Gaps = 7/51 (13%)
Query: 191 CRICF------RAGRSVMLECDDCLGGFHLKCLKPPLKEVP-EGEWVCEFC 234
CR+C R L CD+C FH+ CL PPL VP E EW C C
Sbjct: 172 CRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 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 = 42.7 bits (99), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 25/51 (49%), Gaps = 7/51 (13%)
Query: 191 CRICF------RAGRSVMLECDDCLGGFHLKCLKPPLKEVP-EGEWVCEFC 234
CR+C R L CD+C FH+ CL PPL VP E EW C C
Sbjct: 188 CRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 238
>pdb|2E6R|A Chain A, Solution Structure Of The Phd Domain In Smcy Protein
Length = 92
Score = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 35/76 (46%), Gaps = 7/76 (9%)
Query: 191 CRICFRAGRS-VMLECDDCLGGFHLKCLKPPLKEVPEGEWVCEFCEARKLGKKIELPKPP 249
C++C R +L CD C +H+ CL PPL E+P G W C C E +PP
Sbjct: 19 CQVCSRGDEDDKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKC------ILAECKQPP 72
Query: 250 EGKKRVRTMREKLLSS 265
E + +E LS
Sbjct: 73 EAFGFEQATQEYSLSG 88
>pdb|3TE6|A Chain A, Crystal Structure Of The S. Cerevisiae Sir3 Aaa+ Domain
pdb|3TE6|B Chain B, Crystal Structure Of The S. Cerevisiae Sir3 Aaa+ Domain
Length = 318
Score = 40.0 bits (92), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 53/273 (19%), Positives = 103/273 (37%), Gaps = 46/273 (16%)
Query: 487 GRCLYIHGVPGTGKTMSVLAVMRSLRSEVESGSIRPYCFVEVNGLKLASPENIYRVIYEA 546
+ YI + K V V L + + + ++ ++ L+LA + +Y I+ A
Sbjct: 45 NKLFYITNADDSTKFQLVNDVXDELITSSARKELPIFDYIHIDALELAGXDALYEKIWFA 104
Query: 547 LSGHRVSWKKALHSLNERFLDGKKIGKEDDRPCILLIDELDLLVTRNQSVLYNILDWPTK 606
+S + +L +LN + + K R ++LI + L++ + +L W +
Sbjct: 105 ISKENLCGDISLEALNFYITN---VPKAKKRKTLILIQNPENLLS--EKILQYFEKWISS 159
Query: 607 PNSKLIVIGIA-NTMDLPEKLLPRISSRMGVQRLCFGPYNHQQLQEIISSRLKGI----- 660
NSKL +I + + + + E++ S + + + +LQ+ I +RLK +
Sbjct: 160 KNSKLSIICVGGHNVTIREQINIXPSLKAHFTEIKLNKVDKNELQQXIITRLKSLLKPFH 219
Query: 661 -------------------------------EAFEKQAIEFASRKVAAISGDARRALEIC 689
+ + ++ VA +SG +A +IC
Sbjct: 220 VKVNDKKEXTIYNNIREGQNQKIPDNVIVINHKINNKITQLIAKNVANVSGSTEKAFKIC 279
Query: 690 RRAAEIADYRIKKQTSNKNSASVGKSLVGMADV 722
A EI+ KK K GK +V V
Sbjct: 280 EAAVEIS----KKDFVRKGGLQKGKLVVSQEXV 308
>pdb|2E6S|A Chain A, Solution Structure Of The Phd Domain In Ring Finger
Protein 107
Length = 77
Score = 38.5 bits (88), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 21/48 (43%), Positives = 27/48 (56%), Gaps = 2/48 (4%)
Query: 191 CRICFRAGRSVM-LECDDCLGGFHLKCLKPPLKEVPEGE-WVCEFCEA 236
CR+C M L CD+C +H+ CL PPL +VPE E W C C+
Sbjct: 29 CRVCGGKHEPNMQLLCDECNVAYHIYCLNPPLDKVPEEEYWYCPSCKT 76
>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 = 38.1 bits (87), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 25/51 (49%), Gaps = 7/51 (13%)
Query: 191 CRICF------RAGRSVMLECDDCLGGFHLKCLKPPLKEVP-EGEWVCEFC 234
CR+C R L CD+C FH+ CL PPL VP E EW C C
Sbjct: 18 CRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 68
>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 = 38.1 bits (87), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 23/51 (45%), Positives = 26/51 (50%), Gaps = 7/51 (13%)
Query: 191 CRIC---FRAGR---SVMLECDDCLGGFHLKCLKPPLKEVP-EGEWVCEFC 234
CR+C GR L CD+C FH+ CL PPL VP E EW C C
Sbjct: 16 CRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 66
>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 = 38.1 bits (87), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 23/51 (45%), Positives = 26/51 (50%), Gaps = 7/51 (13%)
Query: 191 CRIC---FRAGR---SVMLECDDCLGGFHLKCLKPPLKEVP-EGEWVCEFC 234
CR+C GR L CD+C FH+ CL PPL VP E EW C C
Sbjct: 16 CRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 66
>pdb|1IQP|A Chain A, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|B Chain B, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|C Chain C, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|D Chain D, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|E Chain E, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|F Chain F, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
Length = 327
Score = 37.7 bits (86), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 69/264 (26%), Positives = 106/264 (40%), Gaps = 53/264 (20%)
Query: 490 LYIHGVPGTGKTMSVLAVMRSLRSEVESGSIRPYCFVEVNGLKLASPENIYRVIYEALSG 549
L G PG GKT + LA+ R L G + F+E+N AS E VI E +
Sbjct: 49 LLFAGPPGVGKTTAALALAREL-----FGENWRHNFLELN----ASDERGINVIREKV-- 97
Query: 550 HRVSWKKALHSLNERFLDGKKIGKEDDRPCILLIDELDLLVTRNQSVLYNILDWPTKPNS 609
+ F K IG + I+ +DE D L Q L ++ + N
Sbjct: 98 -------------KEFARTKPIGGASFK--IIFLDEADALTQDAQQALRRTMEMFS-SNV 141
Query: 610 KLIVIGIANTMDLPEKLLPRISSRMGVQRLCFGPYNHQQLQEIISSRLKGIEAFEKQAIE 669
+ I+ + + K++ I SR + R F P + I+ RL+ I E + +E
Sbjct: 142 RFIL-----SCNYSSKIIEPIQSRCAIFR--FRPLRDED----IAKRLRYIA--ENEGLE 188
Query: 670 FASRKVAAI----SGDARRALEICRRAAEIADYRIKKQTSNKNSASVGKSLVGMADVEAA 725
+ AI GD RRA+ I + AA + K+ +++N V A E
Sbjct: 189 LTEEGLQAILYIAEGDMRRAINILQAAAA-----LDKKITDENVFMVASR----ARPEDI 239
Query: 726 IQEMFQAPHIQVMKSCSKLSKIFL 749
+ M A +K+ KL +I L
Sbjct: 240 REMMLLALKGNFLKAREKLREILL 263
>pdb|3ZVZ|B Chain B, Phd Finger Of Human Uhrf1
Length = 57
Score = 37.7 bits (86), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 22/49 (44%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 188 VEECRICF-RAGRSVMLECDDCLGGFHLKCLKPPLKEVP-EGEWVCEFC 234
V C +C R L CD+C FH+ CL PPL VP E EW C C
Sbjct: 5 VCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 53
>pdb|3SHB|A Chain A, Crystal Structure Of Phd Domain Of Uhrf1
Length = 77
Score = 37.7 bits (86), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 23/51 (45%), Positives = 26/51 (50%), Gaps = 7/51 (13%)
Query: 191 CRIC---FRAGR---SVMLECDDCLGGFHLKCLKPPLKEVP-EGEWVCEFC 234
CR+C GR L CD+C FH+ CL PPL VP E EW C C
Sbjct: 24 CRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 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 = 37.4 bits (85), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 23/51 (45%), Positives = 26/51 (50%), Gaps = 7/51 (13%)
Query: 191 CRIC---FRAGR---SVMLECDDCLGGFHLKCLKPPLKEVP-EGEWVCEFC 234
CR+C GR L CD+C FH+ CL PPL VP E EW C C
Sbjct: 21 CRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 71
>pdb|3P1L|A Chain A, Crystal Structure Of Escherichia Coli Bamb, A Lipoprotein
Component Of The Beta-Barrel Assembly Machinery Complex,
Native Crystals
Length = 393
Score = 36.6 bits (83), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 29/90 (32%), Positives = 46/90 (51%), Gaps = 4/90 (4%)
Query: 526 VEVNGLKLASPENIYRVIYEALSGHRVSWKKALHSLNERFLDGKKI--GKEDDRPCILLI 583
V VNG+ A N + SG ++ WK+ L S+N+ +DG +I ++DR L I
Sbjct: 253 VVVNGVVFALAYNGNLTALDLRSG-QIMWKRELGSVNDFIVDGNRIYLVDQNDRVMALTI 311
Query: 584 DELDLLVTRNQSVLYNILDWPTKPNSKLIV 613
D L T++ +L+ +L P N L+V
Sbjct: 312 DGGVTLWTQSD-LLHRLLTSPVLYNGNLVV 340
>pdb|3Q7M|A Chain A, The Crystal Structure Of Bamb From The Bam Complex In
Spacegroup I222
pdb|3Q7N|A Chain A, The Crystal Structure Of Bamb From The Bam Complex In
Spacegroup P212121
Length = 376
Score = 36.6 bits (83), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 29/90 (32%), Positives = 46/90 (51%), Gaps = 4/90 (4%)
Query: 526 VEVNGLKLASPENIYRVIYEALSGHRVSWKKALHSLNERFLDGKKI--GKEDDRPCILLI 583
V VNG+ A N + SG ++ WK+ L S+N+ +DG +I ++DR L I
Sbjct: 236 VVVNGVVFALAYNGNLTALDLRSG-QIXWKRELGSVNDFIVDGNRIYLVDQNDRVXALTI 294
Query: 584 DELDLLVTRNQSVLYNILDWPTKPNSKLIV 613
D L T++ +L+ +L P N L+V
Sbjct: 295 DGGVTLWTQSD-LLHRLLTSPVLYNGNLVV 323
>pdb|3Q7O|A Chain A, The Crystal Structure Of Bamb From The Bam Complex In
Spacegroup P213
Length = 376
Score = 36.2 bits (82), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 29/90 (32%), Positives = 46/90 (51%), Gaps = 4/90 (4%)
Query: 526 VEVNGLKLASPENIYRVIYEALSGHRVSWKKALHSLNERFLDGKKI--GKEDDRPCILLI 583
V VNG+ A N + SG ++ WK+ L S+N+ +DG +I ++DR L I
Sbjct: 236 VVVNGVVFALAYNGNLTALDLRSG-QIMWKRELGSVNDFIVDGNRIYLVDQNDRVMALTI 294
Query: 584 DELDLLVTRNQSVLYNILDWPTKPNSKLIV 613
D L T++ +L+ +L P N L+V
Sbjct: 295 DGGVTLWTQSD-LLHRLLTSPVLYNGNLVV 323
>pdb|3PRW|A Chain A, Crystal Structure Of The Lipoprotein Bamb
Length = 377
Score = 36.2 bits (82), Expect = 0.074, Method: Compositional matrix adjust.
Identities = 29/90 (32%), Positives = 46/90 (51%), Gaps = 4/90 (4%)
Query: 526 VEVNGLKLASPENIYRVIYEALSGHRVSWKKALHSLNERFLDGKKI--GKEDDRPCILLI 583
V VNG+ A N + SG ++ WK+ L S+N+ +DG +I ++DR L I
Sbjct: 237 VVVNGVVFALAYNGNLTALDLRSG-QIMWKRELGSVNDFIVDGNRIYLVDQNDRVMALTI 295
Query: 584 DELDLLVTRNQSVLYNILDWPTKPNSKLIV 613
D L T++ +L+ +L P N L+V
Sbjct: 296 DGGVTLWTQSD-LLHRLLTSPVLYNGNLVV 324
>pdb|2YH3|A Chain A, The Structure Of Bamb From E. Coli
Length = 379
Score = 36.2 bits (82), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 29/90 (32%), Positives = 46/90 (51%), Gaps = 4/90 (4%)
Query: 526 VEVNGLKLASPENIYRVIYEALSGHRVSWKKALHSLNERFLDGKKI--GKEDDRPCILLI 583
V VNG+ A N + SG ++ WK+ L S+N+ +DG +I ++DR L I
Sbjct: 231 VVVNGVVFALAYNGNLTALDLRSG-QIMWKRELGSVNDFIVDGNRIYLVDQNDRVMALTI 289
Query: 584 DELDLLVTRNQSVLYNILDWPTKPNSKLIV 613
D L T++ +L+ +L P N L+V
Sbjct: 290 DGGVTLWTQSD-LLHRLLTSPVLYNGNLVV 318
>pdb|3Q54|A Chain A, Crystal Structure Of Escherichia Coli Bamb
Length = 368
Score = 36.2 bits (82), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 29/90 (32%), Positives = 46/90 (51%), Gaps = 4/90 (4%)
Query: 526 VEVNGLKLASPENIYRVIYEALSGHRVSWKKALHSLNERFLDGKKI--GKEDDRPCILLI 583
V VNG+ A N + SG ++ WK+ L S+N+ +DG +I ++DR L I
Sbjct: 228 VVVNGVVFALAYNGNLTALDLRSG-QIMWKRELGSVNDFIVDGNRIYLVDQNDRVMALTI 286
Query: 584 DELDLLVTRNQSVLYNILDWPTKPNSKLIV 613
D L T++ +L+ +L P N L+V
Sbjct: 287 DGGVTLWTQSD-LLHRLLTSPVLYNGNLVV 315
>pdb|1SXJ|C Chain C, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 340
Score = 35.4 bits (80), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 49/203 (24%), Positives = 86/203 (42%), Gaps = 40/203 (19%)
Query: 490 LYIHGVPGTGKTMSVLAVMRSLRSEVESGSIRPYCFVEVNGLKLASPENIYRVIYEALSG 549
L +G PGTGKT +++A+ R + + S + +E+N AS + V+ +
Sbjct: 49 LLFYGPPGTGKTSTIVALAREIYGKNYSNMV-----LELN----ASDDRGIDVVRNQI-- 97
Query: 550 HRVSWKKALHSLNERFLDGKKIGKEDDRPCILLIDELDLLVTRNQSVLYNILDWPTKPNS 609
K S + F G K ++++DE D + Q+ L +++ TK N+
Sbjct: 98 ------KDFASTRQIFSKGFK---------LIILDEADAMTNAAQNALRRVIERYTK-NT 141
Query: 610 KLIVIGIANTMDLPEKLLPRISSRMGVQRLCFGPYNHQQLQEIISSRLKGIEAFEKQAIE 669
+ V+ + KL P + S+ R F P QE I R+ + EK +
Sbjct: 142 RFCVLA-----NYAHKLTPALLSQ--CTRFRFQPLP----QEAIERRIANVLVHEKLKLS 190
Query: 670 FASRK--VAAISGDARRALEICR 690
+ K + +GD RR L + +
Sbjct: 191 PNAEKALIELSNGDMRRVLNVLQ 213
>pdb|2KU3|A Chain A, Solution Structure Of Brd1 Phd1 Finger
Length = 71
Score = 35.4 bits (80), Expect = 0.14, Method: Composition-based stats.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 5/47 (10%)
Query: 191 CRICFRA---GRSVMLECDDCLGGFHLKCLKPPLKEVPEGEWVCEFC 234
C IC +V+L CD C H +C P +PEG+W+C C
Sbjct: 19 CSICMDGESQNSNVILFCDMCNLAVHQECYGVPY--IPEGQWLCRHC 63
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 34.3 bits (77), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 49/107 (45%), Gaps = 31/107 (28%)
Query: 488 RCLYIHGVPGTGKTMSVLAVMRSLRSEVESGSIRPYCFVEVNGLKLASPENIYRVIYEAL 547
R + ++G PGTGKT+ AV E+G+ F +NG PE + ++ E+
Sbjct: 239 RGILLYGPPGTGKTLIARAVAN------ETGAF----FFLING-----PEIMSKLAGESE 283
Query: 548 SGHRVSWKKALHSLNERFLDGKKIGKEDDRPCILLIDELDLLVTRNQ 594
S R ++++A E + P I+ IDELD + + +
Sbjct: 284 SNLRKAFEEA----------------EKNAPAIIFIDELDAIAPKRE 314
>pdb|3CF1|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX
pdb|3CF1|B Chain B, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX
pdb|3CF1|C Chain C, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX
pdb|3CF2|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF2|B Chain B, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF2|C Chain C, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF2|D Chain D, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF3|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADP
pdb|3CF3|B Chain B, Structure Of P97VCP IN COMPLEX WITH ADP
pdb|3CF3|C Chain C, Structure Of P97VCP IN COMPLEX WITH ADP
Length = 806
Score = 34.3 bits (77), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 49/107 (45%), Gaps = 31/107 (28%)
Query: 488 RCLYIHGVPGTGKTMSVLAVMRSLRSEVESGSIRPYCFVEVNGLKLASPENIYRVIYEAL 547
R + ++G PGTGKT+ AV E+G+ F +NG PE + ++ E+
Sbjct: 239 RGILLYGPPGTGKTLIARAVAN------ETGAF----FFLING-----PEIMSKLAGESE 283
Query: 548 SGHRVSWKKALHSLNERFLDGKKIGKEDDRPCILLIDELDLLVTRNQ 594
S R ++++A E + P I+ IDELD + + +
Sbjct: 284 SNLRKAFEEA----------------EKNAPAIIFIDELDAIAPKRE 314
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 34.3 bits (77), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 28/105 (26%), Positives = 46/105 (43%), Gaps = 31/105 (29%)
Query: 488 RCLYIHGVPGTGKTMSVLAVMRSLRSEVESGSIRPYCFVEVNGLKLASPENIYRVIYEAL 547
R + ++G PGTGKTM V AV S ++ F+ VNG E +++ + E
Sbjct: 207 RGVLLYGPPGTGKTMLVKAVANSTKA----------AFIRVNG-----SEFVHKYLGEGP 251
Query: 548 SGHRVSWKKALHSLNERFLDGKKIGKEDDRPCILLIDELDLLVTR 592
R ++ A ++ P I+ IDE+D + T+
Sbjct: 252 RMVRDVFRLA----------------RENAPSIIFIDEVDSIATK 280
>pdb|1E32|A Chain A, Structure Of The N-Terminal Domain And The D1 Aaa Domain
Of Membrane Fusion Atpase P97
pdb|1S3S|A Chain A, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|B Chain B, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|C Chain C, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|D Chain D, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|E Chain E, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|F Chain F, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
Length = 458
Score = 33.9 bits (76), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 49/107 (45%), Gaps = 31/107 (28%)
Query: 488 RCLYIHGVPGTGKTMSVLAVMRSLRSEVESGSIRPYCFVEVNGLKLASPENIYRVIYEAL 547
R + ++G PGTGKT+ AV E+G+ F +NG PE + ++ E+
Sbjct: 239 RGILLYGPPGTGKTLIARAVAN------ETGAF----FFLING-----PEIMSKLAGESE 283
Query: 548 SGHRVSWKKALHSLNERFLDGKKIGKEDDRPCILLIDELDLLVTRNQ 594
S R ++++A E + P I+ IDELD + + +
Sbjct: 284 SNLRKAFEEA----------------EKNAPAIIFIDELDAIAPKRE 314
>pdb|3HU2|A Chain A, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|B Chain B, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|C Chain C, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|D Chain D, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|E Chain E, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|F Chain F, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
Length = 489
Score = 33.9 bits (76), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 49/107 (45%), Gaps = 31/107 (28%)
Query: 488 RCLYIHGVPGTGKTMSVLAVMRSLRSEVESGSIRPYCFVEVNGLKLASPENIYRVIYEAL 547
R + ++G PGTGKT+ AV E+G+ F +NG PE + ++ E+
Sbjct: 239 RGILLYGPPGTGKTLIARAVAN------ETGAF----FFLING-----PEIMSKLAGESE 283
Query: 548 SGHRVSWKKALHSLNERFLDGKKIGKEDDRPCILLIDELDLLVTRNQ 594
S R ++++A E + P I+ IDELD + + +
Sbjct: 284 SNLRKAFEEA----------------EKNAPAIIFIDELDAIAPKRE 314
>pdb|3HU1|A Chain A, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|B Chain B, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|C Chain C, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|D Chain D, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|E Chain E, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|F Chain F, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
Length = 489
Score = 33.9 bits (76), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 49/107 (45%), Gaps = 31/107 (28%)
Query: 488 RCLYIHGVPGTGKTMSVLAVMRSLRSEVESGSIRPYCFVEVNGLKLASPENIYRVIYEAL 547
R + ++G PGTGKT+ AV E+G+ F +NG PE + ++ E+
Sbjct: 239 RGILLYGPPGTGKTLIARAVAN------ETGAF----FFLING-----PEIMSKLAGESE 283
Query: 548 SGHRVSWKKALHSLNERFLDGKKIGKEDDRPCILLIDELDLLVTRNQ 594
S R ++++A E + P I+ IDELD + + +
Sbjct: 284 SNLRKAFEEA----------------EKNAPAIIFIDELDAIAPKRE 314
>pdb|3HU3|A Chain A, Structure Of P97 N-D1 R155h Mutant In Complex With Atpgs
pdb|3HU3|B Chain B, Structure Of P97 N-D1 R155h Mutant In Complex With Atpgs
Length = 489
Score = 33.5 bits (75), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 49/107 (45%), Gaps = 31/107 (28%)
Query: 488 RCLYIHGVPGTGKTMSVLAVMRSLRSEVESGSIRPYCFVEVNGLKLASPENIYRVIYEAL 547
R + ++G PGTGKT+ AV E+G+ F +NG PE + ++ E+
Sbjct: 239 RGILLYGPPGTGKTLIARAVAN------ETGAF----FFLING-----PEIMSKLAGESE 283
Query: 548 SGHRVSWKKALHSLNERFLDGKKIGKEDDRPCILLIDELDLLVTRNQ 594
S R ++++A E + P I+ IDELD + + +
Sbjct: 284 SNLRKAFEEA----------------EKNAPAIIFIDELDAIAPKRE 314
>pdb|2LV9|A Chain A, Solution Nmr Structure Of The Phd Domain Of Human Mll5,
Northeast Structural Genomics Consortium Target Hr6512a
Length = 98
Score = 33.5 bits (75), Expect = 0.55, Method: Composition-based stats.
Identities = 20/74 (27%), Positives = 35/74 (47%), Gaps = 4/74 (5%)
Query: 169 DDVYVKRREDASSDEEDPEVEECRICFRAGRSVMLECDDCLGGFHLKCLKPPLKEVPEGE 228
+++Y + ED S + V C F M+ CD C H+ C+ + +P+
Sbjct: 12 ENLYFQGSEDGSYGTD---VTRCICGFTHDDGYMICCDKCSVWQHIDCMGIDRQHIPD-T 67
Query: 229 WVCEFCEARKLGKK 242
++CE C+ R L K+
Sbjct: 68 YLCERCQPRNLDKE 81
>pdb|2L43|A Chain A, Structural Basis For Histone Code Recognition By
Brpf2-Phd1 Finger
Length = 88
Score = 33.1 bits (74), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 5/47 (10%)
Query: 191 CRICFRA---GRSVMLECDDCLGGFHLKCLKPPLKEVPEGEWVCEFC 234
C IC +V+L CD C H +C P +PEG+W+C C
Sbjct: 28 CSICMDGESQNSNVILFCDMCNLAVHQECYGVPY--IPEGQWLCRHC 72
>pdb|2XSZ|A Chain A, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
pdb|2XSZ|B Chain B, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
pdb|2XSZ|C Chain C, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
Length = 367
Score = 32.7 bits (73), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 22/38 (57%), Gaps = 6/38 (15%)
Query: 487 GRCLYIHGVPGTGKTMSVLAVMRSLRSEVESGSIRPYC 524
GR + + G PGTGKT LA+ + L S+V P+C
Sbjct: 77 GRAVLLAGPPGTGKTALALAIAQELGSKV------PFC 108
>pdb|2C9O|A Chain A, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
pdb|2C9O|B Chain B, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
pdb|2C9O|C Chain C, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
Length = 456
Score = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 22/38 (57%), Gaps = 6/38 (15%)
Query: 487 GRCLYIHGVPGTGKTMSVLAVMRSLRSEVESGSIRPYC 524
GR + + G PGTGKT LA+ + L S+V P+C
Sbjct: 63 GRAVLLAGPPGTGKTALALAIAQELGSKV------PFC 94
>pdb|2CHG|A Chain A, Replication Factor C Domains 1 And 2
pdb|2CHG|B Chain B, Replication Factor C Domains 1 And 2
pdb|2CHG|C Chain C, Replication Factor C Domains 1 And 2
pdb|2CHG|D Chain D, Replication Factor C Domains 1 And 2
Length = 226
Score = 31.2 bits (69), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 53/212 (25%), Positives = 90/212 (42%), Gaps = 44/212 (20%)
Query: 490 LYIHGVPGTGKTMSVLAVMRSLRSEVESGSIRPYCFVEVNGLKLASPENIYRVIYEALSG 549
L G PGTGKT + +A+ R L E + F+E+N AS E V+
Sbjct: 41 LLFSGPPGTGKTATAIALARDLFGENWRDN-----FIEMN----ASDERGIDVVR----- 86
Query: 550 HRVSWKKALHSLNERFLDGKKIGKEDDRPCILLIDELDLLVTRNQSVLYNILDWPTKPNS 609
H + E F IG + I+ +DE D L Q+ L ++ +K +
Sbjct: 87 ---------HKIKE-FARTAPIGGAPFK--IIFLDEADALTADAQAALRRTMEMYSK-SC 133
Query: 610 KLIVIGIANTMDLPEKLLPRISSRMGVQRLCFGPYNHQQLQEIISSRLKGIEAFEKQAIE 669
+ I+ + + +++ I SR V R F P + +++ RL +E EK+ ++
Sbjct: 134 RFIL-----SCNYVSRIIEPIQSRCAVFR--FKPVPKEAMKK----RL--LEICEKEGVK 180
Query: 670 FASRKVAAI----SGDARRALEICRRAAEIAD 697
+ A+ GD R+A+ + AA I +
Sbjct: 181 ITEDGLEALIYISGGDFRKAINALQGAAAIGE 212
>pdb|1WEV|A Chain A, Solution Structure Of Phd Domain In Protein Np_082203
Length = 88
Score = 31.2 bits (69), Expect = 2.6, Method: Composition-based stats.
Identities = 20/67 (29%), Positives = 32/67 (47%), Gaps = 6/67 (8%)
Query: 191 CRICFRAGRSVMLECDDCLGGFHLKCLKPPL--KEV--PEGEWVCEFC--EARKLGKKIE 244
CR A + ++EC +C +H C KP + KEV P W C C + +++ +K +
Sbjct: 22 CRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQMKRMAQKNQ 81
Query: 245 LPKPPEG 251
P G
Sbjct: 82 KSGPSSG 88
>pdb|3K1L|B Chain B, Crystal Structure Of Fancl
pdb|3K1L|A Chain A, Crystal Structure Of Fancl
Length = 381
Score = 30.8 bits (68), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 32/69 (46%), Gaps = 13/69 (18%)
Query: 182 DEEDPEVEECRICFR----AGRSVMLECDD--CLGGFHLKCLKPPLKEVPEGEWV----- 230
DEED E C ICF G ++ CD+ C+ H CL+ K + +G+
Sbjct: 302 DEEDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSF 361
Query: 231 --CEFCEAR 237
C FC+A+
Sbjct: 362 GQCPFCKAK 370
>pdb|1X4I|A Chain A, Solution Structure Of Phd Domain In Inhibitor Of Growth
Protein 3 (Ing3)
Length = 70
Score = 29.6 bits (65), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 24/47 (51%), Gaps = 5/47 (10%)
Query: 193 ICFRAGRSVMLECD--DC-LGGFHLKCLKPPLKEVPEGEWVCEFCEA 236
IC + M+ CD DC + FH C+ L E P+G+W C C A
Sbjct: 10 ICNQVSYGEMVGCDNQDCPIEWFHYGCVG--LTEAPKGKWYCPQCTA 54
>pdb|1SXJ|D Chain D, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 353
Score = 29.3 bits (64), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 4/51 (7%)
Query: 465 RNKEMEDITAFIKGATCDDQCLGRC----LYIHGVPGTGKTMSVLAVMRSL 511
R K ++++TA T + L + +G PGTGKT ++LA+ + L
Sbjct: 32 RPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKEL 82
>pdb|2CHQ|A Chain A, Replication Factor C Adpnp Complex
pdb|2CHQ|B Chain B, Replication Factor C Adpnp Complex
pdb|2CHQ|C Chain C, Replication Factor C Adpnp Complex
pdb|2CHV|A Chain A, Replication Factor C Adpnp Complex
pdb|2CHV|B Chain B, Replication Factor C Adpnp Complex
pdb|2CHV|C Chain C, Replication Factor C Adpnp Complex
pdb|2CHV|D Chain D, Replication Factor C Adpnp Complex
pdb|2CHV|E Chain E, Replication Factor C Adpnp Complex
pdb|2CHV|F Chain F, Replication Factor C Adpnp Complex
Length = 319
Score = 29.3 bits (64), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 54/212 (25%), Positives = 89/212 (41%), Gaps = 44/212 (20%)
Query: 490 LYIHGVPGTGKTMSVLAVMRSLRSEVESGSIRPYCFVEVNGLKLASPENIYRVIYEALSG 549
L G PGTGKT + +A+ R L E + F+E+N AS E V+
Sbjct: 41 LLFSGPPGTGKTATAIALARDLFGENWRDN-----FIEMN----ASDERGIDVVR----- 86
Query: 550 HRVSWKKALHSLNERFLDGKKIGKEDDRPCILLIDELDLLVTRNQSVLYNILDWPTKPNS 609
H + E F IG + I+ +DE D L Q+ L ++ +K +
Sbjct: 87 ---------HKIKE-FARTAPIGGAPFK--IIFLDEADALTADAQAALRRTMEMYSK-SC 133
Query: 610 KLIVIGIANTMDLPEKLLPRISSRMGVQRLCFGPYNHQQLQEIISSRLKGIEAFEKQAIE 669
+ I+ + + +++ I SR V R F P +E + RL +E EK+ ++
Sbjct: 134 RFIL-----SCNYVSRIIEPIQSRCAVFR--FKPVP----KEAMKKRL--LEICEKEGVK 180
Query: 670 FASRKVAAI----SGDARRALEICRRAAEIAD 697
+ A+ GD R+A+ + AA I +
Sbjct: 181 ITEDGLEALIYISGGDFRKAINALQGAAAIGE 212
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
0.318 0.134 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,934,277
Number of Sequences: 62578
Number of extensions: 875051
Number of successful extensions: 2040
Number of sequences better than 100.0: 75
Number of HSP's better than 100.0 without gapping: 32
Number of HSP's successfully gapped in prelim test: 43
Number of HSP's that attempted gapping in prelim test: 1987
Number of HSP's gapped (non-prelim): 82
length of query: 842
length of database: 14,973,337
effective HSP length: 107
effective length of query: 735
effective length of database: 8,277,491
effective search space: 6083955885
effective search space used: 6083955885
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: 56 (26.2 bits)