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= 001556
(1054 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 48.5 bits (114), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/43 (46%), Positives = 28/43 (65%)
Query: 24 RVRLENFMCHSSLQIELGEWVNFITGQNGSGKSAILTALCIAF 66
RV ++NF HS +E E +N I GQNGSGKS++L A+ +
Sbjct: 5 RVTVKNFRSHSDTVVEFKEGINLIIGQNGSGKSSLLDAILVGL 47
>pdb|1II8|A Chain A, Crystal Structure Of The P. Furiosus Rad50 Atpase Domain
Length = 195
Score = 48.5 bits (114), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/43 (46%), Positives = 28/43 (65%)
Query: 24 RVRLENFMCHSSLQIELGEWVNFITGQNGSGKSAILTALCIAF 66
RV ++NF HS +E E +N I GQNGSGKS++L A+ +
Sbjct: 5 RVTVKNFRSHSDTVVEFKEGINLIIGQNGSGKSSLLDAILVGL 47
>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 = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/43 (46%), Positives = 28/43 (65%)
Query: 24 RVRLENFMCHSSLQIELGEWVNFITGQNGSGKSAILTALCIAF 66
RV ++NF HS +E E +N I GQNGSGKS++L A+ +
Sbjct: 5 RVTVKNFRSHSDTVVEFKEGINLIIGQNGSGKSSLLDAILVGL 47
>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 = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/43 (46%), Positives = 28/43 (65%)
Query: 24 RVRLENFMCHSSLQIELGEWVNFITGQNGSGKSAILTALCIAF 66
RV ++NF HS +E E +N I GQNGSGKS++L A+ +
Sbjct: 5 RVTVKNFRSHSDTVVEFKEGINLIIGQNGSGKSSLLDAILVGL 47
>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 = 47.4 bits (111), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 20/43 (46%), Positives = 28/43 (65%)
Query: 24 RVRLENFMCHSSLQIELGEWVNFITGQNGSGKSAILTALCIAF 66
RV ++NF HS +E E +N I GQNGSGKS++L A+ +
Sbjct: 5 RVTVKNFRSHSDTVVEFKEGINLIIGQNGSGKSSLLDAILVGL 47
>pdb|1XEW|Y Chain Y, Structural Biochemistry Of Atp-Driven Dimerization And Dna
Stimulated Activation Of Smc Atpases
Length = 172
Score = 45.8 bits (107), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 50/101 (49%), Gaps = 2/101 (1%)
Query: 935 GISGKININYEEKTLSIEVKMPQDASSSNVRDTRGLSGGERSFSTLCFALALHEMTEAPF 994
G S ++ + E S +++ + +V+ +SGGE++ + L F A+ + APF
Sbjct: 29 GGSARLILENPEDPFSGGLEIEAKPAGKDVKRIEAMSGGEKALTALAFVFAIQKFKPAPF 88
Query: 995 RAMDEFDVFMDAISRKISLDTLVDFALAQGSQWIFITPHDV 1035
DE D +D + K D + + ++ SQ+I IT DV
Sbjct: 89 YLFDEIDAHLDDANVKRVADLIKE--SSKESQFIVITLRDV 127
>pdb|1US8|A Chain A, The Rad50 Signature Motif: Essential To Atp Binding And
Biological Function
Length = 147
Score = 45.8 bits (107), Expect = 1e-04, Method: Composition-based stats.
Identities = 20/45 (44%), Positives = 29/45 (64%)
Query: 22 ITRVRLENFMCHSSLQIELGEWVNFITGQNGSGKSAILTALCIAF 66
+ RV ++NF HS +E E +N I GQNGSGKS++L A+ +
Sbjct: 3 LERVTVKNFRSHSDTVVEFKEGINLIIGQNGSGKSSLLDAILVGL 47
>pdb|3KTA|B Chain B, Structural Basis For Adenylate Kinase Activity In Abc
Atpases
pdb|3KTA|D Chain D, Structural Basis For Adenylate Kinase Activity In Abc
Atpases
Length = 173
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 49/101 (48%), Gaps = 2/101 (1%)
Query: 935 GISGKININYEEKTLSIEVKMPQDASSSNVRDTRGLSGGERSFSTLCFALALHEMTEAPF 994
G S ++ + E S +++ + +V+ SGGE++ + L F A+ + APF
Sbjct: 30 GGSARLILENPEDPFSGGLEIEAKPAGKDVKRIEAXSGGEKALTALAFVFAIQKFKPAPF 89
Query: 995 RAMDEFDVFMDAISRKISLDTLVDFALAQGSQWIFITPHDV 1035
DE D +D + K D + + ++ SQ+I IT DV
Sbjct: 90 YLFDEIDAHLDDANVKRVADLIKE--SSKESQFIVITLRDV 128
>pdb|1XEX|B Chain B, Structural Biochemistry Of Atp-Driven Dimerization And Dna
Stimulated Activation Of Smc Atpases
Length = 172
Score = 44.7 bits (104), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 27/101 (26%), Positives = 50/101 (49%), Gaps = 2/101 (1%)
Query: 935 GISGKININYEEKTLSIEVKMPQDASSSNVRDTRGLSGGERSFSTLCFALALHEMTEAPF 994
G S ++ + E S +++ + +V+ +SGGE++ + L F A+ + APF
Sbjct: 29 GGSARLILENPEDPFSGGLEIEAKPAGKDVKRIEAMSGGEKALTALAFVFAIQKFKPAPF 88
Query: 995 RAMDEFDVFMDAISRKISLDTLVDFALAQGSQWIFITPHDV 1035
D+ D +D + K D + + ++ SQ+I IT DV
Sbjct: 89 YLFDQIDAHLDDANVKRVADLIKE--SSKESQFIVITLRDV 127
>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 = 43.1 bits (100), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 49/101 (48%), Gaps = 2/101 (1%)
Query: 935 GISGKININYEEKTLSIEVKMPQDASSSNVRDTRGLSGGERSFSTLCFALALHEMTEAPF 994
G S ++ + E S +++ + +V+ SGGE++ + L F A+ + APF
Sbjct: 211 GGSARLILENPEDPFSGGLEIEAKPAGKDVKRIEAXSGGEKALTALAFVFAIQKFKPAPF 270
Query: 995 RAMDEFDVFMDAISRKISLDTLVDFALAQGSQWIFITPHDV 1035
DE D +D + K D + + ++ SQ+I IT DV
Sbjct: 271 YLFDEIDAHLDDANVKRVADLIKE--SSKESQFIVITLRDV 309
Score = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 38/154 (24%), Positives = 68/154 (44%), Gaps = 15/154 (9%)
Query: 22 ITRVRLENFMCHSS--LQIELGEWVNFITGQNGSGKSAILTALCIAFGCRAKGTQRAATL 79
I ++ L+ F + + + I + I G NGSGKS I A+ G + RA+ +
Sbjct: 4 IEKLELKGFKSYGNKKVVIPFSKGFTAIVGANGSGKSNIGDAILFVLGGLSAKAXRASRI 63
Query: 80 KDFIKTG------CSYAMVEVELKNRGEDAFKPEIFGDSIIIERRITESTSTTVLKDHQG 133
D I G YA V + N ED P I D ++I RR+ ++ G
Sbjct: 64 SDLIFAGSKNEPPAKYAEVAIYFNN--EDRGFP-IDEDEVVIRRRVYPDGRSSYW--LNG 118
Query: 134 KRVASRKQELLELIDHFNIDVENPCVIMSQDKSR 167
+R + + E+L+++ I + +++ D ++
Sbjct: 119 RR--ATRSEILDILTAAXISPDGYNIVLQGDITK 150
>pdb|4AD8|A Chain A, Crystal Structure Of A Deletion Mutant Of Deinococcus
Radiodurans Recn
Length = 517
Score = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 34/65 (52%), Gaps = 8/65 (12%)
Query: 22 ITRVRLENFMCHSSLQIELGEWVNFITGQNGSGKSAILTALCIAFGCRAKGTQRAATLKD 81
++R+ + N + L++ELG TG+ G+GKS I+ AL + G RA D
Sbjct: 40 LSRLEIRNLATITQLELELGGGFCAFTGETGAGKSIIVDALGLLLGGRAN--------HD 91
Query: 82 FIKTG 86
I++G
Sbjct: 92 LIRSG 96
>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 = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 41/87 (47%)
Query: 919 LKRQLTWQFNGHLGKKGISGKININYEEKTLSIEVKMPQDASSSNVRDTRGLSGGERSFS 978
+ R+LT N ++ G + + I E++ + +K +D LSGGE++ +
Sbjct: 283 IYRELTKNPNSNVELAGGNASLTIEDEDEPFNAGIKYHATPPLKRFKDMEYLSGGEKTVA 342
Query: 979 TLCFALALHEMTEAPFRAMDEFDVFMD 1005
L A++ +PF +DE D +D
Sbjct: 343 ALALLFAINSYQPSPFFVLDEVDAALD 369
Score = 39.3 bits (90), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 36/71 (50%), Gaps = 5/71 (7%)
Query: 20 GTITRVRLENFMCHSSL-QIELGEWVNF--ITGQNGSGKSAILTALCIAFGCRAKGTQRA 76
G + + L NF + + ++ GE NF I G NGSGKS ++ A+ G R+ R+
Sbjct: 2 GRLVGLELSNFKSYRGVTKVGFGES-NFTSIIGPNGSGKSNMMDAISFVLGVRSNHL-RS 59
Query: 77 ATLKDFIKTGC 87
LKD I G
Sbjct: 60 NILKDLIYRGV 70
>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 = 40.8 bits (94), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 48/194 (24%), Positives = 88/194 (45%), Gaps = 22/194 (11%)
Query: 36 LQIELGEWVNFITGQNGSGKSAILTALCIAFGCRAKGTQRAATLKDFIKTGCS----YAM 91
+ ++ + V + G NGSGKS I A+ G ++ + R ++D I G +
Sbjct: 18 ISVDFVKGVTAVVGPNGSGKSNITDAIRWVLGEQSARSLRGGKMEDIIFAGSDSRKRLNL 77
Query: 92 VEVELKNRGEDAFKPEIFGDSIIIERRITESTSTTVLKDHQGKRVASRKQELLELIDHFN 151
EV L +D F P F + + + RR+ S + L ++Q R +++++L
Sbjct: 78 AEVTLTLDNDDHFLPIDFHE-VSVTRRVYRSGESEFLINNQ----PCRLKDIIDLFMDSG 132
Query: 152 IDVENPCVIMSQDKSREFLHS-GNDKD----------KFKATLLQQVNDLLQSIYNHLNK 200
+ E +I SQ K E L S D+ K+K + N L ++ ++LN+
Sbjct: 133 LGKEAFSII-SQGKVEEILSSKAEDRRSIFEEAAGVLKYKTRKKKAENKLFET-QDNLNR 190
Query: 201 GDALVLELEATIKP 214
+ ++ ELE ++P
Sbjct: 191 VEDILHELEGQVEP 204
Score = 30.0 bits (66), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 21/36 (58%)
Query: 970 LSGGERSFSTLCFALALHEMTEAPFRAMDEFDVFMD 1005
LSGGER+ + + ++ ++ PF +DE + +D
Sbjct: 329 LSGGERALTAIALLFSILKVRPVPFCVLDEVEAALD 364
>pdb|4ABY|A Chain A, Crystal Structure Of Deinococcus Radiodurans Recn Head
Domain
pdb|4ABY|B Chain B, Crystal Structure Of Deinococcus Radiodurans Recn Head
Domain
pdb|4ABY|C Chain C, Crystal Structure Of Deinococcus Radiodurans Recn Head
Domain
pdb|4ABY|D Chain D, Crystal Structure Of Deinococcus Radiodurans Recn Head
Domain
Length = 415
Score = 40.8 bits (94), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 34/65 (52%), Gaps = 8/65 (12%)
Query: 22 ITRVRLENFMCHSSLQIELGEWVNFITGQNGSGKSAILTALCIAFGCRAKGTQRAATLKD 81
++R+ + N + L++ELG TG+ G+GKS I+ AL + G RA D
Sbjct: 40 LSRLEIRNLATITQLELELGGGFCAFTGETGAGKSIIVDALGLLLGGRAN--------HD 91
Query: 82 FIKTG 86
I++G
Sbjct: 92 LIRSG 96
>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 = 40.0 bits (92), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 39/78 (50%), Gaps = 10/78 (12%)
Query: 25 VRLENFMCHSSLQIELGEWVNFITGQNGSGKSAILTALCIA-FGCRA---------KGTQ 74
+R+ NF H + +I+ + + I G+NGSGKS+I A+ A FG + KG +
Sbjct: 8 IRMNNFKSHVNSRIKFEKGIVAIIGENGSGKSSIFEAVFFALFGAGSNFNYDTIITKGKK 67
Query: 75 RAATLKDFIKTGCSYAMV 92
DF G +Y ++
Sbjct: 68 SVYVELDFEVNGNNYKII 85
>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 = 37.4 bits (85), Expect = 0.044, Method: Composition-based stats.
Identities = 38/154 (24%), Positives = 69/154 (44%), Gaps = 15/154 (9%)
Query: 22 ITRVRLENFMCHSSLQ--IELGEWVNFITGQNGSGKSAILTALCIAFGCRAKGTQRAATL 79
I ++ L+ F + + + I + I G NGSGKS I A+ G + RA+ +
Sbjct: 4 IEKLELKGFKSYGNKKVVIPFSKGFTAIVGANGSGKSNIGDAILFVLGGLSAKAXRASRI 63
Query: 80 KDFIKTG------CSYAMVEVELKNRGEDAFKPEIFGDSIIIERRITESTSTTVLKDHQG 133
D I G YA V + N ED P I D ++I RR+ ++ + G
Sbjct: 64 SDLIFAGSKNEPPAKYAEVAIYFNN--EDRGFP-IDEDEVVIRRRVYPDGRSSYWLN--G 118
Query: 134 KRVASRKQELLELIDHFNIDVENPCVIMSQDKSR 167
+R + + E+L+++ I + +++ D ++
Sbjct: 119 RR--ATRSEILDILTAAXISPDGYNIVLQGDITK 150
>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 = 37.4 bits (85), Expect = 0.048, Method: Composition-based stats.
Identities = 38/154 (24%), Positives = 69/154 (44%), Gaps = 15/154 (9%)
Query: 22 ITRVRLENFMCHSSLQ--IELGEWVNFITGQNGSGKSAILTALCIAFGCRAKGTQRAATL 79
I ++ L+ F + + + I + I G NGSGKS I A+ G + RA+ +
Sbjct: 4 IEKLELKGFKSYGNKKVVIPFSKGFTAIVGANGSGKSNIGDAILFVLGGLSAKAMRASRI 63
Query: 80 KDFIKTG------CSYAMVEVELKNRGEDAFKPEIFGDSIIIERRITESTSTTVLKDHQG 133
D I G YA V + N ED P I D ++I RR+ ++ + G
Sbjct: 64 SDLIFAGSKNEPPAKYAEVAIYFNN--EDRGFP-IDEDEVVIRRRVYPDGRSSYWLN--G 118
Query: 134 KRVASRKQELLELIDHFNIDVENPCVIMSQDKSR 167
+R + + E+L+++ I + +++ D ++
Sbjct: 119 RR--ATRSEILDILTAAMISPDGYNIVLQGDITK 150
>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 = 35.8 bits (81), Expect = 0.14, Method: Composition-based stats.
Identities = 30/103 (29%), Positives = 46/103 (44%), Gaps = 19/103 (18%)
Query: 910 GKFQRNATLLKRQLTWQFNGHLGKKGISGKININYEEKTL-----SIEVKMPQDASSSNV 964
G +QR R ++ F G G++NI E K++ I ++ P
Sbjct: 165 GSYQRVNESFNRFISLLFFGG------EGRLNIVSEAKSILDAGFEISIRKP------GR 212
Query: 965 RDTRG--LSGGERSFSTLCFALALHEMTEAPFRAMDEFDVFMD 1005
RD + LSGGE++ L AL E+ +PF +DE D +D
Sbjct: 213 RDQKLSLLSGGEKALVGLALLFALMEIKPSPFYVLDEVDSPLD 255
Score = 34.3 bits (77), Expect = 0.39, Method: Composition-based stats.
Identities = 25/71 (35%), Positives = 34/71 (47%), Gaps = 6/71 (8%)
Query: 38 IELGEWVNFITGQNGSGKSAILTALCIAFGCRAKGTQRAATLKDFIKTG------CSYAM 91
I + V I G NGSGKS I+ A+ FG ++K RA+ D I G A
Sbjct: 20 IGFSDRVTAIVGPNGSGKSNIIDAIKWVFGEQSKKELRASEKFDMIFAGSENLPPAGSAY 79
Query: 92 VEVELKNRGED 102
VE+ + GE+
Sbjct: 80 VELVFEENGEE 90
>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 = 34.3 bits (77), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 26/45 (57%), Gaps = 1/45 (2%)
Query: 24 RVRLENFMCHSSLQIELGEWVNFITGQNGSGKSAILTALCIA-FG 67
R+ + NF+ ++ IE + + G NG+GKS++ A+ A FG
Sbjct: 5 RLTVRNFLGLKNVDIEFQSGITVVEGPNGAGKSSLFEAISFALFG 49
>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 = 33.9 bits (76), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 26/45 (57%), Gaps = 1/45 (2%)
Query: 24 RVRLENFMCHSSLQIELGEWVNFITGQNGSGKSAILTALCIA-FG 67
R+ + NF+ ++ IE + + G NG+GKS++ A+ A FG
Sbjct: 5 RLTVRNFLGLKNVDIEFQSGITVVEGPNGAGKSSLFEAISFALFG 49
>pdb|3THO|A Chain A, Crystal Structure Of Mre11:rad50 In Its AtpADP BOUND
STATE
Length = 382
Score = 33.5 bits (75), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 26/45 (57%), Gaps = 1/45 (2%)
Query: 24 RVRLENFMCHSSLQIELGEWVNFITGQNGSGKSAILTALCIA-FG 67
R+ + NF+ ++ IE + + G NG+GKS++ A+ A FG
Sbjct: 22 RLTVRNFLGLKNVDIEFQSGITVVEGPNGAGKSSLFEAISFALFG 66
>pdb|3N4X|A Chain A, Structure Of Csm1 Full-Length
pdb|3N4X|B Chain B, Structure Of Csm1 Full-Length
pdb|3N4X|C Chain C, Structure Of Csm1 Full-Length
pdb|3N4X|D Chain D, Structure Of Csm1 Full-Length
pdb|3N7N|A Chain A, Structure Of Csm1LRS4 COMPLEX
pdb|3N7N|B Chain B, Structure Of Csm1LRS4 COMPLEX
pdb|3N7N|C Chain C, Structure Of Csm1LRS4 COMPLEX
pdb|3N7N|D Chain D, Structure Of Csm1LRS4 COMPLEX
pdb|4EMC|A Chain A, Structure Of A Complex Between S. Cerevisiae Csm1 And Mam1
pdb|4EMC|B Chain B, Structure Of A Complex Between S. Cerevisiae Csm1 And Mam1
Length = 190
Score = 33.1 bits (74), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 13/50 (26%), Positives = 34/50 (68%)
Query: 384 EIDAANITLSRMKEEDSALSEKLSKEKNEIRRISDEIEDYDKKCREIRSE 433
+ID+A++ ++ + E+ LSEKL + EI+++ +I+ + + +E++++
Sbjct: 14 QIDSADLLVANLVNENFVLSEKLDTKATEIKQLQKQIDSLNAQVKELKTQ 63
>pdb|2O5V|A Chain A, Recombination Mediator Recf
Length = 359
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 29/100 (29%), Positives = 43/100 (43%), Gaps = 20/100 (20%)
Query: 1 MGDYRFSSESGYGPQRSGAGTITRVRLENFMCHSSLQIELGEWVNFITGQNGSGKSAILT 60
MGD R S+ S + GT+ NF E V I G+NG+GK+ +L
Sbjct: 1 MGDVRLSALSTLNYRNLAPGTL------NFP----------EGVTGIYGENGAGKTNLLE 44
Query: 61 ALCIAFGCRAKGTQRAATLKDFIKTGCSYAMVEVELKNRG 100
A +A G A ++ I+ G + A V +L+ G
Sbjct: 45 AAYLAL----TGQTDAPRIEQLIQAGETEAYVRADLQQGG 80
>pdb|2I1J|A Chain A, Moesin From Spodoptera Frugiperda At 2.1 Angstroms
Resolution
pdb|2I1K|A Chain A, Moesin From Spodoptera Frugiperda Reveals The Coiled-Coil
Domain At 3.0 Angstrom Resolution
Length = 575
Score = 31.2 bits (69), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 42/81 (51%)
Query: 361 EQHVRNTQAEESEIEAKLKELQCEIDAANITLSRMKEEDSALSEKLSKEKNEIRRISDEI 420
E+ +R QA + E+E + ELQ + T + E L +++ ++ E+ RI E+
Sbjct: 369 EEQLRQLQAAKEELEQRQNELQAMMQRLEETKNMEAAERQKLEDEIRAKQEEVSRIQQEV 428
Query: 421 EDYDKKCREIRSEIRELQQHQ 441
E D + R ++ E+ + ++ Q
Sbjct: 429 ELKDSETRRLQEEVEDARRKQ 449
>pdb|2NQ2|C Chain C, An Inward-Facing Conformation Of A Putative Metal-Chelate
Type Abc Transporter.
pdb|2NQ2|D Chain D, An Inward-Facing Conformation Of A Putative Metal-Chelate
Type Abc Transporter
Length = 253
Score = 30.8 bits (68), Expect = 3.8, Method: Composition-based stats.
Identities = 20/67 (29%), Positives = 32/67 (47%), Gaps = 4/67 (5%)
Query: 965 RDTRGLSGGERSFSTLCFALALHEMTEAPFRAMDEFDVFMDAISRKISLDTLVDFALAQG 1024
R+ LSGG+R + A+A +E +DE +D ++ I L L+D A +Q
Sbjct: 124 REFTSLSGGQRQLILIARAIA----SECKLILLDEPTSALDLANQDIVLSLLIDLAQSQN 179
Query: 1025 SQWIFIT 1031
+F T
Sbjct: 180 MTVVFTT 186
>pdb|1YTZ|T Chain T, Crystal Structure Of Skeletal Muscle Troponin In The Ca2+-
Activated State
pdb|1YV0|T Chain T, Crystal Structure Of Skeletal Muscle Troponin In The Ca2+-
Free State
Length = 107
Score = 30.0 bits (66), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 38/73 (52%), Gaps = 10/73 (13%)
Query: 211 TIKPTEKELSELQRKIRNMEHVEEITQDLQRLKKKLAWSWV-------YDVDRQLKEQTL 263
T + T+K++ +RK N++H+ E D R K K W W+ YD Q+K +
Sbjct: 21 TARETKKKVLAERRKPLNIDHLNE---DKLRDKAKELWDWLYQLQTEKYDFAEQIKRKKY 77
Query: 264 KIEKLKDRIPRCQ 276
+I L++RI + Q
Sbjct: 78 EIVTLRNRIDQAQ 90
>pdb|3E46|A Chain A, Crystal Structure Of Ubiquitin-Conjugating Enzyme E2-25kda
(Huntington Interacting Protein 2) M172a Mutant
pdb|3F92|A Chain A, Crystal Structure Of Ubiquitin-Conjugating Enzyme E2-25kda
(Huntington Interacting Protein 2) M172a Mutant
Crystallized At Ph 8.5
Length = 253
Score = 29.6 bits (65), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 22/91 (24%), Positives = 42/91 (46%), Gaps = 6/91 (6%)
Query: 345 MVNRVKGL-EQQVHDIQEQHVRNTQAEESEIEAKLKELQCEIDAANITLSRMKEEDSALS 403
+V R G+ E + QH+ + + + + ++ E D ANI + R+K E +
Sbjct: 11 LVPRGSGMKETAAAKFERQHMDSPDLGTDDDDKAMADIGSEFDMANIAVQRIKREFKEVL 70
Query: 404 EKLSKEKNEIRRISDEIEDYDKKCREIRSEI 434
+ KN+I+ ++ D+ E+R EI
Sbjct: 71 KSEETSKNQIK-----VDLVDENFTELRGEI 96
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
0.316 0.131 0.367
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 27,812,677
Number of Sequences: 62578
Number of extensions: 1081493
Number of successful extensions: 5440
Number of sequences better than 100.0: 89
Number of HSP's better than 100.0 without gapping: 32
Number of HSP's successfully gapped in prelim test: 57
Number of HSP's that attempted gapping in prelim test: 5291
Number of HSP's gapped (non-prelim): 168
length of query: 1054
length of database: 14,973,337
effective HSP length: 109
effective length of query: 945
effective length of database: 8,152,335
effective search space: 7703956575
effective search space used: 7703956575
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 57 (26.6 bits)