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= 000957
(1209 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3QKR|B Chain B, Mre11 Rad50 Binding Domain Bound To Rad50
pdb|3QKS|B Chain B, Mre11 Rad50 Binding Domain Bound To Rad50
Length = 179
Score = 37.7 bits (86), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 35/71 (49%), Gaps = 5/71 (7%)
Query: 1104 CSAGQKVLASLIIRLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDRKGQE 1163
S G+++ L RLA++ +L LDEPT LD L + R + ++
Sbjct: 89 LSGGERIALGLAFRLAMSLYLAGEISLLILDEPTPYLDEERRRKLITIMERYL-----KK 143
Query: 1164 NFQLIVITHDE 1174
Q+I+++HDE
Sbjct: 144 IPQVILVSHDE 154
>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 = 0.037, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 34/71 (47%), Gaps = 5/71 (7%)
Query: 1104 CSAGQKVLASLIIRLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDRKGQE 1163
S G+++ L RLA++ +L LDEPT LD L + R ++
Sbjct: 269 LSGGERIALGLAFRLAMSLYLAGEISLLILDEPTPYLDEERRRKLITIMERYLKKIP--- 325
Query: 1164 NFQLIVITHDE 1174
Q+I+++HDE
Sbjct: 326 --QVILVSHDE 334
>pdb|1II8|B Chain B, Crystal Structure Of The P. Furiosus Rad50 Atpase Domain
Length = 174
Score = 37.7 bits (86), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 35/71 (49%), Gaps = 5/71 (7%)
Query: 1104 CSAGQKVLASLIIRLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDRKGQE 1163
S G+++ L RLA++ +L LDEPT LD L + R + ++
Sbjct: 84 LSGGERIALGLAFRLAMSLYLAGEISLLILDEPTPYLDEERRRKLITIMERYL-----KK 138
Query: 1164 NFQLIVITHDE 1174
Q+I+++HDE
Sbjct: 139 IPQVILVSHDE 149
>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 = 37.4 bits (85), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 34/71 (47%), Gaps = 5/71 (7%)
Query: 1104 CSAGQKVLASLIIRLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDRKGQE 1163
S G+++ L RLA++ +L LDEPT LD L + R ++
Sbjct: 249 LSGGERIALGLAFRLAMSLYLAGEISLLILDEPTPYLDEERRRKLITIMERYLKKIP--- 305
Query: 1164 NFQLIVITHDE 1174
Q+I+++HDE
Sbjct: 306 --QVILVSHDE 314
>pdb|1F2T|B Chain B, Crystal Structure Of Atp-free Rad50 Abc-atpase
pdb|1F2U|B Chain B, Crystal Structure Of Rad50 Abc-Atpase
pdb|1F2U|D Chain D, Crystal Structure Of Rad50 Abc-Atpase
Length = 148
Score = 36.2 bits (82), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 34/71 (47%), Gaps = 5/71 (7%)
Query: 1104 CSAGQKVLASLIIRLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDRKGQE 1163
S G+++ L RLA++ +L LDEPT LD L + R ++
Sbjct: 58 LSGGERIALGLAFRLAMSLYLAGEISLLILDEPTPYLDEERRRKLITIMERYLKKIP--- 114
Query: 1164 NFQLIVITHDE 1174
Q+I+++HDE
Sbjct: 115 --QVILVSHDE 123
>pdb|3QF4|B Chain B, Crystal Structure Of A Heterodimeric Abc Transporter In Its
Inward- Facing Conformation
Length = 598
Score = 36.2 bits (82), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 30/55 (54%), Gaps = 6/55 (10%)
Query: 1118 LALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDRKGQENFQLIVITH 1172
LA+ F N IL LDE T+N+D +S+ AA+ ++ME + I+I H
Sbjct: 500 LAITRAFLANPKILILDEATSNVDTKTEKSIQAAMWKLMEGKTS------IIIAH 548
>pdb|3D31|A Chain A, Modbc From Methanosarcina Acetivorans
pdb|3D31|B Chain B, Modbc From Methanosarcina Acetivorans
Length = 348
Score = 35.4 bits (80), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 29/97 (29%), Positives = 45/97 (46%), Gaps = 18/97 (18%)
Query: 1117 RLALAETFCLNCGILALDEPTTNLDGP----NAESLAAALHRIMEDRKGQENFQLIVITH 1172
R+ALA N IL LDEP + LD P NA + + LH+ + ++ ITH
Sbjct: 135 RVALARALVTNPKILLLDEPLSALD-PRTQENAREMLSVLHK-------KNKLTVLHITH 186
Query: 1173 DERFAQLIGQRQHAEKYYRVAKDDHQHSIIEAQEIFD 1209
D+ A+++ R V D + + +EIF+
Sbjct: 187 DQTEARIMADR------IAVVMDGKLIQVGKPEEIFE 217
>pdb|2OLJ|A Chain A, Abc Protein Artp In Complex With AdpMG2+
pdb|2OLJ|B Chain B, Abc Protein Artp In Complex With AdpMG2+
pdb|2OLK|A Chain A, Abc Protein Artp In Complex With Adp-Beta-S
pdb|2OLK|B Chain B, Abc Protein Artp In Complex With Adp-Beta-S
pdb|2OLK|C Chain C, Abc Protein Artp In Complex With Adp-Beta-S
pdb|2OLK|D Chain D, Abc Protein Artp In Complex With Adp-Beta-S
pdb|2OUK|A Chain A, Abc Protein Artp In Complex With Sulphate
pdb|2OUK|B Chain B, Abc Protein Artp In Complex With Sulphate
pdb|2OUK|C Chain C, Abc Protein Artp In Complex With Sulphate
pdb|2OUK|D Chain D, Abc Protein Artp In Complex With Sulphate
pdb|2Q0H|A Chain A, Abc Protein Artp In Complex With AdpMG2+, ATP-Gamma-S
Hydrolyzed
pdb|2Q0H|B Chain B, Abc Protein Artp In Complex With AdpMG2+, ATP-Gamma-S
Hydrolyzed
pdb|3C4J|A Chain A, Abc Protein Artp In Complex With Atp-Gamma-S
pdb|3C4J|B Chain B, Abc Protein Artp In Complex With Atp-Gamma-S
Length = 263
Score = 35.0 bits (79), Expect = 0.25, Method: Composition-based stats.
Identities = 18/67 (26%), Positives = 34/67 (50%), Gaps = 5/67 (7%)
Query: 1117 RLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDRKGQENFQLIVITHDERF 1176
R+A+A + I+ DEPT+ LD + + + ++ E ++V+TH+ F
Sbjct: 167 RVAIARALAMEPKIMLFDEPTSALDPEMVGEVLSVMKQL-----ANEGMTMVVVTHEMGF 221
Query: 1177 AQLIGQR 1183
A+ +G R
Sbjct: 222 AREVGDR 228
>pdb|4HLU|D Chain D, Structure Of The Ecfa-a' Heterodimer Bound To Adp
pdb|4HLU|C Chain C, Structure Of The Ecfa-a' Heterodimer Bound To Adp
Length = 268
Score = 35.0 bits (79), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 34/69 (49%), Gaps = 11/69 (15%)
Query: 1105 SAGQKVLASLIIRLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDRKGQEN 1164
S GQK RLA+A + LALDEP + LD P+ + L + + KG
Sbjct: 142 SGGQKQ------RLAIASMLARDTRFLALDEPVSMLDPPSQREIFQVLESLKNEGKG--- 192
Query: 1165 FQLIVITHD 1173
+I++TH+
Sbjct: 193 --IILVTHE 199
>pdb|1B0U|A Chain A, Atp-Binding Subunit Of The Histidine Permease From
Salmonella Typhimurium
Length = 262
Score = 34.7 bits (78), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 5/62 (8%)
Query: 1117 RLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDRKGQENFQLIVITHDERF 1176
R+++A + +L DEPT+ LD L + RIM+ + +E ++V+TH+ F
Sbjct: 161 RVSIARALAMEPDVLLFDEPTSALD----PELVGEVLRIMQ-QLAEEGKTMVVVTHEMGF 215
Query: 1177 AQ 1178
A+
Sbjct: 216 AR 217
>pdb|3C41|J Chain J, Abc Protein Artp In Complex With Amp-PnpMG2+
pdb|3C41|K Chain K, Abc Protein Artp In Complex With Amp-PnpMG2+
Length = 242
Score = 34.7 bits (78), Expect = 0.36, Method: Composition-based stats.
Identities = 18/67 (26%), Positives = 34/67 (50%), Gaps = 5/67 (7%)
Query: 1117 RLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDRKGQENFQLIVITHDERF 1176
R+A+A + I+ DEPT+ LD + + + ++ E ++V+TH+ F
Sbjct: 146 RVAIARALAMEPKIMLFDEPTSALDPEMVGEVLSVMKQL-----ANEGMTMVVVTHEMGF 200
Query: 1177 AQLIGQR 1183
A+ +G R
Sbjct: 201 AREVGDR 207
>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 = 34.3 bits (77), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 39/78 (50%), Gaps = 6/78 (7%)
Query: 1101 RGRCSAGQKVLASLIIRLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDRK 1160
RG S G++ L S+ + ++LAE +DE ++LD N E +A+ L + K
Sbjct: 278 RG-LSGGERALISISLAMSLAEVASGRLDAFFIDEGFSSLDTENKEKIASVLKELERLNK 336
Query: 1161 GQENFQLIVITHDERFAQ 1178
++ ITHD F++
Sbjct: 337 -----VIVFITHDREFSE 349
>pdb|1MV5|A Chain A, Crystal Structure Of Lmra Atp-Binding Domain
pdb|1MV5|B Chain B, Crystal Structure Of Lmra Atp-Binding Domain
pdb|1MV5|C Chain C, Crystal Structure Of Lmra Atp-Binding Domain
pdb|1MV5|D Chain D, Crystal Structure Of Lmra Atp-Binding Domain
Length = 243
Score = 34.3 bits (77), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 32/101 (31%), Positives = 48/101 (47%), Gaps = 19/101 (18%)
Query: 1095 DAELEMRG-RCSAGQKVLASLIIRLALAETFCLNCGILALDEPTTNLDGPNAESLAAALH 1153
+ E+ RG + S GQ+ RLA+A F N IL LDE T +LD + + AL
Sbjct: 130 NTEVGERGVKISGGQRQ------RLAIARAFLRNPKILMLDEATASLDSESESMVQKALD 183
Query: 1154 RIMEDRKGQENFQLIVITHDERFAQLIGQRQHAEKYYRVAK 1194
+M+ R +VI H R + ++ A+K Y + K
Sbjct: 184 SLMKGRT------TLVIAH--RLSTIV----DADKIYFIEK 212
>pdb|1US8|B Chain B, The Rad50 Signature Motif: Essential To Atp Binding And
Biological Function
Length = 144
Score = 34.3 bits (77), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 33/69 (47%), Gaps = 5/69 (7%)
Query: 1106 AGQKVLASLIIRLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDRKGQENF 1165
G+++ L RLA++ +L LDEPT LD L + R ++
Sbjct: 56 GGERIALGLAFRLAMSLYLAGEISLLILDEPTPYLDEERRRKLITIMERYLKKIP----- 110
Query: 1166 QLIVITHDE 1174
Q+I+++HDE
Sbjct: 111 QVILVSHDE 119
>pdb|2IWH|A Chain A, Structure Of Yeast Elongation Factor 3 In Complex With Adpnp
pdb|2IWH|B Chain B, Structure Of Yeast Elongation Factor 3 In Complex With Adpnp
pdb|2IX3|A Chain A, Structure Of Yeast Elongation Factor 3
pdb|2IX3|B Chain B, Structure Of Yeast Elongation Factor 3
Length = 986
Score = 33.5 bits (75), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 39/128 (30%), Positives = 50/128 (39%), Gaps = 27/128 (21%)
Query: 1060 QQTYRGQDIDYIRIHSDSE--------GAGTRSYSYKVLMQTG--DAELEMR-GRCSAGQ 1108
+ Y DID HSD+ G GT+ L++ G D + M S G
Sbjct: 496 RTVYVEHDID--GTHSDTSVLDFVFESGVGTKEAIKDKLIEFGFTDEMIAMPISALSGGW 553
Query: 1109 KVLASLIIRLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDRKGQENFQLI 1168
K ++LALA N IL LDEPT +LD N L L+ I
Sbjct: 554 K------MKLALARAVLRNADILLLDEPTNHLDTVNVAWLVNYLNTC--------GITSI 599
Query: 1169 VITHDERF 1176
I+HD F
Sbjct: 600 TISHDSVF 607
Score = 32.3 bits (72), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 31/98 (31%), Positives = 47/98 (47%), Gaps = 15/98 (15%)
Query: 1100 MRGRCSAGQKVLASLIIRLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDR 1159
+RG S GQKV +L LA ++ LDEPT LD +SL AL + +++
Sbjct: 899 IRG-LSGGQKV------KLVLAAGTWQRPHLIVLDEPTNYLD---RDSL-GALSKALKEF 947
Query: 1160 KGQENFQLIVITHDERFAQLIGQRQHAEKYYRVAKDDH 1197
+G +I+ITH F + + + A K R+ H
Sbjct: 948 EG----GVIIITHSAEFTKNLTEEVWAVKDGRMTPSGH 981
>pdb|2VSG|A Chain A, A Structural Motif In The Variant Surface Glycoproteins Of
Trypanosoma Brucei
pdb|2VSG|B Chain B, A Structural Motif In The Variant Surface Glycoproteins Of
Trypanosoma Brucei
Length = 358
Score = 33.1 bits (74), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 43/84 (51%), Gaps = 6/84 (7%)
Query: 703 RLFQEIQLWQKQVDDLEYMLDSRGQGVRTMEEIQLELSGSLSTKDNLQNELEKLRDEQRY 762
+L Q + Q +V+ ++ + Q ++ I+ +L+ S K + E E L+ E Y
Sbjct: 252 QLAQGPKPGQTEVETMKLL----AQKTAALDSIKFQLAASTGKKTSDYKEDENLKTE--Y 305
Query: 763 MENDLSNIQIRWHTLREEKVKAAN 786
SNI+ W+ ++EEKVK A+
Sbjct: 306 FGKTESNIEALWNKVKEEKVKGAD 329
>pdb|1VCI|A Chain A, Crystal Structure Of The Atp-binding Cassette Of Multisugar
Transporter From Pyrococcus Horikoshii Ot3 Complexed With
Atp
Length = 373
Score = 33.1 bits (74), Expect = 0.97, Method: Composition-based stats.
Identities = 19/67 (28%), Positives = 34/67 (50%), Gaps = 4/67 (5%)
Query: 1117 RLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDRKGQENFQLIVITHDERF 1176
R+A+A + +L +DEP +NLD ++ A + ++ + K I +THD+
Sbjct: 150 RVAVARAIVVEPDVLLMDEPLSNLDAKLRVAMRAEIKKLQQKLK----VTTIYVTHDQVE 205
Query: 1177 AQLIGQR 1183
A +G R
Sbjct: 206 AMTMGDR 212
>pdb|1V43|A Chain A, Crystal Structure Of Atpase Subunit Of Abc Sugar Transporter
Length = 372
Score = 33.1 bits (74), Expect = 0.97, Method: Composition-based stats.
Identities = 19/67 (28%), Positives = 34/67 (50%), Gaps = 4/67 (5%)
Query: 1117 RLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDRKGQENFQLIVITHDERF 1176
R+A+A + +L +DEP +NLD ++ A + ++ + K I +THD+
Sbjct: 149 RVAVARAIVVEPDVLLMDEPLSNLDAKLRVAMRAEIKKLQQKLK----VTTIYVTHDQVE 204
Query: 1177 AQLIGQR 1183
A +G R
Sbjct: 205 AMTMGDR 211
>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 = 33.1 bits (74), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 39/82 (47%), Gaps = 6/82 (7%)
Query: 1097 ELEMRGRCSAGQKVLASLIIRLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIM 1156
E RG S G++ L S+ + +LAE +DE ++LD N E +A+ L +
Sbjct: 274 ERPARG-LSGGERALISISLAXSLAEVASGRLDAFFIDEGFSSLDTENKEKIASVLKELE 332
Query: 1157 EDRKGQENFQLIVITHDERFAQ 1178
K ++ ITHD F++
Sbjct: 333 RLNK-----VIVFITHDREFSE 349
>pdb|1OXS|C Chain C, Crystal Structure Of Glcv, The Abc-Atpase Of The Glucose Abc
Transporter From Sulfolobus Solfataricus
pdb|1OXT|A Chain A, Crystal Structure Of Glcv, The Abc-Atpase Of The Glucose Abc
Transporter From Sulfolobus Solfataricus
pdb|1OXT|B Chain B, Crystal Structure Of Glcv, The Abc-Atpase Of The Glucose Abc
Transporter From Sulfolobus Solfataricus
pdb|1OXT|D Chain D, Crystal Structure Of Glcv, The Abc-Atpase Of The Glucose Abc
Transporter From Sulfolobus Solfataricus
pdb|1OXU|A Chain A, Crystal Structure Of Glcv, The Abc-Atpase Of The Glucose Abc
Transporter From Sulfolobus Solfataricus
pdb|1OXU|B Chain B, Crystal Structure Of Glcv, The Abc-Atpase Of The Glucose Abc
Transporter From Sulfolobus Solfataricus
pdb|1OXU|C Chain C, Crystal Structure Of Glcv, The Abc-Atpase Of The Glucose Abc
Transporter From Sulfolobus Solfataricus
pdb|1OXV|A Chain A, Crystal Structure Of Glcv, The Abc-atpase Of The Glucose Abc
Transporter From Sulfolobus Solfataricus
pdb|1OXV|B Chain B, Crystal Structure Of Glcv, The Abc-atpase Of The Glucose Abc
Transporter From Sulfolobus Solfataricus
pdb|1OXV|D Chain D, Crystal Structure Of Glcv, The Abc-atpase Of The Glucose Abc
Transporter From Sulfolobus Solfataricus
Length = 353
Score = 33.1 bits (74), Expect = 1.1, Method: Composition-based stats.
Identities = 22/57 (38%), Positives = 33/57 (57%), Gaps = 4/57 (7%)
Query: 1117 RLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDRKGQENFQLIVITHD 1173
R+ALA + +L LDEP +NLD +S A AL + ++ R G L+V++HD
Sbjct: 148 RVALARALVKDPSLLLLDEPFSNLDARMRDS-ARALVKEVQSRLG---VTLLVVSHD 200
>pdb|1OXX|K Chain K, Crystal Structure Of Glcv, The Abc-Atpase Of The Glucose Abc
Transporter From Sulfolobus Solfataricus
Length = 353
Score = 32.7 bits (73), Expect = 1.1, Method: Composition-based stats.
Identities = 22/57 (38%), Positives = 33/57 (57%), Gaps = 4/57 (7%)
Query: 1117 RLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDRKGQENFQLIVITHD 1173
R+ALA + +L LDEP +NLD +S A AL + ++ R G L+V++HD
Sbjct: 148 RVALARALVKDPSLLLLDEPFSNLDARMRDS-ARALVKEVQSRLG---VTLLVVSHD 200
>pdb|3NH6|A Chain A, Nucleotide Binding Domain Of Human Abcb6 (Apo Structure)
pdb|3NH9|A Chain A, Nucleotide Binding Domain Of Human Abcb6 (Atp Bound
Structure)
pdb|3NHA|A Chain A, Nucleotide Binding Domain Of Human Abcb6 (Adp Mg Bound
Structure)
pdb|3NHB|A Chain A, Nucleotide Binding Domain Of Human Abcb6 (Adp Bound
Structure)
Length = 306
Score = 32.7 bits (73), Expect = 1.4, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 26/43 (60%)
Query: 1117 RLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDR 1159
R+A+A T GI+ LDE T+ LD N ++ A+L ++ +R
Sbjct: 198 RVAIARTILKAPGIILLDEATSALDTSNERAIQASLAKVCANR 240
>pdb|1PS0|A Chain A, Crystal Structure Of The Nadp(H)-Dependent Cinnamyl
Alcohol Dehydrogenase From Saccharomyces Cerevisiae
pdb|1Q1N|A Chain A, Apo And Holo Structures Of An Nadp(h)-dependent Cinnamyl
Alcohol Dehydrogenase From Saccharomyces Cerevisiae
pdb|1PIW|A Chain A, Apo And Holo Structures Of An Nadp(H)-Dependent Cinnamyl
Alcohol Dehydrogenase From Saccharomyces Cerevisiae
pdb|1PIW|B Chain B, Apo And Holo Structures Of An Nadp(H)-Dependent Cinnamyl
Alcohol Dehydrogenase From Saccharomyces Cerevisiae
Length = 360
Score = 32.7 bits (73), Expect = 1.4, Method: Composition-based stats.
Identities = 21/72 (29%), Positives = 41/72 (56%), Gaps = 10/72 (13%)
Query: 608 RVKAASSAEHMKVLSLE---------SSNADSYFQQLDKL-RMVYEEYVKLSKETIPVAE 657
R+ + S E ++LSL+ S +A ++L++L ++V E+ +K+ ET+PV E
Sbjct: 271 RIVSISIPEQHEMLSLKPYGLKAVSISYSALGSIKELNQLLKLVSEKDIKIWVETLPVGE 330
Query: 658 KNLHELTEELDQ 669
+HE E +++
Sbjct: 331 AGVHEAFERMEK 342
>pdb|2HYD|A Chain A, Multidrug Abc Transporter Sav1866
pdb|2HYD|B Chain B, Multidrug Abc Transporter Sav1866
pdb|2ONJ|A Chain A, Structure Of The Multidrug Abc Transporter Sav1866 From S.
Aureus In Complex With Amp-Pnp
pdb|2ONJ|B Chain B, Structure Of The Multidrug Abc Transporter Sav1866 From S.
Aureus In Complex With Amp-Pnp
pdb|4A82|A Chain A, Fitted Model Of Staphylococcus Aureus Sav1866 Model Abc
Transporter In The Human Cystic Fibrosis Transmembrane
Conductance Regulator Volume Map Emd-1966.
pdb|4A82|B Chain B, Fitted Model Of Staphylococcus Aureus Sav1866 Model Abc
Transporter In The Human Cystic Fibrosis Transmembrane
Conductance Regulator Volume Map Emd-1966.
pdb|4A82|C Chain C, Fitted Model Of Staphylococcus Aureus Sav1866 Model Abc
Transporter In The Human Cystic Fibrosis Transmembrane
Conductance Regulator Volume Map Emd-1966.
pdb|4A82|D Chain D, Fitted Model Of Staphylococcus Aureus Sav1866 Model Abc
Transporter In The Human Cystic Fibrosis Transmembrane
Conductance Regulator Volume Map Emd-1966
Length = 578
Score = 32.3 bits (72), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 38/124 (30%), Positives = 54/124 (43%), Gaps = 23/124 (18%)
Query: 1090 LMQTGDAELEMRG-RCSAGQKVLASLIIRLALAETFCLNCGILALDEPTTNLDGPNAESL 1148
L Q D E+ RG + S GQK RL++A F N IL LDE T+ LD + +
Sbjct: 463 LPQGYDTEVGERGVKLSGGQKQ------RLSIARIFLNNPPILILDEATSALDLESESII 516
Query: 1149 AAALHRIMEDRKGQENFQLIV------ITHDERF-----AQLIGQRQHAEKYYRVAKDDH 1197
AL + +DR LIV ITH ++ ++ H E + +H
Sbjct: 517 QEALDVLSKDRT-----TLIVAHRLSTITHADKIVVIENGHIVETGTHRELIAKQGAYEH 571
Query: 1198 QHSI 1201
+SI
Sbjct: 572 LYSI 575
>pdb|2IX8|A Chain A, Model For Eef3 Bound To An 80s Ribosome
Length = 976
Score = 32.0 bits (71), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 36/125 (28%), Positives = 48/125 (38%), Gaps = 21/125 (16%)
Query: 1060 QQTYRGQDIDYIRIHSDSE--------GAGTRSYSYKVLMQTGDAELEMRGRCSAGQKVL 1111
+ Y DID HSD+ G GT+ L++ G + + SA +
Sbjct: 490 RTVYVEHDID--GTHSDTSVLDFVFESGVGTKEAIKDKLIEFGFTDEXIAXPISA---LS 544
Query: 1112 ASLIIRLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDRKGQENFQLIVIT 1171
+LALA N IL LDEPT +LD N L L+ I I+
Sbjct: 545 GGWKXKLALARAVLRNADILLLDEPTNHLDTVNVAWLVNYLNTC--------GITSITIS 596
Query: 1172 HDERF 1176
HD F
Sbjct: 597 HDSVF 601
Score = 31.6 bits (70), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 31/98 (31%), Positives = 46/98 (46%), Gaps = 15/98 (15%)
Query: 1100 MRGRCSAGQKVLASLIIRLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDR 1159
+RG S GQKV +L LA ++ LDEPT LD +SL AL + +++
Sbjct: 893 IRG-LSGGQKV------KLVLAAGTWQRPHLIVLDEPTNYLD---RDSL-GALSKALKEF 941
Query: 1160 KGQENFQLIVITHDERFAQLIGQRQHAEKYYRVAKDDH 1197
+G +I+ITH F + + + A K R H
Sbjct: 942 EG----GVIIITHSAEFTKNLTEEVWAVKDGRXTPSGH 975
>pdb|2IW3|A Chain A, Elongation Factor 3 In Complex With Adp
pdb|2IW3|B Chain B, Elongation Factor 3 In Complex With Adp
Length = 986
Score = 32.0 bits (71), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 36/125 (28%), Positives = 48/125 (38%), Gaps = 21/125 (16%)
Query: 1060 QQTYRGQDIDYIRIHSDSE--------GAGTRSYSYKVLMQTGDAELEMRGRCSAGQKVL 1111
+ Y DID HSD+ G GT+ L++ G + + SA +
Sbjct: 496 RTVYVEHDID--GTHSDTSVLDFVFESGVGTKEAIKDKLIEFGFTDEXIAXPISA---LS 550
Query: 1112 ASLIIRLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDRKGQENFQLIVIT 1171
+LALA N IL LDEPT +LD N L L+ I I+
Sbjct: 551 GGWKXKLALARAVLRNADILLLDEPTNHLDTVNVAWLVNYLNTC--------GITSITIS 602
Query: 1172 HDERF 1176
HD F
Sbjct: 603 HDSVF 607
Score = 31.6 bits (70), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 31/98 (31%), Positives = 46/98 (46%), Gaps = 15/98 (15%)
Query: 1100 MRGRCSAGQKVLASLIIRLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDR 1159
+RG S GQKV +L LA ++ LDEPT LD +SL AL + +++
Sbjct: 899 IRG-LSGGQKV------KLVLAAGTWQRPHLIVLDEPTNYLD---RDSL-GALSKALKEF 947
Query: 1160 KGQENFQLIVITHDERFAQLIGQRQHAEKYYRVAKDDH 1197
+G +I+ITH F + + + A K R H
Sbjct: 948 EG----GVIIITHSAEFTKNLTEEVWAVKDGRXTPSGH 981
>pdb|4AYT|A Chain A, Structure Of The Human Mitochondrial Abc Transporter, Abcb10
pdb|4AYX|A Chain A, Structure Of The Human Mitochondrial Abc Transporter, Abcb10
(Rod Form B)
pdb|3ZDQ|A Chain A, Structure Of The Human Mitochondrial Abc Transporter, Abcb10
(nucleotide-free Form)
Length = 595
Score = 31.2 bits (69), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 25/68 (36%), Positives = 33/68 (48%), Gaps = 12/68 (17%)
Query: 1105 SAGQKVLASLIIRLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDRKGQEN 1164
S GQK R+A+A N IL LDE T+ LD N + AL R+M+ R
Sbjct: 485 SGGQKQ------RIAIARALLKNPKILLLDEATSALDAENEYLVQEALDRLMDGRT---- 534
Query: 1165 FQLIVITH 1172
++VI H
Sbjct: 535 --VLVIAH 540
>pdb|3GFO|A Chain A, Structure Of Cbio1 From Clostridium Perfringens: Part Of The
Abc Transporter Complex Cbionq
Length = 275
Score = 30.8 bits (68), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 22/92 (23%), Positives = 39/92 (42%), Gaps = 4/92 (4%)
Query: 1117 RLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDRKGQENFQLIVITHDERF 1176
R+A+A + +L LDEPT LD P S + +++ + + + +I+ THD
Sbjct: 151 RVAIAGVLVMEPKVLILDEPTAGLD-PMGVS---EIMKLLVEMQKELGITIIIATHDIDI 206
Query: 1177 AQLIGQRQHAEKYYRVAKDDHQHSIIEAQEIF 1208
L K RV + + +E+
Sbjct: 207 VPLYCDNVFVMKEGRVILQGNPKEVFAEKEVI 238
>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 = 4.5, Method: Composition-based stats.
Identities = 27/99 (27%), Positives = 44/99 (44%), Gaps = 16/99 (16%)
Query: 1080 AGTRSYSYKVLMQTGD----AELEMR--GRCSAGQKVLASLIIRLALAETFCLNCGILAL 1133
A +S+ Y+V MQ D L R S GQ+ L + +A C ++ L
Sbjct: 99 AKPKSHDYQVAMQALDYLNLTHLAKREFTSLSGGQRQL------ILIARAIASECKLILL 152
Query: 1134 DEPTTNLDGPNAESLAAALHRIMEDRKGQENFQLIVITH 1172
DEPT+ LD N + + + ++ D +N ++ TH
Sbjct: 153 DEPTSALDLANQDIVLS----LLIDLAQSQNMTVVFTTH 187
>pdb|4AYW|A Chain A, Structure Of The Human Mitochondrial Abc Transporter, Abcb10
(plate Form)
Length = 619
Score = 30.8 bits (68), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 25/68 (36%), Positives = 33/68 (48%), Gaps = 12/68 (17%)
Query: 1105 SAGQKVLASLIIRLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDRKGQEN 1164
S GQK R+A+A N IL LDE T+ LD N + AL R+M+ R
Sbjct: 516 SGGQKQ------RIAIARALLKNPKILLLDEATSALDAENEYLVQEALDRLMDGR----- 564
Query: 1165 FQLIVITH 1172
++VI H
Sbjct: 565 -TVLVIAH 571
>pdb|1VPL|A Chain A, Crystal Structure Of Abc Transporter Atp-binding Protein
(tm0544) From Thermotoga Maritima At 2.10 A Resolution
Length = 256
Score = 30.4 bits (67), Expect = 6.2, Method: Composition-based stats.
Identities = 34/129 (26%), Positives = 60/129 (46%), Gaps = 13/129 (10%)
Query: 1050 EINKIIRELWQQT--YRG-QDIDYIRIHSDSEGAGTRSYSYKVLMQTGDAEL--EMRGRC 1104
E+ K+I L ++ YR Q I+Y+R + + + V T A L +++ R
Sbjct: 85 EVRKLISYLPEEAGAYRNMQGIEYLRFVAGFYASSSSEIEEMVERATEIAGLGEKIKDRV 144
Query: 1105 SAGQKVLASLIIRLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDRKGQEN 1164
S K ++ +L +A +N + LDEPT+ LD NA + R + + QE
Sbjct: 145 STYSK---GMVRKLLIARALMVNPRLAILDEPTSGLDVLNAREV-----RKILKQASQEG 196
Query: 1165 FQLIVITHD 1173
++V +H+
Sbjct: 197 LTILVSSHN 205
>pdb|2PCJ|A Chain A, Crystal Structure Of Abc Transporter (Aq_297) From Aquifex
Aeolicus Vf5
pdb|2PCJ|B Chain B, Crystal Structure Of Abc Transporter (Aq_297) From Aquifex
Aeolicus Vf5
pdb|2PCL|A Chain A, Crystal Structure Of Abc Transporter With Complex (Aq_297)
From Aquifex Aeolicus Vf5
Length = 224
Score = 30.4 bits (67), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 30/63 (47%), Gaps = 5/63 (7%)
Query: 1117 RLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDRKGQENFQLIVITHDERF 1176
R+A+A +L DEPT NLD N + + +I E ++++TH+
Sbjct: 148 RVAIARALANEPILLFADEPTGNLDSANTKRVMDIFLKINEG-----GTSIVMVTHEREL 202
Query: 1177 AQL 1179
A+L
Sbjct: 203 AEL 205
>pdb|1G29|1 Chain 1, Malk
pdb|1G29|2 Chain 2, Malk
Length = 372
Score = 30.0 bits (66), Expect = 8.0, Method: Composition-based stats.
Identities = 19/67 (28%), Positives = 29/67 (43%), Gaps = 4/67 (5%)
Query: 1117 RLALAETFCLNCGILALDEPTTNLDGPNAESLAAALHRIMEDRKGQENFQLIVITHDERF 1176
R+AL + +DEP +NLD + A L ++ Q I +THD+
Sbjct: 147 RVALGRAIVRKPQVFLMDEPLSNLDAKLRVRMRAELKKLQR----QLGVTTIYVTHDQVE 202
Query: 1177 AQLIGQR 1183
A +G R
Sbjct: 203 AMTMGDR 209
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
0.314 0.130 0.352
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 30,552,894
Number of Sequences: 62578
Number of extensions: 1192847
Number of successful extensions: 4089
Number of sequences better than 100.0: 181
Number of HSP's better than 100.0 without gapping: 39
Number of HSP's successfully gapped in prelim test: 142
Number of HSP's that attempted gapping in prelim test: 3823
Number of HSP's gapped (non-prelim): 362
length of query: 1209
length of database: 14,973,337
effective HSP length: 110
effective length of query: 1099
effective length of database: 8,089,757
effective search space: 8890642943
effective search space used: 8890642943
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 57 (26.6 bits)