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= 002240
(948 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SQD|A Chain A, Crystal Structure Of Human Ptip Brct56-Gamma H2ax Complex
pdb|3SQD|B Chain B, Crystal Structure Of Human Ptip Brct56-Gamma H2ax Complex
Length = 219
Score = 105 bits (263), Expect = 8e-23, Method: Compositional matrix adjust.
Identities = 62/190 (32%), Positives = 96/190 (50%), Gaps = 4/190 (2%)
Query: 735 IKQQKKILDRLGASEVSSITDATHFVTDIFVRTRNMLEAIASGKPVVTHLWLESIAQVKI 794
++Q K L LG S TH + RT L AI+ K +VT WLE + +
Sbjct: 29 VQQYIKKLYILGGEVAESAQKCTHLIASKVTRTVKFLTAISVVKHIVTPEWLEECFRCQK 88
Query: 795 HIDEESYLLRDTKKEKEFGFSMPASLARARKHPLLKDQRVLITPNIKPSKETISSLIKSV 854
IDE++Y+LRD + E F FS+ SL RA PL K + ITP I PS T+ ++++
Sbjct: 89 FIDEQNYILRDAEAEVLFSFSLEESLKRAHVSPLFKAKYFYITPGICPSLSTMKAIVECA 148
Query: 855 HGQAVER---LGRSAXXXXXXXXXXXIL-SCEEDYEICEPFLEKGAAVYSSELLLNGMVT 910
G+ + + + IL SCE D +C + +G V+++E +L G++T
Sbjct: 149 GGKVLSKQPSFRKLMEHKQNSSLSEIILISCENDLHLCREYFARGIDVHNAEFVLTGVLT 208
Query: 911 QKLEYERHRL 920
Q L+YE ++
Sbjct: 209 QTLDYESYKF 218
>pdb|3K05|A Chain A, The Crystal Structure Of Mdc1 Brct T2067d In Complex With
A Minimal Recognition Tetrapeptide With An Amidated
C-Terminus
pdb|3K05|B Chain B, The Crystal Structure Of Mdc1 Brct T2067d In Complex With
A Minimal Recognition Tetrapeptide With An Amidated
C-Terminus
Length = 200
Score = 91.3 bits (225), Expect = 2e-18, Method: Composition-based stats.
Identities = 55/194 (28%), Positives = 99/194 (51%), Gaps = 10/194 (5%)
Query: 723 QVLFSHHLDEDIIKQQKKILDRLGASEVSSITDATHFVTDIFVRTRNMLEAIASGKPVVT 782
+VLF+ +D + ++ +L LG S S +A+H VTD RT L A+ G P+++
Sbjct: 5 KVLFTGVVDA---RGERAVL-ALGGSLAGSAAEASHLVTDRIRRTVKFLCALGRGIPILS 60
Query: 783 HLWLESIAQVKIHIDEESYLLRDTKKEKEFGFSMPASLARARKHPLLKDQRVLITPNIKP 842
WL + + + Y++ D ++EK FGFS+ +L+RAR+ LL+ + +TP ++P
Sbjct: 61 LDWLHQSRKAGFFLPPDEYVVTDPEQEKNFGFSLQDALSRARERRLLEGYEIYVTPGVQP 120
Query: 843 SKETISSLIKSVHGQAVERLGRSAXXXXXXXXXXXILSCEEDYEICEPFLEKGAAVYSSE 902
+ +I G + + RS +++C +D+ C L G + S E
Sbjct: 121 PPPQMGEIISCCGGTYLPSMPRS------YKPQRVVITCPQDFPHCSIPLRVGLPLLSPE 174
Query: 903 LLLNGMVTQKLEYE 916
LL+G++ Q+ + E
Sbjct: 175 FLLDGVLKQEAKPE 188
>pdb|2ADO|A Chain A, Crystal Structure Of The Brct Repeat Region From The
Mediator Of Dna Damage Checkpoint Protein 1, Mdc1
pdb|2ADO|B Chain B, Crystal Structure Of The Brct Repeat Region From The
Mediator Of Dna Damage Checkpoint Protein 1, Mdc1
Length = 196
Score = 91.3 bits (225), Expect = 3e-18, Method: Composition-based stats.
Identities = 55/194 (28%), Positives = 98/194 (50%), Gaps = 10/194 (5%)
Query: 723 QVLFSHHLDEDIIKQQKKILDRLGASEVSSITDATHFVTDIFVRTRNMLEAIASGKPVVT 782
+VLF+ +D + ++ +L LG S S +A+H VTD RT L A+ G P+++
Sbjct: 4 KVLFTGVVDA---RGERAVL-ALGGSLAGSAAEASHLVTDRIRRTVKFLCALGRGIPILS 59
Query: 783 HLWLESIAQVKIHIDEESYLLRDTKKEKEFGFSMPASLARARKHPLLKDQRVLITPNIKP 842
WL + + + Y++ D ++EK FGFS+ +L+RAR+ LL+ + +TP ++P
Sbjct: 60 LDWLHQSRKAGFFLPPDEYVVTDPEQEKNFGFSLQDALSRARERRLLEGYEIYVTPGVQP 119
Query: 843 SKETISSLIKSVHGQAVERLGRSAXXXXXXXXXXXILSCEEDYEICEPFLEKGAAVYSSE 902
+ +I G + + RS +++C +D+ C L G + S E
Sbjct: 120 PPPQMGEIISCCGGTYLPSMPRS------YKPQRVVITCPQDFPHCSIPLRVGLPLLSPE 173
Query: 903 LLLNGMVTQKLEYE 916
LL G++ Q+ + E
Sbjct: 174 FLLTGVLKQEAKPE 187
>pdb|2ETX|A Chain A, Crystal Structure Of Mdc1 Tandem Brct Domains
pdb|2ETX|B Chain B, Crystal Structure Of Mdc1 Tandem Brct Domains
Length = 209
Score = 90.1 bits (222), Expect = 5e-18, Method: Composition-based stats.
Identities = 55/194 (28%), Positives = 98/194 (50%), Gaps = 10/194 (5%)
Query: 723 QVLFSHHLDEDIIKQQKKILDRLGASEVSSITDATHFVTDIFVRTRNMLEAIASGKPVVT 782
+VLF+ +D + ++ +L LG S S +A+H VTD RT L A+ G P+++
Sbjct: 14 KVLFTGVVDA---RGERAVL-ALGGSLAGSAAEASHLVTDRIRRTVKFLCALGRGIPILS 69
Query: 783 HLWLESIAQVKIHIDEESYLLRDTKKEKEFGFSMPASLARARKHPLLKDQRVLITPNIKP 842
WL + + + Y++ D ++EK FGFS+ +L+RAR+ LL+ + +TP ++P
Sbjct: 70 LDWLHQSRKAGFFLPPDEYVVTDPEQEKNFGFSLQDALSRARERRLLEGYEIYVTPGVQP 129
Query: 843 SKETISSLIKSVHGQAVERLGRSAXXXXXXXXXXXILSCEEDYEICEPFLEKGAAVYSSE 902
+ +I G + + RS +++C +D+ C L G + S E
Sbjct: 130 PPPQMGEIISCCGGTYLPSMPRS------YKPQRVVITCPQDFPHCSIPLRVGLPLLSPE 183
Query: 903 LLLNGMVTQKLEYE 916
LL G++ Q+ + E
Sbjct: 184 FLLTGVLKQEAKPE 197
>pdb|2AZM|A Chain A, Crystal Structure Of The Mdc1 Brct Repeat In Complex With
The Histone Tail Of Gamma-H2ax
pdb|2AZM|B Chain B, Crystal Structure Of The Mdc1 Brct Repeat In Complex With
The Histone Tail Of Gamma-H2ax
Length = 207
Score = 77.8 bits (190), Expect = 3e-14, Method: Composition-based stats.
Identities = 55/194 (28%), Positives = 96/194 (49%), Gaps = 10/194 (5%)
Query: 723 QVLFSHHLDEDIIKQQKKILDRLGASEVSSITDATHFVTDIFVRTRNMLEAIASGKPVVT 782
+VLF+ +D + ++ +L LG S S +A+H VTD RT L A+ G P+++
Sbjct: 12 KVLFTGVVDA---RGERAVL-ALGGSLAGSAAEASHLVTDRIRRTVKFLCALGRGIPILS 67
Query: 783 HLWLESIAQVKIHIDEESYLLRDTKKEKEFGFSMPASLARARKHPLLKDQRVLITPNIKP 842
WL + + + Y++ D ++EK FGFS+ +L+RAR+ LL+ + +TP ++P
Sbjct: 68 LDWLHQSRKAGFFLPPDEYVVTDPEQEKNFGFSLQDALSRARERRLLEGYEIYVTPGVQP 127
Query: 843 SKETISSLIKSVHGQAVERLGRSAXXXXXXXXXXXILSCEEDYEICEPFLEKGAAVYSSE 902
+I G + RS +++C +D+ C L G + S E
Sbjct: 128 PPPQXGEIISCCGGTYLPSXPRS------YKPQRVVITCPQDFPHCSIPLRVGLPLLSPE 181
Query: 903 LLLNGMVTQKLEYE 916
LL G++ Q+ + E
Sbjct: 182 FLLTGVLKQEAKPE 195
>pdb|3L40|A Chain A, Crystal Structure Of S. Pombe Brc1 Brct5-Brct6 Domains
pdb|3L40|B Chain B, Crystal Structure Of S. Pombe Brc1 Brct5-Brct6 Domains
pdb|3L41|A Chain A, Crystal Structure Of S. Pombe Brc1 Brct5-Brct6 Domains In
Complex With Phosphorylated H2a
Length = 220
Score = 60.8 bits (146), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 50/165 (30%), Positives = 76/165 (46%), Gaps = 15/165 (9%)
Query: 742 LDRLGASEVSSITDATHFVTDIFVRTRNMLEAIASGKPVVTHLWLESIAQVKIHIDEESY 801
L +L S S+ + TH + +RT L +I G VVT W+ S + +DEE Y
Sbjct: 25 LKKLDMSITSNPSKCTHLIAPRILRTSKFLCSIPYGPCVVTMDWINSCLKTHEIVDEEPY 84
Query: 802 LLRDTKKEKEFGFSMPASLARARKH--PLLKDQRVLITP-NIKPSK-ETISSLIKSVHGQ 857
LL D +KE E G ++ ++L RAR LL+D V +T + P + S++KS G
Sbjct: 85 LLNDPEKELELGCTLESALKRARAQGPSLLEDYVVYLTSKTVAPENVPAVISIVKSNGGV 144
Query: 858 AV------ERLGRSAXXXXXXXXXXXILSCEEDYEICEPFLEKGA 896
+RL R +++C ED I FL+ +
Sbjct: 145 CSTLNVYNKRLARHL-----EDGNVVLITCNEDSHIWTNFLDNAS 184
>pdb|2VXC|A Chain A, Structure Of The Crb2-Brct2 Domain Complex With
Phosphopeptide.
pdb|2VXC|B Chain B, Structure Of The Crb2-Brct2 Domain Complex With
Phosphopeptide
Length = 242
Score = 30.8 bits (68), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 34/129 (26%), Positives = 52/129 (40%), Gaps = 11/129 (8%)
Query: 730 LDEDIIKQQKKILDRLGASEVSSITDATHFVTDIFVRTRNMLEAIASGKPVVTHLWLESI 789
L D K ++K L L + S + V+D F R LEA+A P V +++
Sbjct: 44 LFNDPFKSKQKKLRHLKPQKRSKSWNQAFVVSDTFSRKVKYLEALAFNIPCVHPQFIKQC 103
Query: 790 AQVKIHIDEESYLLRD--------TKKEKEFGFSMPASLA---RARKHPLLKDQRVLITP 838
++ +D YLL T ++ F SL ARK PL + + I P
Sbjct: 104 LKMNRVVDFSPYLLASGYSHRLDCTLSQRIEPFDTTDSLYDRLLARKGPLFGKKILFIIP 163
Query: 839 NIKPSKETI 847
K ++ I
Sbjct: 164 EAKSWQKKI 172
>pdb|2VXB|A Chain A, Structure Of The Crb2-Brct2 Domain
pdb|2VXB|B Chain B, Structure Of The Crb2-Brct2 Domain
Length = 241
Score = 30.8 bits (68), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 34/129 (26%), Positives = 52/129 (40%), Gaps = 11/129 (8%)
Query: 730 LDEDIIKQQKKILDRLGASEVSSITDATHFVTDIFVRTRNMLEAIASGKPVVTHLWLESI 789
L D K ++K L L + S + V+D F R LEA+A P V +++
Sbjct: 43 LFNDPFKSKQKKLRHLKPQKRSKSWNQAFVVSDTFSRKVKYLEALAFNIPCVHPQFIKQC 102
Query: 790 AQVKIHIDEESYLLRD--------TKKEKEFGFSMPASLA---RARKHPLLKDQRVLITP 838
++ +D YLL T ++ F SL ARK PL + + I P
Sbjct: 103 LKMNRVVDFSPYLLASGYSHRLDCTLSQRIEPFDTTDSLYDRLLARKGPLFGKKILFIIP 162
Query: 839 NIKPSKETI 847
K ++ I
Sbjct: 163 EAKSWQKKI 171
>pdb|3ZYV|A Chain A, Crystal Structure Of The Mouse Liver Aldehyde Oxydase 3
(Maox3)
pdb|3ZYV|B Chain B, Crystal Structure Of The Mouse Liver Aldehyde Oxydase 3
(Maox3)
pdb|3ZYV|C Chain C, Crystal Structure Of The Mouse Liver Aldehyde Oxydase 3
(Maox3)
pdb|3ZYV|D Chain D, Crystal Structure Of The Mouse Liver Aldehyde Oxydase 3
(Maox3)
Length = 1335
Score = 30.0 bits (66), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 1/64 (1%)
Query: 44 LKDNETEKGLRNGNSCRVGSSTVRKLFTEDSVSQDKGLPNNGDNAAGGENLLQFPVNDDE 103
LK +T G + N +G + +L T D ++ G+ N N A E + Q P+ND
Sbjct: 338 LKQLKTLAGQQIRNVASLGGHIISRLPTSD-LNPILGIGNCILNVASTEGIQQIPLNDHF 396
Query: 104 LAGL 107
LAG+
Sbjct: 397 LAGV 400
>pdb|2J6I|A Chain A, Candida Boidinii Formate Dehydrogenase (Fdh) C-Terminal
Mutant
pdb|2J6I|B Chain B, Candida Boidinii Formate Dehydrogenase (Fdh) C-Terminal
Mutant
pdb|2J6I|C Chain C, Candida Boidinii Formate Dehydrogenase (Fdh) C-Terminal
Mutant
pdb|2J6I|D Chain D, Candida Boidinii Formate Dehydrogenase (Fdh) C-Terminal
Mutant
Length = 364
Score = 30.0 bits (66), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 34/74 (45%), Gaps = 3/74 (4%)
Query: 712 DLRKRRDMASIQVLFSHHLDEDIIKQQKKILDRLGASEVSSITDATHFVTDIFVRTRNML 771
D K+ + + + S H+D D I Q K + L + + ++ A H V + V RN +
Sbjct: 80 DKAKKLKLVVVAGVGSDHIDLDYINQTGKKISVLEVTGSNVVSVAEHVVMTMLVLVRNFV 139
Query: 772 EAIASGKPVVTHLW 785
A + ++ H W
Sbjct: 140 PA---HEQIINHDW 150
>pdb|2FSS|A Chain A, Candida Boidinii Formate Dehydrogenase (Fdh) K47e Mutant
pdb|2FSS|B Chain B, Candida Boidinii Formate Dehydrogenase (Fdh) K47e Mutant
pdb|2FSS|C Chain C, Candida Boidinii Formate Dehydrogenase (Fdh) K47e Mutant
pdb|2FSS|D Chain D, Candida Boidinii Formate Dehydrogenase (Fdh) K47e Mutant
Length = 365
Score = 30.0 bits (66), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 34/74 (45%), Gaps = 3/74 (4%)
Query: 712 DLRKRRDMASIQVLFSHHLDEDIIKQQKKILDRLGASEVSSITDATHFVTDIFVRTRNML 771
D K+ + + + S H+D D I Q K + L + + ++ A H V + V RN +
Sbjct: 81 DKAKKLKLVVVAGVGSDHIDLDYINQTGKKISVLEVTGSNVVSVAEHVVMTMLVLVRNFV 140
Query: 772 EAIASGKPVVTHLW 785
A + ++ H W
Sbjct: 141 PA---HEQIINHDW 151
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 0.129 0.363
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 24,413,359
Number of Sequences: 62578
Number of extensions: 923519
Number of successful extensions: 1620
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1609
Number of HSP's gapped (non-prelim): 12
length of query: 948
length of database: 14,973,337
effective HSP length: 108
effective length of query: 840
effective length of database: 8,214,913
effective search space: 6900526920
effective search space used: 6900526920
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: 56 (26.2 bits)