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= 001073
(1163 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3L51|A Chain A, Crystal Structure Of The Mouse Condensin Hinge Domain
Length = 161
Score = 176 bits (445), Expect = 1e-43, Method: Composition-based stats.
Identities = 87/154 (56%), Positives = 113/154 (73%)
Query: 491 VQFTYRDPVKNFDRAKVKGVVAKLIKVKDSSTMTALEVTAGGKLFNVIVDTESTGKQLLQ 550
+QF Y+DP KN++R VKG+VA LI VKD+ST TALEV AG +L+NV+VDTE T K+LL+
Sbjct: 1 LQFAYKDPEKNWNRNSVKGLVASLINVKDNSTATALEVVAGERLYNVVVDTEVTAKKLLE 60
Query: 551 NGDLRRRVTIIPLNKIQSHTVPPRVQQAAVRLVGKENAELALSLVGYSDELKTAMEYVFG 610
G+L+RR TIIPLNKI + + P + A LVG +N +ALSLV Y EL+ E+VFG
Sbjct: 61 KGELKRRYTIIPLNKISARCIAPETLRVAQNLVGPDNVHVALSLVDYKPELQKGXEFVFG 120
Query: 611 STFVCKSIDAAKEVAFSREIRTPSVTLEGDIFQP 644
+TFVC + D AK+VAF + I T +VTL GD+F P
Sbjct: 121 TTFVCNNXDNAKKVAFDKRIXTRTVTLGGDVFDP 154
>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 = 102 bits (253), Expect = 2e-21, Method: Composition-based stats.
Identities = 61/175 (34%), Positives = 104/175 (59%), Gaps = 7/175 (4%)
Query: 2 YIKEICLEGFKSYASRTVVPGFDPYFNAITGLNGSGKSNILDSICFVLGITNLQQVRASN 61
YI+++ L+GFKSY ++ VV F F AI G NGSGKSNI D+I FVLG + + +RAS
Sbjct: 3 YIEKLELKGFKSYGNKKVVIPFSKGFTAIVGANGSGKSNIGDAILFVLGGLSAKAMRASR 62
Query: 62 LQELVY--KQGQAGITKATVSIVFDNSDRSRSPLGYEDHPEITVTRQIVVGGRNKYLING 119
+ +L++ + + A V+I F+N DR P+ D E+ + R++ GR+ Y +NG
Sbjct: 63 ISDLIFAGSKNEPPAKYAEVAIYFNNEDRG-FPI---DEDEVVIRRRVYPDGRSSYWLNG 118
Query: 120 KLAQPSQVQTLFHSVQLNVNNPHFLIMQGRITKVLNMKPPEILSMLEEAAGTRMY 174
+ A S++ + + ++ + + +++QG ITK + M P E ++++ +G Y
Sbjct: 119 RRATRSEILDILTAAMISPDG-YNIVLQGDITKFIKMSPLERRLLIDDISGIAEY 172
>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 = 98.2 bits (243), Expect = 2e-20, Method: Composition-based stats.
Identities = 60/175 (34%), Positives = 102/175 (58%), Gaps = 7/175 (4%)
Query: 2 YIKEICLEGFKSYASRTVVPGFDPYFNAITGLNGSGKSNILDSICFVLGITNLQQVRASN 61
YI+++ L+GFKSY ++ VV F F AI G NGSGKSNI D+I FVLG + + RAS
Sbjct: 3 YIEKLELKGFKSYGNKKVVIPFSKGFTAIVGANGSGKSNIGDAILFVLGGLSAKAXRASR 62
Query: 62 LQELVY--KQGQAGITKATVSIVFDNSDRSRSPLGYEDHPEITVTRQIVVGGRNKYLING 119
+ +L++ + + A V+I F+N DR P+ D E+ + R++ GR+ Y +NG
Sbjct: 63 ISDLIFAGSKNEPPAKYAEVAIYFNNEDRG-FPI---DEDEVVIRRRVYPDGRSSYWLNG 118
Query: 120 KLAQPSQVQTLFHSVQLNVNNPHFLIMQGRITKVLNMKPPEILSMLEEAAGTRMY 174
+ A S++ + + ++ + + +++QG ITK + P E ++++ +G Y
Sbjct: 119 RRATRSEILDILTAAXISPDG-YNIVLQGDITKFIKXSPLERRLLIDDISGIAEY 172
>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 = 97.4 bits (241), Expect = 4e-20, Method: Composition-based stats.
Identities = 60/175 (34%), Positives = 102/175 (58%), Gaps = 7/175 (4%)
Query: 2 YIKEICLEGFKSYASRTVVPGFDPYFNAITGLNGSGKSNILDSICFVLGITNLQQVRASN 61
YI+++ L+GFKSY ++ VV F F AI G NGSGKSNI D+I FVLG + + RAS
Sbjct: 3 YIEKLELKGFKSYGNKKVVIPFSKGFTAIVGANGSGKSNIGDAILFVLGGLSAKAXRASR 62
Query: 62 LQELVY--KQGQAGITKATVSIVFDNSDRSRSPLGYEDHPEITVTRQIVVGGRNKYLING 119
+ +L++ + + A V+I F+N DR P+ D E+ + R++ GR+ Y +NG
Sbjct: 63 ISDLIFAGSKNEPPAKYAEVAIYFNNEDRG-FPI---DEDEVVIRRRVYPDGRSSYWLNG 118
Query: 120 KLAQPSQVQTLFHSVQLNVNNPHFLIMQGRITKVLNMKPPEILSMLEEAAGTRMY 174
+ A S++ + + ++ + + +++QG ITK + P E ++++ +G Y
Sbjct: 119 RRATRSEILDILTAAXISPDG-YNIVLQGDITKFIKXSPLERRLLIDDISGIAEY 172
Score = 75.1 bits (183), Expect = 2e-13, Method: Composition-based stats.
Identities = 47/138 (34%), Positives = 72/138 (52%), Gaps = 3/138 (2%)
Query: 1018 TWVKVNKDFGSIFSTLLPGTMAKL--EPPEGGNFLDGLEVCVAFGGVWKQSLSELSGGQR 1075
T+ ++++F IF+ L PG A+L E PE F GLE+ G + + SGG++
Sbjct: 193 TFEAISRNFSEIFAKLSPGGSARLILENPED-PFSGGLEIEAKPAGKDVKRIEAXSGGEK 251
Query: 1076 XXXXXXXXXXXXXFKPAPLYILDEVDAALDLSHTQNIGRMIKTHFPHSQFIVVSLKEGMF 1135
FKPAP Y+ DE+DA LD ++ + + +IK SQFIV++L++
Sbjct: 252 ALTALAFVFAIQKFKPAPFYLFDEIDAHLDDANVKRVADLIKESSKESQFIVITLRDVXX 311
Query: 1136 NNANVLFRTKFVDGVSTV 1153
NA+ + DGVS V
Sbjct: 312 ANADKIIGVSXRDGVSKV 329
>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 = 85.9 bits (211), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 58/201 (28%), Positives = 103/201 (51%), Gaps = 8/201 (3%)
Query: 1 MYIKEICLEGFKSYASRTVVPGFDPYFNAITGLNGSGKSNILDSICFVLGITNLQQVRAS 60
M++K + + GFKS+A R V F A+ G NGSGKSNI D+I +VLG + + +R
Sbjct: 1 MFLKRLDVIGFKSFAERISVD-FVKGVTAVVGPNGSGKSNITDAIRWVLGEQSARSLRGG 59
Query: 61 NLQELVY--KQGQAGITKATVSIVFDNSDRSRSPLGYEDHPEITVTRQIVVGGRNKYLIN 118
++++++ + + A V++ DN D P+ D E++VTR++ G +++LIN
Sbjct: 60 KMEDIIFAGSDSRKRLNLAEVTLTLDNDDHFL-PI---DFHEVSVTRRVYRSGESEFLIN 115
Query: 119 GKLAQPSQVQTLFHSVQLNVNNPHFLIMQGRITKVLNMKPPEILSMLEEAAGTRMYXXXX 178
+ + + LF L +I QG++ ++L+ K + S+ EEAAG Y
Sbjct: 116 NQPCRLKDIIDLFMDSGLG-KEAFSIISQGKVEEILSSKAEDRRSIFEEAAGVLKYKTRK 174
Query: 179 XXXXXXXXXXQSKVDEINNLL 199
Q ++ + ++L
Sbjct: 175 KKAENKLFETQDNLNRVEDIL 195
Score = 72.8 bits (177), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 54/200 (27%), Positives = 95/200 (47%), Gaps = 4/200 (2%)
Query: 946 DPYKAREELEK--LQAEQSGLEKRVNKKVMAMFEKAEDEYNDLMSKKNIIENDKSKIKKV 1003
+P K + + K L+ + GL VN + FE+ + Y L +K + K+ + +V
Sbjct: 203 EPLKIQASIAKDYLEKKGPGL-GTVNLGSIDEFERVNERYKFLSEQKEDLTEAKNTLFQV 261
Query: 1004 IXXXXXXXXXXXXVTWVKVNKDFGSIFSTLLPGTMAKLEPPEGGNFL-DGLEVCVAFGGV 1062
I T+V++ F +F +L G A+L + + L G+E+ G
Sbjct: 262 IEEMDEEMTKRFNDTFVQIRSHFDQVFRSLFGGGRAELRLTDPNDLLHSGVEIIAQPPGK 321
Query: 1063 WKQSLSELSGGQRXXXXXXXXXXXXXFKPAPLYILDEVDAALDLSHTQNIGRMIKTHFPH 1122
Q+L+ LSGG+R +P P +LDEV+AALD ++ + +K +
Sbjct: 322 KLQNLNLLSGGERALTAIALLFSILKVRPVPFCVLDEVEAALDEANVFRFAQYLKKYSSD 381
Query: 1123 SQFIVVSLKEGMFNNANVLF 1142
+QFIV++ ++G A+VL+
Sbjct: 382 TQFIVITHRKGTMEEADVLY 401
>pdb|1XEW|Y Chain Y, Structural Biochemistry Of Atp-Driven Dimerization And Dna
Stimulated Activation Of Smc Atpases
Length = 172
Score = 82.8 bits (203), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 48/138 (34%), Positives = 74/138 (53%), Gaps = 3/138 (2%)
Query: 1018 TWVKVNKDFGSIFSTLLPGTMAKL--EPPEGGNFLDGLEVCVAFGGVWKQSLSELSGGQR 1075
T+ ++++F IF+ L PG A+L E PE F GLE+ G + + +SGG++
Sbjct: 11 TFEAISRNFSEIFAKLSPGGSARLILENPED-PFSGGLEIEAKPAGKDVKRIEAMSGGEK 69
Query: 1076 XXXXXXXXXXXXXFKPAPLYILDEVDAALDLSHTQNIGRMIKTHFPHSQFIVVSLKEGMF 1135
FKPAP Y+ DE+DA LD ++ + + +IK SQFIV++L++ M
Sbjct: 70 ALTALAFVFAIQKFKPAPFYLFDEIDAHLDDANVKRVADLIKESSKESQFIVITLRDVMM 129
Query: 1136 NNANVLFRTKFVDGVSTV 1153
NA+ + DGVS V
Sbjct: 130 ANADKIIGVSMRDGVSKV 147
>pdb|1XEX|B Chain B, Structural Biochemistry Of Atp-Driven Dimerization And Dna
Stimulated Activation Of Smc Atpases
Length = 172
Score = 81.6 bits (200), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 47/138 (34%), Positives = 74/138 (53%), Gaps = 3/138 (2%)
Query: 1018 TWVKVNKDFGSIFSTLLPGTMAKL--EPPEGGNFLDGLEVCVAFGGVWKQSLSELSGGQR 1075
T+ ++++F IF+ L PG A+L E PE F GLE+ G + + +SGG++
Sbjct: 11 TFEAISRNFSEIFAKLSPGGSARLILENPED-PFSGGLEIEAKPAGKDVKRIEAMSGGEK 69
Query: 1076 XXXXXXXXXXXXXFKPAPLYILDEVDAALDLSHTQNIGRMIKTHFPHSQFIVVSLKEGMF 1135
FKPAP Y+ D++DA LD ++ + + +IK SQFIV++L++ M
Sbjct: 70 ALTALAFVFAIQKFKPAPFYLFDQIDAHLDDANVKRVADLIKESSKESQFIVITLRDVMM 129
Query: 1136 NNANVLFRTKFVDGVSTV 1153
NA+ + DGVS V
Sbjct: 130 ANADKIIGVSMRDGVSKV 147
>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 = 79.0 bits (193), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 53/165 (32%), Positives = 91/165 (55%), Gaps = 19/165 (11%)
Query: 1 MYIKEICLEGFKSYASRTVVPGFDPYFNAITGLNGSGKSNILDSICFVLGITNLQQVRAS 60
M +K++ L+GFKS+ +++ GF AI G NGSGKSNI+D+I +V G + +++RAS
Sbjct: 1 MRLKKLYLKGFKSFGRPSLI-GFSDRVTAIVGPNGSGKSNIIDAIKWVFGEQSKKELRAS 59
Query: 61 NLQELVYKQGQ----AGITKATVSIVFDNSDRSRSPLGYEDHPEITVTRQIVVGGRNKYL 116
++++ + AG A V +VF+ E+ EITV R++ G N Y
Sbjct: 60 EKFDMIFAGSENLPPAG--SAYVELVFE-----------ENGEEITVARELKRTGENTYY 106
Query: 117 INGKLAQPSQVQTLFHSVQLNVNNPHFLIMQGRITKVLNMKPPEI 161
+NG + ++ F L V+ + ++ QG+I +++N P E+
Sbjct: 107 LNGSPVRLKDIRDRFAGTGLGVDF-YSIVGQGQIDRIVNASPEEL 150
Score = 69.3 bits (168), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 44/138 (31%), Positives = 71/138 (51%), Gaps = 2/138 (1%)
Query: 1018 TWVKVNKDFGSIFSTLLPGTMAKLE-PPEGGNFLD-GLEVCVAFGGVWKQSLSELSGGQR 1075
++ +VN+ F S L G +L E + LD G E+ + G Q LS LSGG++
Sbjct: 166 SYQRVNESFNRFISLLFFGGEGRLNIVSEAKSILDAGFEISIRKPGRRDQKLSLLSGGEK 225
Query: 1076 XXXXXXXXXXXXXFKPAPLYILDEVDAALDLSHTQNIGRMIKTHFPHSQFIVVSLKEGMF 1135
KP+P Y+LDEVD+ LD + + R++K + H+QFIV++ + +
Sbjct: 226 ALVGLALLFALMEIKPSPFYVLDEVDSPLDDYNAERFKRLLKENSKHTQFIVITHNKIVM 285
Query: 1136 NNANVLFRTKFVDGVSTV 1153
A++L V+GVS +
Sbjct: 286 EAADLLHGVTMVNGVSAI 303
>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 = 77.4 bits (189), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 47/138 (34%), Positives = 72/138 (52%), Gaps = 3/138 (2%)
Query: 1018 TWVKVNKDFGSIFSTLLPGTMAKL--EPPEGGNFLDGLEVCVAFGGVWKQSLSELSGGQR 1075
T+ ++++F IF+ L PG A+L E PE F GLE+ G + + SGG++
Sbjct: 12 TFEAISRNFSEIFAKLSPGGSARLILENPED-PFSGGLEIEAKPAGKDVKRIEAXSGGEK 70
Query: 1076 XXXXXXXXXXXXXFKPAPLYILDEVDAALDLSHTQNIGRMIKTHFPHSQFIVVSLKEGMF 1135
FKPAP Y+ DE+DA LD ++ + + +IK SQFIV++L++
Sbjct: 71 ALTALAFVFAIQKFKPAPFYLFDEIDAHLDDANVKRVADLIKESSKESQFIVITLRDVXX 130
Query: 1136 NNANVLFRTKFVDGVSTV 1153
NA+ + DGVS V
Sbjct: 131 ANADKIIGVSXRDGVSKV 148
>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 = 69.7 bits (169), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 49/172 (28%), Positives = 82/172 (47%), Gaps = 13/172 (7%)
Query: 8 LEGFKSYASRTVVPGFDPYFNAITGLNGSGKSNILDSICFVLGITNLQQVRASNLQELVY 67
L FKSY T V + F +I G NGSGKSN++D+I FVLG+ + +R++ L++L+Y
Sbjct: 9 LSNFKSYRGVTKVGFGESNFTSIIGPNGSGKSNMMDAISFVLGVRS-NHLRSNILKDLIY 67
Query: 68 KQGQAGITKATVSIVFDNSDRSRS--------PLGYEDHPEITVTRQIVVGGRNKYLING 119
+ G+ S +DN + S + + + + R I G Y I+G
Sbjct: 68 R----GVLNDENSDDYDNEGAASSNPQSAYVKAFYQKGNKLVELMRIISRNGDTSYKIDG 123
Query: 120 KLAQPSQVQTLFHSVQLNVNNPHFLIMQGRITKVLNMKPPEILSMLEEAAGT 171
K + + + +FL+ QG + ++ P E+ M EE +G+
Sbjct: 124 KTVSYKDYSIFLENENILIKAKNFLVFQGDVEQIAAQSPVELSRMFEEVSGS 175
Score = 63.9 bits (154), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 30/73 (41%), Positives = 44/73 (60%), Gaps = 1/73 (1%)
Query: 1070 LSGGQRXXXXXXXXXXXXXFKPAPLYILDEVDAALDLSHTQNIGRMIKTH-FPHSQFIVV 1128
LSGG++ ++P+P ++LDEVDAALD+++ Q I I+ H P QFIV+
Sbjct: 334 LSGGEKTVAALALLFAINSYQPSPFFVLDEVDAALDITNVQRIAAYIRRHRNPDLQFIVI 393
Query: 1129 SLKEGMFNNANVL 1141
SLK MF ++ L
Sbjct: 394 SLKNTMFEKSDAL 406
>pdb|2WD5|B Chain B, Smc Hinge Heterodimer (Mouse)
Length = 213
Score = 58.5 bits (140), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 36/120 (30%), Positives = 60/120 (50%), Gaps = 14/120 (11%)
Query: 524 TALEVTAGGKLFNVIVDTESTGKQLL---QNGDLRRRVTIIPLNKIQSHTVPPRVQQAAV 580
T +EVTAG +LF IVD++ ++L +L VT +PLNK+ A+
Sbjct: 65 TCVEVTAGNRLFYHIVDSDEVSTKILMEFNKMNLPGEVTFLPLNKLDVRDTAYPETNDAI 124
Query: 581 RLVGKENAELALSLVGYSDELKTAMEYVFGSTFVCKSIDAAKEVAFSREIRTPSVTLEGD 640
++ K + Y+ A ++VFG T +C+S++ + ++A R +TLEGD
Sbjct: 125 PMISK---------LRYNPRFDKAFKHVFGKTLICRSMEVSTQLA--RAFTMDCITLEGD 173
>pdb|2WD5|A Chain A, Smc Hinge Heterodimer (Mouse)
Length = 233
Score = 53.5 bits (127), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 36/150 (24%), Positives = 71/150 (47%), Gaps = 10/150 (6%)
Query: 499 VKNFDRAKVKGVVAKLIKVKDSSTMTALEVTAGGKLFNVIVDTESTGKQLLQNGDLRR-- 556
+K V G + L + A+ G + +IVD+E TG+ +Q +R
Sbjct: 47 IKRLYPGSVYGRLIDLCQPTQKKYQIAVTKVLGKNMDAIIVDSEKTGRDCIQYIKEQRGE 106
Query: 557 RVTIIPLNKIQSHTVPPRVQQAAVRLVGKENAELALSLVGY-SDELKTAMEYVFGSTFVC 615
T +PL+ ++ ++++ + A+L + ++ Y +K A++Y G+ VC
Sbjct: 107 PETFLPLDYLEVKPTDEKLREL-------KGAKLVIDVIRYEPPHIKKALQYACGNALVC 159
Query: 616 KSIDAAKEVAFSREIRTPSVTLEGDIFQPS 645
+++ A+ +AF R +V L+G +FQ S
Sbjct: 160 DNVEDARRIAFGGHQRHKTVALDGTLFQKS 189
>pdb|3NWC|A Chain A, Crystal Structure Of The Pyrococcus Furiosus Smc Protein
Hinge Domain
pdb|3NWC|B Chain B, Crystal Structure Of The Pyrococcus Furiosus Smc Protein
Hinge Domain
Length = 189
Score = 52.4 bits (124), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 39/141 (27%), Positives = 73/141 (51%), Gaps = 18/141 (12%)
Query: 507 VKGVVAKLIKVKDSSTMTALEVTAGGKLFNVIVDTESTGKQLLQNGDLRR--RVTIIPLN 564
+ G +A+LIKVKD + A+EV G + NV+V+ E ++ ++ + R+T +PLN
Sbjct: 36 IYGTLAELIKVKDEAYALAIEVALGNRADNVVVEDELVAEKAIKYLKEHKLGRLTFLPLN 95
Query: 565 KIQSHTVPPRVQQAAVRLVGKENAELALSLVGYSDELKTAMEYVFGSTFVCKSIDAAKEV 624
KI+ V V AV ++ Y +++ A+++ G T + S + A+
Sbjct: 96 KIKPKHVDSSVGLPAV------------DVIEYDQKIENAVKFALGDTVIVNSXEEAR-- 141
Query: 625 AFSREIRTPSVTLEGDIFQPS 645
++R VT+EG++++ S
Sbjct: 142 PHIGKVR--XVTIEGELYERS 160
>pdb|1GXL|A Chain A, Smc Hinge Domain From T. Maritima With Coiled Coil
pdb|1GXL|B Chain B, Smc Hinge Domain From T. Maritima With Coiled Coil
pdb|1GXL|C Chain C, Smc Hinge Domain From T. Maritima With Coiled Coil
pdb|1GXL|D Chain D, Smc Hinge Domain From T. Maritima With Coiled Coil
Length = 213
Score = 41.6 bits (96), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 37/138 (26%), Positives = 69/138 (50%), Gaps = 16/138 (11%)
Query: 510 VVAKLIKVKDSSTMTALEVTAGGKLFNVIVDTESTGKQLLQ--NGDLRRRVTIIPLNKIQ 567
VV+ LI+V + ++ A+ V GG N++V T K +++ + RVTI+PL+ I
Sbjct: 47 VVSNLIEVDEKYSL-AVSVLLGGTAQNIVVRNVDTAKAIVEFLKQNEAGRVTILPLDLID 105
Query: 568 SHTVPPRVQQAAVRLVGKEN----AELALSLVGYSDELKTAMEYVFGSTFVCKSIDAAKE 623
+ R+ G EN A+ LV + +L+ ++FG++ V +++D A
Sbjct: 106 G---------SFNRISGLENERGFVGYAVDLVKFPSDLEVLGGFLFGNSVVVETLDDAIR 156
Query: 624 VAFSREIRTPSVTLEGDI 641
+ + T TL+G++
Sbjct: 157 MKKKYRLNTRIATLDGEL 174
>pdb|1GXJ|A Chain A, Smc Hinge Domain From T. Maritima WO COILED COIL
pdb|1GXJ|B Chain B, Smc Hinge Domain From T. Maritima WO COILED COIL
pdb|1GXK|A Chain A, Smc Hinge Domain From T. Maritima WO COILED COIL, P212121
Crystal Form
pdb|1GXK|B Chain B, Smc Hinge Domain From T. Maritima WO COILED COIL, P212121
Crystal Form
pdb|1GXK|C Chain C, Smc Hinge Domain From T. Maritima WO COILED COIL, P212121
Crystal Form
pdb|1GXK|D Chain D, Smc Hinge Domain From T. Maritima WO COILED COIL, P212121
Crystal Form
Length = 186
Score = 40.0 bits (92), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 38/140 (27%), Positives = 71/140 (50%), Gaps = 20/140 (14%)
Query: 510 VVAKLIKVKDSSTMTALEVTAGGKLFNVIVDTESTGKQLLQNGDLRR----RVTIIPLNK 565
VV+ LI+V + ++ A+ V GG N++V T K +++ L++ RVTI+PL+
Sbjct: 35 VVSNLIEVDEKYSL-AVSVLLGGTAQNIVVRNVDTAKAIVEF--LKQNEAGRVTILPLDL 91
Query: 566 IQSHTVPPRVQQAAVRLVGKEN----AELALSLVGYSDELKTAMEYVFGSTFVCKSIDAA 621
I + R+ G EN A+ LV + +L+ ++FG++ V +++D A
Sbjct: 92 IDG---------SFNRISGLENERGFVGYAVDLVKFPSDLEVLGGFLFGNSVVVETLDDA 142
Query: 622 KEVAFSREIRTPSVTLEGDI 641
+ + T TL+G++
Sbjct: 143 IRMKKKYRLNTRIATLDGEL 162
>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 = 37.4 bits (85), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 64/249 (25%), Positives = 106/249 (42%), Gaps = 46/249 (18%)
Query: 1 MYIKEICLEGFKSYASRTVVPGFDPYFNAITGLNGSGKSNILDSICFVLGITNLQQVRAS 60
M +KEI + FKS+ + + F+ AI G NGSGKS+I +++ F L S
Sbjct: 3 MILKEIRMNNFKSHVNSRI--KFEKGIVAIIGENGSGKSSIFEAVFFALFGA------GS 54
Query: 61 NLQELVYKQGQAGITKATVSIVFDNSDRSRSPLGYE-DHPEITVTRQIVVG-GRNKYLIN 118
N ITK S+ + L +E + + R+ G G K N
Sbjct: 55 NFNY------DTIITKGKKSVYVE--------LDFEVNGNNYKIIREYDSGRGGAKLYKN 100
Query: 119 GKLAQPSQVQTLFHSVQ--LNVNNPHFL----IMQGRITKVLNMKPPEILSMLEEAAGTR 172
GK + + + +V L V+ FL I QG I K L++KP E L + + G
Sbjct: 101 GK-PYATTISAVNKAVNEILGVDRNMFLNSIYIKQGEIAKFLSLKPSEKLETVAKLLGID 159
Query: 173 MYXXXXXXXXXXXXXXQSKVDEINNLLD--QEILPA-------LEKLRKERTQYMQWANG 223
+ + +++ I L+ +E L A LEK +++ T+++++
Sbjct: 160 EFEKCYQKMGEIVKEYEKRLERIEGELNYKEESLKARLKEMSNLEKEKEKLTKFVEY--- 216
Query: 224 NAELDRLRR 232
LD++RR
Sbjct: 217 ---LDKVRR 222
>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 = 34.3 bits (77), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 30/46 (65%), Gaps = 2/46 (4%)
Query: 1 MYIKEICLEGFKSYASRTVVPGFDPYFNAITGLNGSGKSNILDSIC 46
M ++ + ++ F+S+ S TVV F N I G NGSGKS++LD+I
Sbjct: 1 MKLERVTVKNFRSH-SDTVVE-FKEGINLIIGQNGSGKSSLLDAIL 44
>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 = 34.3 bits (77), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 30/46 (65%), Gaps = 2/46 (4%)
Query: 1 MYIKEICLEGFKSYASRTVVPGFDPYFNAITGLNGSGKSNILDSIC 46
M ++ + ++ F+S+ S TVV F N I G NGSGKS++LD+I
Sbjct: 1 MKLERVTVKNFRSH-SDTVVE-FKEGINLIIGQNGSGKSSLLDAIL 44
>pdb|1II8|A Chain A, Crystal Structure Of The P. Furiosus Rad50 Atpase Domain
Length = 195
Score = 33.9 bits (76), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 30/46 (65%), Gaps = 2/46 (4%)
Query: 1 MYIKEICLEGFKSYASRTVVPGFDPYFNAITGLNGSGKSNILDSIC 46
M ++ + ++ F+S+ S TVV F N I G NGSGKS++LD+I
Sbjct: 1 MKLERVTVKNFRSH-SDTVVE-FKEGINLIIGQNGSGKSSLLDAIL 44
>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 = 33.9 bits (76), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 30/46 (65%), Gaps = 2/46 (4%)
Query: 1 MYIKEICLEGFKSYASRTVVPGFDPYFNAITGLNGSGKSNILDSIC 46
M ++ + ++ F+S+ S TVV F N I G NGSGKS++LD+I
Sbjct: 1 MKLERVTVKNFRSH-SDTVVE-FKEGINLIIGQNGSGKSSLLDAIL 44
>pdb|3L51|B Chain B, Crystal Structure Of The Mouse Condensin Hinge Domain
Length = 166
Score = 33.5 bits (75), Expect = 0.64, Method: Composition-based stats.
Identities = 16/48 (33%), Positives = 27/48 (56%)
Query: 598 SDELKTAMEYVFGSTFVCKSIDAAKEVAFSREIRTPSVTLEGDIFQPS 645
++E++ A + T V ++D A VA+ R+ R VTL+G I + S
Sbjct: 105 NEEIRQAFYFALRDTLVANNLDQATRVAYQRDRRWRVVTLQGQIIEQS 152
>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 = 32.7 bits (73), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 30/46 (65%), Gaps = 2/46 (4%)
Query: 1 MYIKEICLEGFKSYASRTVVPGFDPYFNAITGLNGSGKSNILDSIC 46
M ++ + ++ F+S+ S TVV F N I G NGSGKS++LD+I
Sbjct: 1 MKLERVTVKNFRSH-SDTVVE-FKEGINLIIGQNGSGKSSLLDAIL 44
>pdb|1US8|A Chain A, The Rad50 Signature Motif: Essential To Atp Binding And
Biological Function
Length = 147
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 30/46 (65%), Gaps = 2/46 (4%)
Query: 1 MYIKEICLEGFKSYASRTVVPGFDPYFNAITGLNGSGKSNILDSIC 46
M ++ + ++ F+S+ S TVV F N I G NGSGKS++LD+I
Sbjct: 1 MKLERVTVKNFRSH-SDTVVE-FKEGINLIIGQNGSGKSSLLDAIL 44
>pdb|1CII|A Chain A, Colicin Ia
Length = 602
Score = 30.4 bits (67), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 35/68 (51%), Gaps = 1/68 (1%)
Query: 765 IKEHDNNREGRLKDLEKKIKAIKVQIQSASKDLKGHENERERLVMEHEAIVKEHASLENQ 824
+ E D R+ RL D KI + + + SA +L NE++ A++KE ++ NQ
Sbjct: 348 VAEWDKLRQ-RLLDARNKITSAESAVNSARNNLSARTNEQKHANDALNALLKEKENIRNQ 406
Query: 825 LASVRMQI 832
L+ + +I
Sbjct: 407 LSGINQKI 414
>pdb|3KSU|A Chain A, Crystal Structure Of Short-Chain Dehydrogenase From
Oenococcus Oeni Psu-1
pdb|3KSU|B Chain B, Crystal Structure Of Short-Chain Dehydrogenase From
Oenococcus Oeni Psu-1
Length = 262
Score = 30.4 bits (67), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 25/44 (56%)
Query: 449 LNARRKDVENVKLALESDRASEMAMAQKLKDEIRDLSAQLANVQ 492
L A+ +E+V L L +A + A KLKDE+ D A++A Q
Sbjct: 26 LTAKTFALESVNLVLHYHQAKDSDTANKLKDELEDQGAKVALYQ 69
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
0.313 0.129 0.347
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 28,579,253
Number of Sequences: 62578
Number of extensions: 1067525
Number of successful extensions: 3726
Number of sequences better than 100.0: 146
Number of HSP's better than 100.0 without gapping: 33
Number of HSP's successfully gapped in prelim test: 113
Number of HSP's that attempted gapping in prelim test: 3453
Number of HSP's gapped (non-prelim): 352
length of query: 1163
length of database: 14,973,337
effective HSP length: 109
effective length of query: 1054
effective length of database: 8,152,335
effective search space: 8592561090
effective search space used: 8592561090
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: 57 (26.6 bits)