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= 013207
(447 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3T1I|A Chain A, Crystal Structure Of Human Mre11: Understanding
Tumorigenic Mutations
pdb|3T1I|B Chain B, Crystal Structure Of Human Mre11: Understanding
Tumorigenic Mutations
pdb|3T1I|C Chain C, Crystal Structure Of Human Mre11: Understanding
Tumorigenic Mutations
pdb|3T1I|D Chain D, Crystal Structure Of Human Mre11: Understanding
Tumorigenic Mutations
Length = 431
Score = 365 bits (937), Expect = e-101, Method: Compositional matrix adjust.
Identities = 200/403 (49%), Positives = 268/403 (66%), Gaps = 22/403 (5%)
Query: 8 DIANTVRILVATDCHLGYMEKDEIRRHDSFEAFEEICSIAEQKEVDFVLLGGDLFHENKP 67
D NT +ILVATD HLG+ EKD +R +D+F +EI +A++ EVDF+LLGGDLFHENKP
Sbjct: 28 DDENTFKILVATDIHLGFXEKDAVRGNDTFVTLDEILRLAQENEVDFILLGGDLFHENKP 87
Query: 68 SRSTLVKAIEILRRHCLNDRPVQFQVVSDQAVNFQ-NKFGHVNYEDPHFNVGLPVFSIHG 126
SR TL +E+LR++C DRPVQF+++SDQ+VNF +KF VNY+D + N+ +PVFSIHG
Sbjct: 88 SRKTLHTCLELLRKYCXGDRPVQFEILSDQSVNFGFSKFPWVNYQDGNLNISIPVFSIHG 147
Query: 127 NHDDPAGVDNLSAVDILSACNLVNYFGKMVLGGSGVGEITVYPILIRKGSTAVALYGLGN 186
NHDDP G D L A+DILS VN+FG+ V +I + P+L++KGST +ALYGLG+
Sbjct: 148 NHDDPTGADALCALDILSCAGFVNHFGR----SXSVEKIDISPVLLQKGSTKIALYGLGS 203
Query: 187 IRDERLNRMFQTPHAVQWMRPEAQEECQVSDWFNILVLHQNRVKTNPKNAINEHFLPRFL 246
I DERL R F V +RP+ E + WFN+ V+HQNR K N I E FL F+
Sbjct: 204 IPDERLYRXF-VNKKVTXLRPKEDE----NSWFNLFVIHQNRSKHGSTNFIPEQFLDDFI 258
Query: 247 DFVVWGHEHECLIDPQEVPGMGFHLTQPGSSVATSLIEGESKPKHVLLLEIKENQYRPTK 306
D V+WGHEHEC I P + F+++QPGSSV TSL GE+ KHV LL IK + K
Sbjct: 259 DLVIWGHEHECKIAPTKNEQQLFYISQPGSSVVTSLSPGEAVKKHVGLLRIKGRKXNXHK 318
Query: 307 IPLTSVRPFEYTEIILKDEADI-DPDD-------QNSILEHLDKVVRNLIERSSKKTVNR 358
IPL +VR F +I+L + DI +PD+ Q+ LE +++ + N ER ++ N
Sbjct: 319 IPLHTVRQFFXEDIVLANHPDIFNPDNPKVTQAIQSFCLEKIEEXLEN-AER--ERLGNS 375
Query: 359 SELKLPLVRIKVDYS-GFMTINPQRFGQKYVGKVANPQDILIF 400
+ + PLVR++VDYS GF + RF QK+V +VANP+DI+ F
Sbjct: 376 HQPEKPLVRLRVDYSGGFEPFSVLRFSQKFVDRVANPKDIIHF 418
>pdb|4FBK|A Chain A, Crystal Structure Of A Covalently Fused Nbs1-Mre11 Complex
With One Manganese Ion Per Active Site
pdb|4FBK|B Chain B, Crystal Structure Of A Covalently Fused Nbs1-Mre11 Complex
With One Manganese Ion Per Active Site
pdb|4FBQ|A Chain A, Crystal Structure Of A Covalently Fused Nbs1-Mre11 Complex
With Two Manganese Ions Per Active Site
pdb|4FBQ|B Chain B, Crystal Structure Of A Covalently Fused Nbs1-Mre11 Complex
With Two Manganese Ions Per Active Site
Length = 472
Score = 340 bits (871), Expect = 1e-93, Method: Compositional matrix adjust.
Identities = 176/403 (43%), Positives = 258/403 (64%), Gaps = 22/403 (5%)
Query: 11 NTVRILVATDCHLGYMEKDEIRRHDSFEAFEEICSIAEQKEVDFVLLGGDLFHENKPSRS 70
NT+RIL+++D H+GY EKD +R +DSF +F EI IA +++VD +LLGGD+FH+NKPSR
Sbjct: 75 NTIRILISSDPHVGYGEKDPVRGNDSFVSFNEILEIARERDVDMILLGGDIFHDNKPSRK 134
Query: 71 TLVKAIEILRRHCLNDRPVQFQVVSDQAVNFQNK-FGHVNYEDPHFNVGLPVFSIHGNHD 129
L +A+ LR +CL D+P + +++SD ++ + ++NY DP+ NV +PVFSIHGNHD
Sbjct: 135 ALYQALRSLRLNCLGDKPCELELLSDTSLTTGDTAVCNINYLDPNINVAIPVFSIHGNHD 194
Query: 130 DPAGVDNLSAVDILSACNLVNYFGKMVLGGSGVGEITVYPILIRKGSTAVALYGLGNIRD 189
DP+G SA+DIL LVNYFG++ + I V PIL++KG T +ALYG+ N+RD
Sbjct: 195 DPSGDGRYSALDILQVTGLVNYFGRVPENDN----IVVSPILLQKGFTKLALYGISNVRD 250
Query: 190 ERLNRMFQTPHAVQWMRPEAQEECQVSDWFNILVLHQNRVKTNPKNAINEHFLPRFLDFV 249
ERL F+ + V+++RP+ + +WFN+L +HQN P + + E F+ F DFV
Sbjct: 251 ERLYHSFRE-NKVKFLRPDLYRD----EWFNLLTVHQNHSAHTPTSYLPESFIQDFYDFV 305
Query: 250 VWGHEHECLIDPQEVPGMGFHLTQPGSSVATSLIEGESKPKHVLLLEIKENQYRPTKIPL 309
+WGHEHECLID P F + QPGS++ATSL GE+ PKH +L I + KI L
Sbjct: 306 LWGHEHECLIDGSYNPTQKFTVVQPGSTIATSLSPGETAPKHCGILNITGKDFHLEKIRL 365
Query: 310 TSVRPFEYTEIILKDEADIDP--DDQNSILEHLDKVVRNLIERSSKK---------TVNR 358
+VRPF +IIL + + I P +++ +L +L V I ++ + V
Sbjct: 366 RTVRPFIMKDIILSEVSSIPPMVENKKEVLTYLISKVEEAITEANAQWYEAQGTVPVVEN 425
Query: 359 SELKLPLVRIKVDYS-GFMTINPQRFGQKYVGKVANPQDILIF 400
+ LPL+R++VDY+ G+ T NPQRF ++VG+VAN D++ F
Sbjct: 426 EKPPLPLIRLRVDYTGGYQTENPQRFSNRFVGRVANATDVVQF 468
>pdb|4FCX|B Chain B, S.Pombe Mre11 Apoenzym
pdb|4FCX|A Chain A, S.Pombe Mre11 Apoenzym
Length = 404
Score = 338 bits (868), Expect = 3e-93, Method: Compositional matrix adjust.
Identities = 176/403 (43%), Positives = 258/403 (64%), Gaps = 22/403 (5%)
Query: 11 NTVRILVATDCHLGYMEKDEIRRHDSFEAFEEICSIAEQKEVDFVLLGGDLFHENKPSRS 70
NT+RIL+++D H+GY EKD +R +DSF +F EI IA +++VD +LLGGD+FH+NKPSR
Sbjct: 7 NTIRILISSDPHVGYGEKDPVRGNDSFVSFNEILEIARERDVDMILLGGDIFHDNKPSRK 66
Query: 71 TLVKAIEILRRHCLNDRPVQFQVVSDQAVNFQNK-FGHVNYEDPHFNVGLPVFSIHGNHD 129
L +A+ LR +CL D+P + +++SD ++ + ++NY DP+ NV +PVFSIHGNHD
Sbjct: 67 ALYQALRSLRLNCLGDKPCELELLSDTSLTTGDTAVCNINYLDPNINVAIPVFSIHGNHD 126
Query: 130 DPAGVDNLSAVDILSACNLVNYFGKMVLGGSGVGEITVYPILIRKGSTAVALYGLGNIRD 189
DP+G SA+DIL LVNYFG++ + I V PIL++KG T +ALYG+ N+RD
Sbjct: 127 DPSGDGRYSALDILQVTGLVNYFGRVPENDN----IVVSPILLQKGFTKLALYGISNVRD 182
Query: 190 ERLNRMFQTPHAVQWMRPEAQEECQVSDWFNILVLHQNRVKTNPKNAINEHFLPRFLDFV 249
ERL F+ + V+++RP+ + +WFN+L +HQN P + + E F+ F DFV
Sbjct: 183 ERLYHSFRE-NKVKFLRPDLYRD----EWFNLLTVHQNHSAHTPTSYLPESFIQDFYDFV 237
Query: 250 VWGHEHECLIDPQEVPGMGFHLTQPGSSVATSLIEGESKPKHVLLLEIKENQYRPTKIPL 309
+WGHEHECLID P F + QPGS++ATSL GE+ PKH +L I + KI L
Sbjct: 238 LWGHEHECLIDGSYNPTQKFTVVQPGSTIATSLSPGETAPKHCGILNITGKDFHLEKIRL 297
Query: 310 TSVRPFEYTEIILKDEADIDP--DDQNSILEHLDKVVRNLIERSSKK---------TVNR 358
+VRPF +IIL + + I P +++ +L +L V I ++ + V
Sbjct: 298 RTVRPFIMKDIILSEVSSIPPMVENKKEVLTYLISKVEEAITEANAQWYEAQGTVPVVEN 357
Query: 359 SELKLPLVRIKVDYS-GFMTINPQRFGQKYVGKVANPQDILIF 400
+ LPL+R++VDY+ G+ T NPQRF ++VG+VAN D++ F
Sbjct: 358 EKPPLPLIRLRVDYTGGYQTENPQRFSNRFVGRVANATDVVQF 400
>pdb|4FBW|A Chain A, Crystal Structure Of An Unfused Mre11-Nbs1 Complex With
Two Manganese Ions Per Active Site
pdb|4FBW|B Chain B, Crystal Structure Of An Unfused Mre11-Nbs1 Complex With
Two Manganese Ions Per Active Site
Length = 417
Score = 338 bits (867), Expect = 3e-93, Method: Compositional matrix adjust.
Identities = 176/403 (43%), Positives = 258/403 (64%), Gaps = 22/403 (5%)
Query: 11 NTVRILVATDCHLGYMEKDEIRRHDSFEAFEEICSIAEQKEVDFVLLGGDLFHENKPSRS 70
NT+RIL+++D H+GY EKD +R +DSF +F EI IA +++VD +LLGGD+FH+NKPSR
Sbjct: 12 NTIRILISSDPHVGYGEKDPVRGNDSFVSFNEILEIARERDVDMILLGGDIFHDNKPSRK 71
Query: 71 TLVKAIEILRRHCLNDRPVQFQVVSDQAVNFQNK-FGHVNYEDPHFNVGLPVFSIHGNHD 129
L +A+ LR +CL D+P + +++SD ++ + ++NY DP+ NV +PVFSIHGNHD
Sbjct: 72 ALYQALRSLRLNCLGDKPCELELLSDTSLTTGDTAVCNINYLDPNINVAIPVFSIHGNHD 131
Query: 130 DPAGVDNLSAVDILSACNLVNYFGKMVLGGSGVGEITVYPILIRKGSTAVALYGLGNIRD 189
DP+G SA+DIL LVNYFG++ + I V PIL++KG T +ALYG+ N+RD
Sbjct: 132 DPSGDGRYSALDILQVTGLVNYFGRVPENDN----IVVSPILLQKGFTKLALYGISNVRD 187
Query: 190 ERLNRMFQTPHAVQWMRPEAQEECQVSDWFNILVLHQNRVKTNPKNAINEHFLPRFLDFV 249
ERL F+ + V+++RP+ + +WFN+L +HQN P + + E F+ F DFV
Sbjct: 188 ERLYHSFRE-NKVKFLRPDLYRD----EWFNLLTVHQNHSAHTPTSYLPESFIQDFYDFV 242
Query: 250 VWGHEHECLIDPQEVPGMGFHLTQPGSSVATSLIEGESKPKHVLLLEIKENQYRPTKIPL 309
+WGHEHECLID P F + QPGS++ATSL GE+ PKH +L I + KI L
Sbjct: 243 LWGHEHECLIDGSYNPTQKFTVVQPGSTIATSLSPGETAPKHCGILNITGKDFHLEKIRL 302
Query: 310 TSVRPFEYTEIILKDEADIDP--DDQNSILEHLDKVVRNLIERSSKK---------TVNR 358
+VRPF +IIL + + I P +++ +L +L V I ++ + V
Sbjct: 303 RTVRPFIMKDIILSEVSSIPPMVENKKEVLTYLISKVEEAITEANAQWYEAQGTVPVVEN 362
Query: 359 SELKLPLVRIKVDYS-GFMTINPQRFGQKYVGKVANPQDILIF 400
+ LPL+R++VDY+ G+ T NPQRF ++VG+VAN D++ F
Sbjct: 363 EKPPLPLIRLRVDYTGGYQTENPQRFSNRFVGRVANATDVVQF 405
>pdb|4HD0|A Chain A, Mre11 Atld1718 MUTATION RETAINS TEL1ATM ACTIVITY BUT
BLOCKS DNA Double-Strand Break Repair
pdb|4HD0|B Chain B, Mre11 Atld1718 MUTATION RETAINS TEL1ATM ACTIVITY BUT
BLOCKS DNA Double-Strand Break Repair
Length = 339
Score = 61.2 bits (147), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 39/112 (34%), Positives = 55/112 (49%), Gaps = 33/112 (29%)
Query: 19 TDCHLGYMEKDEIRRHDSF-EAFEEICSIAEQKEVDFVLLGGDLFHENKPSRSTLVKAIE 77
D HLGY + + +R + F EAF+ IA Q+ VDF+L+ GDLFH ++PS TL KAI
Sbjct: 13 ADIHLGYEQFHKPQREEEFAEAFKNALEIAVQENVDFILIAGDLFHSSRPSPGTLKKAIA 72
Query: 78 ILRRHCLNDRPVQFQVVSDQAVNFQNKFGHVNYEDPHFNVGLPVFSIHGNHD 129
+L Q+ + ++ PVF+I GNHD
Sbjct: 73 LL------------QIPKEHSI--------------------PVFAIEGNHD 92
>pdb|1II7|A Chain A, Crystal Structure Of P. Furiosus Mre11 With Manganese And
Damp
pdb|1II7|B Chain B, Crystal Structure Of P. Furiosus Mre11 With Manganese And
Damp
Length = 333
Score = 61.2 bits (147), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 39/112 (34%), Positives = 55/112 (49%), Gaps = 33/112 (29%)
Query: 19 TDCHLGYMEKDEIRRHDSF-EAFEEICSIAEQKEVDFVLLGGDLFHENKPSRSTLVKAIE 77
D HLGY + + +R + F EAF+ IA Q+ VDF+L+ GDLFH ++PS TL KAI
Sbjct: 7 ADIHLGYEQFHKPQREEEFAEAFKNALEIAVQENVDFILIAGDLFHSSRPSPGTLKKAIA 66
Query: 78 ILRRHCLNDRPVQFQVVSDQAVNFQNKFGHVNYEDPHFNVGLPVFSIHGNHD 129
+L Q+ + ++ PVF+I GNHD
Sbjct: 67 LL------------QIPKEHSI--------------------PVFAIEGNHD 86
>pdb|3DSC|A Chain A, Crystal Structure Of P. Furiosus Mre11 Dna Synaptic
Complex
Length = 349
Score = 61.2 bits (147), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 39/112 (34%), Positives = 55/112 (49%), Gaps = 33/112 (29%)
Query: 19 TDCHLGYMEKDEIRRHDSF-EAFEEICSIAEQKEVDFVLLGGDLFHENKPSRSTLVKAIE 77
D HLGY + + +R + F EAF+ IA Q+ VDF+L+ GDLFH ++PS TL KAI
Sbjct: 7 ADIHLGYEQFHKPQREEEFAEAFKNALEIAVQENVDFILIAGDLFHSSRPSPGTLKKAIA 66
Query: 78 ILRRHCLNDRPVQFQVVSDQAVNFQNKFGHVNYEDPHFNVGLPVFSIHGNHD 129
+L Q+ + ++ PVF+I GNHD
Sbjct: 67 LL------------QIPKEHSI--------------------PVFAIEGNHD 86
>pdb|1S8E|A Chain A, Crystal Structure Of Mre11-3
pdb|1S8E|B Chain B, Crystal Structure Of Mre11-3
Length = 333
Score = 59.3 bits (142), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 37/98 (37%), Positives = 54/98 (55%), Gaps = 8/98 (8%)
Query: 19 TDCHLGYMEKDEIRRHDSF-EAFEEICSIAEQKEVDFVLLGGDLFHENKPSRSTLVKAIE 77
D HLGY + + +R + F EAF+ IA Q+ VDF+L+ GDLFH ++PS TL KAI
Sbjct: 7 ADIHLGYEQFHKPQREEEFAEAFKNALEIAVQENVDFILIAGDLFHSSRPSPGTLKKAIA 66
Query: 78 IL---RRHCLNDRPVQFQVVSDQ----AVNFQNKFGHV 108
+L + H + ++ +V Q +N FG V
Sbjct: 67 LLQIPKEHSIPVFAIEGNLVRTQRGPSVLNLLEDFGLV 104
>pdb|3DSD|A Chain A, Crystal Structure Of P. Furiosus Mre11-H85s Bound To A
Branched Dna And Manganese
pdb|3DSD|B Chain B, Crystal Structure Of P. Furiosus Mre11-H85s Bound To A
Branched Dna And Manganese
Length = 349
Score = 58.9 bits (141), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 30/63 (47%), Positives = 42/63 (66%), Gaps = 1/63 (1%)
Query: 19 TDCHLGYMEKDEIRRHDSF-EAFEEICSIAEQKEVDFVLLGGDLFHENKPSRSTLVKAIE 77
D HLGY + + +R + F EAF+ IA Q+ VDF+L+ GDLFH ++PS TL KAI
Sbjct: 7 ADIHLGYEQFHKPQREEEFAEAFKNALEIAVQENVDFILIAGDLFHSSRPSPGTLKKAIA 66
Query: 78 ILR 80
+L+
Sbjct: 67 LLQ 69
>pdb|3THN|A Chain A, Crystal Structure Of Mre11 Core With Manganese
Length = 319
Score = 41.6 bits (96), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 40/74 (54%), Gaps = 5/74 (6%)
Query: 13 VRILVATDCHLGYMEKDEIR----RHDSFEAFEEICSIAEQKEVDFVLLGGDLFHE-NKP 67
++IL +D HLG R R + +A +++ AE++EVD +LL GDL H N P
Sbjct: 1 MKILHTSDWHLGVTSWTSSRPVDRREELKKALDKVVEEAEKREVDLILLTGDLLHSRNNP 60
Query: 68 SRSTLVKAIEILRR 81
S L ++ L+R
Sbjct: 61 SVVALHDLLDYLKR 74
>pdb|2Q8U|A Chain A, Crystal Structure Of Mre11 From Thermotoga Maritima Msb8
(Tm1635) At 2.20 A Resolution
pdb|2Q8U|B Chain B, Crystal Structure Of Mre11 From Thermotoga Maritima Msb8
(Tm1635) At 2.20 A Resolution
Length = 336
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 40/74 (54%), Gaps = 5/74 (6%)
Query: 13 VRILVATDCHLGYMEKDEIR----RHDSFEAFEEICSIAEQKEVDFVLLGGDLFHE-NKP 67
++IL +D HLG R R + +A +++ AE++EVD +LL GDL H N P
Sbjct: 19 LKILHTSDWHLGVTSWTSSRPVDRREELKKALDKVVEEAEKREVDLILLTGDLLHSRNNP 78
Query: 68 SRSTLVKAIEILRR 81
S L ++ L+R
Sbjct: 79 SVVALHDLLDYLKR 92
>pdb|3THO|B Chain B, Crystal Structure Of Mre11:rad50 In Its AtpADP BOUND
STATE
Length = 379
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 40/74 (54%), Gaps = 5/74 (6%)
Query: 13 VRILVATDCHLGYMEKDEIR----RHDSFEAFEEICSIAEQKEVDFVLLGGDLFH-ENKP 67
++IL +D HLG R R + +A +++ AE++EVD +LL GDL H N P
Sbjct: 1 MKILHTSDWHLGVTSWTSSRPVDRREELKKALDKVVEEAEKREVDLILLTGDLLHSRNNP 60
Query: 68 SRSTLVKAIEILRR 81
S L ++ L+R
Sbjct: 61 SVVALHDLLDYLKR 74
>pdb|3QG5|C Chain C, The Mre11:rad50 Complex Forms An Atp Dependent Molecular
Clamp In Dna Double-Strand Break Repair
pdb|3QG5|D Chain D, The Mre11:rad50 Complex Forms An Atp Dependent Molecular
Clamp In Dna Double-Strand Break Repair
Length = 379
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 39/73 (53%), Gaps = 5/73 (6%)
Query: 14 RILVATDCHLGYMEKDEIR----RHDSFEAFEEICSIAEQKEVDFVLLGGDLFH-ENKPS 68
+IL +D HLG R R + +A +++ AE++EVD +LL GDL H N PS
Sbjct: 2 KILHTSDWHLGVTSWTSSRPVDRREELKKALDKVVEEAEKREVDLILLTGDLLHSRNNPS 61
Query: 69 RSTLVKAIEILRR 81
L ++ L+R
Sbjct: 62 VVALHDLLDYLKR 74
>pdb|2YY6|A Chain A, Crystal Structure Of The Phosphoglycolate Phosphatase From
Aquifex Aeolicus Vf5
pdb|2YY6|B Chain B, Crystal Structure Of The Phosphoglycolate Phosphatase From
Aquifex Aeolicus Vf5
Length = 213
Score = 30.4 bits (67), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 27/48 (56%), Gaps = 5/48 (10%)
Query: 55 VLLGGDLFHENKPSRSTLVKAIEILRRHCLNDRPVQFQVVSDQAVNFQ 102
+++GGD F E KPS + ++K +EI L + P + +V D + +
Sbjct: 126 LIVGGDTFGEKKPSPTPVLKTLEI-----LGEEPEKALIVGDTDADIE 168
>pdb|2NYV|A Chain A, X-Ray Crystal Structure Of A Phosphoglycolate Phosphatase
From Aquifex Aeolicus
Length = 222
Score = 30.4 bits (67), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 27/48 (56%), Gaps = 5/48 (10%)
Query: 55 VLLGGDLFHENKPSRSTLVKAIEILRRHCLNDRPVQFQVVSDQAVNFQ 102
+++GGD F E KPS + ++K +EI L + P + +V D + +
Sbjct: 128 LIVGGDTFGEKKPSPTPVLKTLEI-----LGEEPEKALIVGDTDADIE 170
>pdb|3AV0|A Chain A, Crystal Structure Of Mre11-Rad50 Bound To Atp S
Length = 386
Score = 29.6 bits (65), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 42/78 (53%), Gaps = 3/78 (3%)
Query: 19 TDCHLGYMEKD-EIRRHDSFEAFEEICSIAEQKEVDFVLLGGDLFHENKPSRSTLVKAIE 77
D HLGY + + + R D +++F+ + + D VL GDLF++ +P L A++
Sbjct: 27 ADNHLGYRQYNLDDREKDIYDSFKLCIKKILEIKPDVVLHSGDLFNDLRPPVKALRIAMQ 86
Query: 78 ILRRHCLNDRPVQFQVVS 95
++ L++ ++ +V+
Sbjct: 87 AFKK--LHENNIKVYIVA 102
>pdb|3AUZ|A Chain A, Crystal Structure Of Mre11 With Manganese
Length = 333
Score = 29.6 bits (65), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 42/78 (53%), Gaps = 3/78 (3%)
Query: 19 TDCHLGYMEKD-EIRRHDSFEAFEEICSIAEQKEVDFVLLGGDLFHENKPSRSTLVKAIE 77
D HLGY + + + R D +++F+ + + D VL GDLF++ +P L A++
Sbjct: 27 ADNHLGYRQYNLDDREKDIYDSFKLCIKKILEIKPDVVLHSGDLFNDLRPPVKALRIAMQ 86
Query: 78 ILRRHCLNDRPVQFQVVS 95
++ L++ ++ +V+
Sbjct: 87 AFKK--LHENNIKVYIVA 102
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
0.320 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: 13,550,594
Number of Sequences: 62578
Number of extensions: 573983
Number of successful extensions: 1150
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1105
Number of HSP's gapped (non-prelim): 27
length of query: 447
length of database: 14,973,337
effective HSP length: 102
effective length of query: 345
effective length of database: 8,590,381
effective search space: 2963681445
effective search space used: 2963681445
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)