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= psy16868
(109 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1XEW|X Chain X, Structural Biochemistry Of Atp-Driven Dimerization And
Dna Stimulated Activation Of Smc Atpases.
pdb|1XEX|A Chain A, Structural Biochemistry Of Atp-Driven Dimerization And
Dna Stimulated Activation Of Smc Atpases
Length = 182
Score = 59.7 bits (143), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 37/92 (40%), Positives = 47/92 (51%), Gaps = 2/92 (2%)
Query: 2 YIKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSDS 61
YI+++ + GFKSY + VV PF K +VG NGSGKSN AI FVL S +
Sbjct: 3 YIEKLELKGFKSYGNKKVVIPFSKGFTAIVGANGSGKSNIGDAILFVLGGLSAKAMRASR 62
Query: 62 RQALLHEGTG--PRVVNAYVEIVFDNTDHRVP 91
L+ G+ P A V I F+N D P
Sbjct: 63 ISDLIFAGSKNEPPAKYAEVAIYFNNEDRGFP 94
>pdb|3KTA|A Chain A, Structural Basis For Adenylate Kinase Activity In Abc
Atpases
pdb|3KTA|C Chain C, Structural Basis For Adenylate Kinase Activity In Abc
Atpases
Length = 182
Score = 59.3 bits (142), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 37/92 (40%), Positives = 47/92 (51%), Gaps = 2/92 (2%)
Query: 2 YIKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSDS 61
YI+++ + GFKSY + VV PF K +VG NGSGKSN AI FVL S +
Sbjct: 3 YIEKLELKGFKSYGNKKVVIPFSKGFTAIVGANGSGKSNIGDAILFVLGGLSAKAXRASR 62
Query: 62 RQALLHEGTG--PRVVNAYVEIVFDNTDHRVP 91
L+ G+ P A V I F+N D P
Sbjct: 63 ISDLIFAGSKNEPPAKYAEVAIYFNNEDRGFP 94
>pdb|4I99|A Chain A, Crystal Structure Of The Smchead Bound To The C-winged
Helix Domain Of Scpa
pdb|4I99|B Chain B, Crystal Structure Of The Smchead Bound To The C-winged
Helix Domain Of Scpa
Length = 354
Score = 58.9 bits (141), Expect = 7e-10, Method: Composition-based stats.
Identities = 37/92 (40%), Positives = 47/92 (51%), Gaps = 2/92 (2%)
Query: 2 YIKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSDS 61
YI+++ + GFKSY + VV PF K +VG NGSGKSN AI FVL S +
Sbjct: 3 YIEKLELKGFKSYGNKKVVIPFSKGFTAIVGANGSGKSNIGDAILFVLGGLSAKAXRASR 62
Query: 62 RQALLHEGTG--PRVVNAYVEIVFDNTDHRVP 91
L+ G+ P A V I F+N D P
Sbjct: 63 ISDLIFAGSKNEPPAKYAEVAIYFNNEDRGFP 94
>pdb|3ZGX|A Chain A, Crystal Structure Of The Kleisin-n Smc Interface In
Prokaryotic Condensin
pdb|3ZGX|B Chain B, Crystal Structure Of The Kleisin-n Smc Interface In
Prokaryotic Condensin
Length = 426
Score = 53.1 bits (126), Expect = 3e-08, Method: Composition-based stats.
Identities = 39/107 (36%), Positives = 58/107 (54%), Gaps = 3/107 (2%)
Query: 1 MYIKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDEST-SLRHS 59
M++K++ + GFKS+ E+ V+ F K VVG NGSGKSN AI++VL ++S SLR
Sbjct: 1 MFLKRLDVIGFKSFAERISVD-FVKGVTAVVGPNGSGKSNITDAIRWVLGEQSARSLRGG 59
Query: 60 DSRQALLHEGTGPRVVN-AYVEIVFDNTDHRVPGFIRCRSTSVDLYR 105
+ + +N A V + DN DH +P S + +YR
Sbjct: 60 KMEDIIFAGSDSRKRLNLAEVTLTLDNDDHFLPIDFHEVSVTRRVYR 106
>pdb|1E69|A Chain A, Smc Head Domain From Thermotoga Maritima
pdb|1E69|B Chain B, Smc Head Domain From Thermotoga Maritima
pdb|1E69|C Chain C, Smc Head Domain From Thermotoga Maritima
pdb|1E69|D Chain D, Smc Head Domain From Thermotoga Maritima
pdb|1E69|E Chain E, Smc Head Domain From Thermotoga Maritima
pdb|1E69|F Chain F, Smc Head Domain From Thermotoga Maritima
Length = 322
Score = 52.4 bits (124), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 51/92 (55%), Gaps = 3/92 (3%)
Query: 1 MYIKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSD 60
M +K++ + GFKS+ +++ F R +VG NGSGKSN AI++V ++S +
Sbjct: 1 MRLKKLYLKGFKSFGRPSLIG-FSDRVTAIVGPNGSGKSNIIDAIKWVFGEQSKKELRAS 59
Query: 61 SRQALLHEGTG--PRVVNAYVEIVFDNTDHRV 90
+ ++ G+ P +AYVE+VF+ +
Sbjct: 60 EKFDMIFAGSENLPPAGSAYVELVFEENGEEI 91
>pdb|1W1W|A Chain A, Sc Smc1hd:scc1-c Complex, Atpgs
pdb|1W1W|B Chain B, Sc Smc1hd:scc1-c Complex, Atpgs
pdb|1W1W|C Chain C, Sc Smc1hd:scc1-c Complex, Atpgs
pdb|1W1W|D Chain D, Sc Smc1hd:scc1-c Complex, Atpgs
Length = 430
Score = 39.3 bits (90), Expect = 6e-04, Method: Composition-based stats.
Identities = 25/62 (40%), Positives = 34/62 (54%), Gaps = 1/62 (1%)
Query: 8 IHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSDSRQALLH 67
+ FKSY+ T V + ++G NGSGKSN AI FVL S LR S+ + L++
Sbjct: 9 LSNFKSYRGVTKVGFGESNFTSIIGPNGSGKSNMMDAISFVLGVRSNHLR-SNILKDLIY 67
Query: 68 EG 69
G
Sbjct: 68 RG 69
>pdb|3QKT|A Chain A, Rad50 Abc-Atpase With Adjacent Coiled-Coil Region In
Complex With Amp- Pnp
pdb|3QKT|B Chain B, Rad50 Abc-Atpase With Adjacent Coiled-Coil Region In
Complex With Amp- Pnp
pdb|3QKT|C Chain C, Rad50 Abc-Atpase With Adjacent Coiled-Coil Region In
Complex With Amp- Pnp
pdb|3QKT|D Chain D, Rad50 Abc-Atpase With Adjacent Coiled-Coil Region In
Complex With Amp- Pnp
Length = 339
Score = 37.7 bits (86), Expect = 0.002, Method: Composition-based stats.
Identities = 30/92 (32%), Positives = 52/92 (56%), Gaps = 10/92 (10%)
Query: 1 MYIKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSD 60
M +++V + F+S+ + TVVE F + N+++G+NGSGKS+ AI L LR D
Sbjct: 1 MKLERVTVKNFRSHSD-TVVE-FKEGINLIIGQNGSGKSSLLDAI---LVGLYWPLRIKD 55
Query: 61 SRQALLHEGTGPRVVNAYVEIVF--DNTDHRV 90
++ E T + Y++++F D T +R+
Sbjct: 56 IKK---DEFTKVGARDTYIDLIFEKDGTKYRI 84
>pdb|3QKU|A Chain A, Mre11 Rad50 Binding Domain In Complex With Rad50 And
Amp-Pnp
pdb|3QKU|B Chain B, Mre11 Rad50 Binding Domain In Complex With Rad50 And
Amp-Pnp
Length = 359
Score = 37.7 bits (86), Expect = 0.002, Method: Composition-based stats.
Identities = 30/92 (32%), Positives = 52/92 (56%), Gaps = 10/92 (10%)
Query: 1 MYIKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSD 60
M +++V + F+S+ + TVVE F + N+++G+NGSGKS+ AI L LR D
Sbjct: 1 MKLERVTVKNFRSHSD-TVVE-FKEGINLIIGQNGSGKSSLLDAI---LVGLYWPLRIKD 55
Query: 61 SRQALLHEGTGPRVVNAYVEIVF--DNTDHRV 90
++ E T + Y++++F D T +R+
Sbjct: 56 IKK---DEFTKVGARDTYIDLIFEKDGTKYRI 84
>pdb|1US8|A Chain A, The Rad50 Signature Motif: Essential To Atp Binding And
Biological Function
Length = 147
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 30/92 (32%), Positives = 52/92 (56%), Gaps = 10/92 (10%)
Query: 1 MYIKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSD 60
M +++V + F+S+ + TVVE F + N+++G+NGSGKS+ AI L LR D
Sbjct: 1 MKLERVTVKNFRSHSD-TVVE-FKEGINLIIGQNGSGKSSLLDAI---LVGLYWPLRIKD 55
Query: 61 SRQALLHEGTGPRVVNAYVEIVF--DNTDHRV 90
++ E T + Y++++F D T +R+
Sbjct: 56 IKK---DEFTKVGARDTYIDLIFEKDGTKYRI 84
>pdb|1F2T|A Chain A, Crystal Structure Of Atp-free Rad50 Abc-atpase
pdb|1F2U|A Chain A, Crystal Structure Of Rad50 Abc-Atpase
pdb|1F2U|C Chain C, Crystal Structure Of Rad50 Abc-Atpase
Length = 149
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 30/92 (32%), Positives = 52/92 (56%), Gaps = 10/92 (10%)
Query: 1 MYIKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSD 60
M +++V + F+S+ + TVVE F + N+++G+NGSGKS+ AI L LR D
Sbjct: 1 MKLERVTVKNFRSHSD-TVVE-FKEGINLIIGQNGSGKSSLLDAI---LVGLYWPLRIKD 55
Query: 61 SRQALLHEGTGPRVVNAYVEIVF--DNTDHRV 90
++ E T + Y++++F D T +R+
Sbjct: 56 IKK---DEFTKVGARDTYIDLIFEKDGTKYRI 84
>pdb|3QKR|A Chain A, Mre11 Rad50 Binding Domain Bound To Rad50
pdb|3QKS|A Chain A, Mre11 Rad50 Binding Domain Bound To Rad50
Length = 203
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 30/92 (32%), Positives = 52/92 (56%), Gaps = 10/92 (10%)
Query: 1 MYIKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSD 60
M +++V + F+S+ + TVVE F + N+++G+NGSGKS+ AI L LR D
Sbjct: 1 MKLERVTVKNFRSHSD-TVVE-FKEGINLIIGQNGSGKSSLLDAILVGL---YWPLRIKD 55
Query: 61 SRQALLHEGTGPRVVNAYVEIVF--DNTDHRV 90
++ E T + Y++++F D T +R+
Sbjct: 56 IKK---DEFTKVGARDTYIDLIFEKDGTKYRI 84
>pdb|1II8|A Chain A, Crystal Structure Of The P. Furiosus Rad50 Atpase Domain
Length = 195
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 30/92 (32%), Positives = 52/92 (56%), Gaps = 10/92 (10%)
Query: 1 MYIKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSD 60
M +++V + F+S+ + TVVE F + N+++G+NGSGKS+ AI L LR D
Sbjct: 1 MKLERVTVKNFRSHSD-TVVE-FKEGINLIIGQNGSGKSSLLDAILVGL---YWPLRIKD 55
Query: 61 SRQALLHEGTGPRVVNAYVEIVF--DNTDHRV 90
++ E T + Y++++F D T +R+
Sbjct: 56 IKK---DEFTKVGARDTYIDLIFEKDGTKYRI 84
>pdb|3AUX|A Chain A, Crystal Structure Of Rad50 Bound To Adp
pdb|3AUY|A Chain A, Crystal Structure Of Rad50 Bound To Adp
pdb|3AUY|B Chain B, Crystal Structure Of Rad50 Bound To Adp
pdb|3AV0|B Chain B, Crystal Structure Of Mre11-Rad50 Bound To Atp S
Length = 371
Score = 34.7 bits (78), Expect = 0.012, Method: Composition-based stats.
Identities = 18/49 (36%), Positives = 30/49 (61%), Gaps = 2/49 (4%)
Query: 1 MYIKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVL 49
M +K++ ++ FKS+ + F+K ++G NGSGKS+ F A+ F L
Sbjct: 3 MILKEIRMNNFKSHVNSRI--KFEKGIVAIIGENGSGKSSIFEAVFFAL 49
>pdb|1PH2|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere End-
Binding Protein Complexed With Noncognate Ssdna
Ggggttttg
pdb|1PH5|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere End-
Binding Protein Complexed With Noncognate Ssdna
Ggggttttg(3dr)gg
Length = 459
Score = 31.6 bits (70), Expect = 0.12, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 28/58 (48%), Gaps = 1/58 (1%)
Query: 33 RNGSGKSNFFFAIQFVLSDESTSLRHSDSRQALL-HEGTGPRVVNAYVEIVFDNTDHR 89
+ SGK + F +QF++ D ST L ++ R L +G G N + + N D R
Sbjct: 366 KGASGKGDNIFQVQFLVKDASTQLNNNTYRVLLYTQDGLGANFFNVKADNLHKNADAR 423
>pdb|1OTC|A Chain A, The O. Nova Telomere End Binding Protein Complexed With
Single Strand Dna
pdb|1JB7|A Chain A, Dna G-Quartets In A 1.86 A Resolution Structure Of An
Oxytricha Nova Telomeric Protein-Dna Complex
pdb|1KIX|A Chain A, Dimeric Structure Of The O. Nova Telomere End Binding
Protein Alpha Subunit With Bound Ssdna
pdb|2I0Q|A Chain A, Crystal Structure Of A Telomere Single-Strand Dna-Protein
Complex From O. Nova With Full-Length Alpha And Beta
Telomere Proteins
Length = 495
Score = 31.6 bits (70), Expect = 0.12, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 28/58 (48%), Gaps = 1/58 (1%)
Query: 33 RNGSGKSNFFFAIQFVLSDESTSLRHSDSRQALL-HEGTGPRVVNAYVEIVFDNTDHR 89
+ SGK + F +QF++ D ST L ++ R L +G G N + + N D R
Sbjct: 401 KGASGKGDNIFQVQFLVKDASTQLNNNTYRVLLYTQDGLGANFFNVKADNLHKNADAR 458
>pdb|1PH1|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere End-
Binding Protein Complexed With Noncognate Ssdna
Ggggttttggggt
pdb|1PH6|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere End-
Binding Protein Complexed With Noncognate Ssdna
Ggggttttgtgg
pdb|1PHJ|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere End-
Binding Protein Complexed With Noncognate Ssdna Gg(3dr)
Gttttgggg
Length = 461
Score = 31.6 bits (70), Expect = 0.12, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 28/58 (48%), Gaps = 1/58 (1%)
Query: 33 RNGSGKSNFFFAIQFVLSDESTSLRHSDSRQALL-HEGTGPRVVNAYVEIVFDNTDHR 89
+ SGK + F +QF++ D ST L ++ R L +G G N + + N D R
Sbjct: 367 KGASGKGDNIFQVQFLVKDASTQLNNNTYRVLLYTQDGLGANFFNVKADNLHKNADAR 424
>pdb|1PA6|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere
End-Binding Protein Complexed With Noncognate Ssdna
Ggggttttgagg
pdb|1PH3|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere
End-Binding Protein Complexed With Noncognate Ssdna
Ggggttttggtg
pdb|1PH4|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere
End-Binding Protein Complexed With Noncognate Ssdna
Ggggttttggcg
pdb|1PH7|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere
End-Binding Protein Complexed With Noncognate Ssdna
Ggggttttgigg
pdb|1PH8|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere End-
Binding Protein Complexed With Noncognate Ssdna
Ggggttttgcgg
pdb|1PH9|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere
End-Binding Protein Complexed With Noncognate Ssdna
Ggggttttgagg
Length = 460
Score = 31.6 bits (70), Expect = 0.13, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 28/58 (48%), Gaps = 1/58 (1%)
Query: 33 RNGSGKSNFFFAIQFVLSDESTSLRHSDSRQALL-HEGTGPRVVNAYVEIVFDNTDHR 89
+ SGK + F +QF++ D ST L ++ R L +G G N + + N D R
Sbjct: 366 KGASGKGDNIFQVQFLVKDASTQLNNNTYRVLLYTQDGLGANFFNVKADNLHKNADAR 423
>pdb|2XQ0|A Chain A, Structure Of Yeast Lta4 Hydrolase In Complex With Bestatin
Length = 632
Score = 29.6 bits (65), Expect = 0.45, Method: Composition-based stats.
Identities = 20/62 (32%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 3 IKQVIIHGFKS-YKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSDS 61
+++V I G K+ ++ + EP R +V N S NF IQF +D+ T+L+ +S
Sbjct: 76 VQEVHIDGSKADFQIEQRKEPLGSR---LVINNASCNDNFTLNIQFRTTDKCTALQWLNS 132
Query: 62 RQ 63
+Q
Sbjct: 133 KQ 134
>pdb|2XPY|A Chain A, Structure Of Native Leukotriene A4 Hydrolase From
Saccharomyces Cerevisiae
pdb|2XPZ|A Chain A, Structure Of Native Yeast Lta4 Hydrolase
Length = 632
Score = 29.6 bits (65), Expect = 0.45, Method: Composition-based stats.
Identities = 20/62 (32%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 3 IKQVIIHGFKS-YKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSDS 61
+++V I G K+ ++ + EP R +V N S NF IQF +D+ T+L+ +S
Sbjct: 76 VQEVHIDGSKADFQIEQRKEPLGSR---LVINNASCNDNFTLNIQFRTTDKCTALQWLNS 132
Query: 62 RQ 63
+Q
Sbjct: 133 KQ 134
>pdb|2NYG|A Chain A, Crystal Structure Of Yokd Protein From Bacillus Subtilis
pdb|2NYG|B Chain B, Crystal Structure Of Yokd Protein From Bacillus Subtilis
pdb|2NYG|C Chain C, Crystal Structure Of Yokd Protein From Bacillus Subtilis
pdb|2NYG|D Chain D, Crystal Structure Of Yokd Protein From Bacillus Subtilis
pdb|2NYG|E Chain E, Crystal Structure Of Yokd Protein From Bacillus Subtilis
pdb|2NYG|F Chain F, Crystal Structure Of Yokd Protein From Bacillus Subtilis
Length = 273
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 35/70 (50%), Gaps = 18/70 (25%)
Query: 6 VIIHG---FKSYKE--------QTVVEPFDKRHNVVVGRNGSGKSNFF-------FAIQF 47
+I+ G +K YKE Q V + F+ HN+ VG+ GS F FA ++
Sbjct: 203 IIVEGKRVWKEYKELEFREELFQEVGQAFEAEHNMKVGKVGSANCRLFSLTEAVDFAEKW 262
Query: 48 VLSDESTSLR 57
++++S +++
Sbjct: 263 FINNDSKNIK 272
>pdb|3THO|A Chain A, Crystal Structure Of Mre11:rad50 In Its AtpADP BOUND
STATE
Length = 382
Score = 27.7 bits (60), Expect = 1.8, Method: Composition-based stats.
Identities = 13/21 (61%), Positives = 15/21 (71%)
Query: 29 VVVGRNGSGKSNFFFAIQFVL 49
VV G NG+GKS+ F AI F L
Sbjct: 44 VVEGPNGAGKSSLFEAISFAL 64
>pdb|3QF7|A Chain A, The Mre11:rad50 Complex Forms An Atp Dependent Molecular
Clamp In Dna Double-Strand Break Repair
pdb|3QF7|B Chain B, The Mre11:rad50 Complex Forms An Atp Dependent Molecular
Clamp In Dna Double-Strand Break Repair
Length = 365
Score = 27.7 bits (60), Expect = 1.9, Method: Composition-based stats.
Identities = 13/21 (61%), Positives = 15/21 (71%)
Query: 29 VVVGRNGSGKSNFFFAIQFVL 49
VV G NG+GKS+ F AI F L
Sbjct: 27 VVEGPNGAGKSSLFEAISFAL 47
>pdb|3QG5|A Chain A, The Mre11:rad50 Complex Forms An Atp Dependent Molecular
Clamp In Dna Double-Strand Break Repair
pdb|3QG5|B Chain B, The Mre11:rad50 Complex Forms An Atp Dependent Molecular
Clamp In Dna Double-Strand Break Repair
Length = 365
Score = 27.3 bits (59), Expect = 2.0, Method: Composition-based stats.
Identities = 13/21 (61%), Positives = 15/21 (71%)
Query: 29 VVVGRNGSGKSNFFFAIQFVL 49
VV G NG+GKS+ F AI F L
Sbjct: 27 VVEGPNGAGKSSLFEAISFAL 47
>pdb|2FC9|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 101
Score = 26.9 bits (58), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 33/66 (50%), Gaps = 5/66 (7%)
Query: 13 SYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFV-LSDESTSLRHSDSRQ----ALLH 67
S E+T+ E F+K + V +N +GKS + I+F D +L + R+ A+
Sbjct: 26 SATEETLQEVFEKATFIKVPQNQNGKSKGYAFIEFASFEDAKEALNSCNKREIEGRAIRL 85
Query: 68 EGTGPR 73
E GPR
Sbjct: 86 ELQGPR 91
>pdb|3I4F|A Chain A, Structure Of Putative 3-oxoacyl-reductase From Bacillus
Thuringiensis
pdb|3I4F|B Chain B, Structure Of Putative 3-oxoacyl-reductase From Bacillus
Thuringiensis
pdb|3I4F|C Chain C, Structure Of Putative 3-oxoacyl-reductase From Bacillus
Thuringiensis
pdb|3I4F|D Chain D, Structure Of Putative 3-oxoacyl-reductase From Bacillus
Thuringiensis
Length = 264
Score = 25.8 bits (55), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 15 KEQTVVEPFD-KRHNVVVGRNGSGKSNFFFAIQFVLSDES 53
KE T+ E K HN +GR+G+G+ + I F+ D+S
Sbjct: 199 KEATIQEARQLKEHNTPIGRSGTGE-DIARTISFLCEDDS 237
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.323 0.138 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,295,002
Number of Sequences: 62578
Number of extensions: 121319
Number of successful extensions: 312
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 291
Number of HSP's gapped (non-prelim): 26
length of query: 109
length of database: 14,973,337
effective HSP length: 73
effective length of query: 36
effective length of database: 10,405,143
effective search space: 374585148
effective search space used: 374585148
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)