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= psy14062
(388 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 59.3 bits (142), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 41/152 (26%), Positives = 73/152 (48%), Gaps = 26/152 (17%)
Query: 144 GSGKSNVIDSMLFRFNAIIGPNGSGKSNVIDSMLFVFGYRASKIRANKLSVLMHKS---- 199
G G+SN F +IIGPNGSGKSN++D++ FV G R++ +R+N L L+++
Sbjct: 22 GFGESN--------FTSIIGPNGSGKSNMMDAISFVLGVRSNHLRSNILKDLIYRGVLND 73
Query: 200 ------DQVGGVSRCSVAIHFAQIIDKPNEEYEIIPGTDLEIARTAFYDNSSYYTLNGKK 253
D G S + + K N+ +E+ R + + Y ++GK
Sbjct: 74 ENSDDYDNEGAASSNPQSAYVKAFYQKGNKL--------VELMRIISRNGDTSYKIDGKT 125
Query: 254 VHFKEVAKVLRDHGVDLLNNRFLILQEPIAKM 285
V +K+ + L + + + FL+ Q + ++
Sbjct: 126 VSYKDYSIFLENENILIKAKNFLVFQGDVEQI 157
>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 = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 39/110 (35%), Positives = 63/110 (57%), Gaps = 11/110 (10%)
Query: 158 FNAIIGPNGSGKSNVIDSMLFVFGYRASK-IRANKLSVLMHKSDQVGGVSR-CSVAIHFA 215
F AI+G NGSGKSN+ D++LFV G ++K +RA+++S L+ + ++ VAI+F
Sbjct: 28 FTAIVGANGSGKSNIGDAILFVLGGLSAKAMRASRISDLIFAGSKNEPPAKYAEVAIYFN 87
Query: 216 QIIDK--PNEEYEIIPGTDLEIARTAFYDNSSYYTLNGKKVHFKEVAKVL 263
D+ P +E E++ I R + D S Y LNG++ E+ +L
Sbjct: 88 N-EDRGFPIDEDEVV------IRRRVYPDGRSSYWLNGRRATRSEILDIL 130
>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 = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 39/110 (35%), Positives = 62/110 (56%), Gaps = 11/110 (10%)
Query: 158 FNAIIGPNGSGKSNVIDSMLFVFGYRASKI-RANKLSVLMHKSDQVGGVSR-CSVAIHFA 215
F AI+G NGSGKSN+ D++LFV G ++K RA+++S L+ + ++ VAI+F
Sbjct: 28 FTAIVGANGSGKSNIGDAILFVLGGLSAKAXRASRISDLIFAGSKNEPPAKYAEVAIYFN 87
Query: 216 QIIDK--PNEEYEIIPGTDLEIARTAFYDNSSYYTLNGKKVHFKEVAKVL 263
D+ P +E E++ I R + D S Y LNG++ E+ +L
Sbjct: 88 N-EDRGFPIDEDEVV------IRRRVYPDGRSSYWLNGRRATRSEILDIL 130
>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 = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 39/110 (35%), Positives = 62/110 (56%), Gaps = 11/110 (10%)
Query: 158 FNAIIGPNGSGKSNVIDSMLFVFGYRASKI-RANKLSVLMHKSDQVGGVSR-CSVAIHFA 215
F AI+G NGSGKSN+ D++LFV G ++K RA+++S L+ + ++ VAI+F
Sbjct: 28 FTAIVGANGSGKSNIGDAILFVLGGLSAKAXRASRISDLIFAGSKNEPPAKYAEVAIYFN 87
Query: 216 QIIDK--PNEEYEIIPGTDLEIARTAFYDNSSYYTLNGKKVHFKEVAKVL 263
D+ P +E E++ I R + D S Y LNG++ E+ +L
Sbjct: 88 N-EDRGFPIDEDEVV------IRRRVYPDGRSSYWLNGRRATRSEILDIL 130
>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 = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 33/105 (31%), Positives = 54/105 (51%), Gaps = 14/105 (13%)
Query: 157 RFNAIIGPNGSGKSNVIDSMLFVFGYRASK-IRAN-KLSVLMHKSDQVGGVSRCSVAIHF 214
R AI+GPNGSGKSN+ID++ +VFG ++ K +RA+ K ++ S+ + V + F
Sbjct: 25 RVTAIVGPNGSGKSNIIDAIKWVFGEQSKKELRASEKFDMIFAGSENLPPAGSAYVELVF 84
Query: 215 AQIIDKPNEEYEIIPGTDLEIARTAFYDNSSYYTLNGKKVHFKEV 259
+ G ++ +AR + Y LNG V K++
Sbjct: 85 EE------------NGEEITVARELKRTGENTYYLNGSPVRLKDI 117
Score = 37.4 bits (85), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 15/24 (62%), Positives = 20/24 (83%)
Query: 135 RFNAIIGPNGSGKSNVIDSMLFRF 158
R AI+GPNGSGKSN+ID++ + F
Sbjct: 25 RVTAIVGPNGSGKSNIIDAIKWVF 48
>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 = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 32/139 (23%), Positives = 69/139 (49%), Gaps = 8/139 (5%)
Query: 160 AIIGPNGSGKSNVIDSMLFVFGYRASK-IRANKLSVLMHKSDQVGGVSRCSVAIHFAQII 218
A++GPNGSGKSN+ D++ +V G ++++ +R K+ ++ G SR + + +
Sbjct: 28 AVVGPNGSGKSNITDAIRWVLGEQSARSLRGGKMEDIIF----AGSDSRKRLNLAEVTLT 83
Query: 219 DKPNEEYEIIPGTDLEIARTAFYDNSSYYTLNGKKVHFKEVAKVLRDHGVDLLNNRFLIL 278
++ + I ++ + R + S + +N + K++ + D G L F I+
Sbjct: 84 LDNDDHFLPIDFHEVSVTRRVYRSGESEFLINNQPCRLKDIIDLFMDSG--LGKEAFSII 141
Query: 279 QEPIAKMEVLYGKYDEERT 297
+ + E+L K ++ R+
Sbjct: 142 SQGKVE-EILSSKAEDRRS 159
>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 = 33.1 bits (74), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 61/227 (26%), Positives = 92/227 (40%), Gaps = 52/227 (22%)
Query: 160 AIIGPNGSGKSNVIDSMLF-VFGYRASKIRANKLSVLMHKSDQVGGVSRCSVAIHFAQII 218
AIIG NGSGKS++ +++ F +FG ++ D + + SV + +
Sbjct: 29 AIIGENGSGKSSIFEAVFFALFGAGSN-----------FNYDTIITKGKKSVYVELDFEV 77
Query: 219 DKPNEEYEIIPGTDLEIARTAFYDNSSYYTLNGKKVHFKEVAKVLRDHGVD--LLNNRFL 276
+ N Y+II D Y N Y V+ K V ++L GVD + N
Sbjct: 78 NGNN--YKIIREYDSGRGGAKLYKNGKPYATTISAVN-KAVNEIL---GVDRNMFLNSIY 131
Query: 277 ILQEPIAKMEVLYGKYDEERTEKLTRVQLVETDLKALEPELRKAVNFLELENCVQRKHNE 336
I Q IAK L + +EKL V K + E E C Q K E
Sbjct: 132 IKQGEIAKFLSL------KPSEKLETVA--------------KLLGIDEFEKCYQ-KMGE 170
Query: 337 IYQYERYVNMKNLGEHETKVQQMEQELTANLESIKKCTDEMESAKTE 383
I + E+E +++++E EL ES+K EM + + E
Sbjct: 171 IVK-----------EYEKRLERIEGELNYKEESLKARLKEMSNLEKE 206
>pdb|3MCP|A Chain A, Crystal Structure Of Glucokinase (Bdi_1628) From
Parabactero Distasonis Atcc 8503 At 3.00 A Resolution
Length = 366
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 39/113 (34%), Positives = 45/113 (39%), Gaps = 21/113 (18%)
Query: 61 PIAPVC--FADPTGPRLIITKIVAF--NFKSYAGYVTLGPFNTGEVEQISMMPP------ 110
P APV FA P GP I+ NF S+ G V LGPF +E I +P
Sbjct: 64 PEAPVAISFAFP-GPADYQAGIIGDLPNFPSFRGGVALGPF----LEDIFGIPVFINNDG 118
Query: 111 --KGKTEKETGLL----EYLEEIIGTNRYKRFNAIIGPNGSGKSNVIDSMLFR 157
E TG+L L E T RYK + G G VID L R
Sbjct: 119 SLFAYGEALTGVLPEINRRLREAGSTKRYKNLLGVTLGTGFGAGVVIDGELLR 171
>pdb|4FR0|A Chain A, Arsm Arsenic(Iii) S-Adenosylmethionine Methyltransferase
With Sam
pdb|4FS8|A Chain A, The Structure Of An As(Iii) S-Adenosylmethionine
Methyltransferase: Insights Into The Mechanism Of
Arsenic Biotransformation
pdb|4FSD|A Chain A, Arsm Arsenic(Iii) S-Adenosylmethionine Methyltransferase
With As(Iii)
Length = 383
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 42/150 (28%), Positives = 62/150 (41%), Gaps = 18/150 (12%)
Query: 197 HKSDQVGGVSRCSVAIHFAQIIDKPNEEYEIIPGTDLEIARTAFYDNSSYYTLNGKKVHF 256
H G SR +V I + E E +P + ++I + N S K F
Sbjct: 131 HAEKFFGSPSRSNVRFLKGFIENLATAEPEGVPDSSVDIVISNCVCNLS----TNKLALF 186
Query: 257 KEVAKVLRDHG----VDLLNNRFL---ILQEPIAKMEVLYGKYDEERTEKLTR------V 303
KE+ +VLRD G D+ +R L Q+PI E L G E +L V
Sbjct: 187 KEIHRVLRDGGELYFSDVYADRRLSEAAQQDPILYGECLGGALYLEDFRRLVAEAGFRDV 246
Query: 304 QLVETD-LKALEPELRKAVNFLELENCVQR 332
+LV + +P+LRK V ++ +C R
Sbjct: 247 RLVSVGPVDVSDPQLRKLVPDVQFYSCTFR 276
>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 = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 17/19 (89%)
Query: 137 NAIIGPNGSGKSNVIDSML 155
N IIG NGSGKS+++D++L
Sbjct: 26 NLIIGQNGSGKSSLLDAIL 44
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 17/19 (89%)
Query: 159 NAIIGPNGSGKSNVIDSML 177
N IIG NGSGKS+++D++L
Sbjct: 26 NLIIGQNGSGKSSLLDAIL 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 = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 17/19 (89%)
Query: 137 NAIIGPNGSGKSNVIDSML 155
N IIG NGSGKS+++D++L
Sbjct: 26 NLIIGQNGSGKSSLLDAIL 44
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 17/19 (89%)
Query: 159 NAIIGPNGSGKSNVIDSML 177
N IIG NGSGKS+++D++L
Sbjct: 26 NLIIGQNGSGKSSLLDAIL 44
>pdb|1II8|A Chain A, Crystal Structure Of The P. Furiosus Rad50 Atpase Domain
Length = 195
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 17/19 (89%)
Query: 137 NAIIGPNGSGKSNVIDSML 155
N IIG NGSGKS+++D++L
Sbjct: 26 NLIIGQNGSGKSSLLDAIL 44
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 17/19 (89%)
Query: 159 NAIIGPNGSGKSNVIDSML 177
N IIG NGSGKS+++D++L
Sbjct: 26 NLIIGQNGSGKSSLLDAIL 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 = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 17/19 (89%)
Query: 137 NAIIGPNGSGKSNVIDSML 155
N IIG NGSGKS+++D++L
Sbjct: 26 NLIIGQNGSGKSSLLDAIL 44
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 17/19 (89%)
Query: 159 NAIIGPNGSGKSNVIDSML 177
N IIG NGSGKS+++D++L
Sbjct: 26 NLIIGQNGSGKSSLLDAIL 44
>pdb|4AYW|A Chain A, Structure Of The Human Mitochondrial Abc Transporter,
Abcb10 (plate Form)
Length = 619
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 29/103 (28%), Positives = 50/103 (48%), Gaps = 18/103 (17%)
Query: 159 NAIIGPNGSGKSNVIDSMLFVFGYRASKIRAN-----KLSVLMHKSDQVGGVSR------ 207
A++GP+GSGKS V+ +L ++ + I + +L+ + +S ++G VS+
Sbjct: 404 TALVGPSGSGKSTVLSLLLRLYDPASGTISLDGHDIRQLNPVWLRS-KIGTVSQEPILFS 462
Query: 208 CSVAIHFAQIIDKPNEEYEIIPGTDLEIARTAFYDNSSYYTLN 250
CS+A + A D P+ T EI R A N+ + N
Sbjct: 463 CSIAENIAYGADDPSSV------TAEEIQRVAEVANAVAFIRN 499
>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 = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 17/19 (89%)
Query: 137 NAIIGPNGSGKSNVIDSML 155
N IIG NGSGKS+++D++L
Sbjct: 26 NLIIGQNGSGKSSLLDAIL 44
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 17/19 (89%)
Query: 159 NAIIGPNGSGKSNVIDSML 177
N IIG NGSGKS+++D++L
Sbjct: 26 NLIIGQNGSGKSSLLDAIL 44
>pdb|1US8|A Chain A, The Rad50 Signature Motif: Essential To Atp Binding And
Biological Function
Length = 147
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 17/19 (89%)
Query: 137 NAIIGPNGSGKSNVIDSML 155
N IIG NGSGKS+++D++L
Sbjct: 26 NLIIGQNGSGKSSLLDAIL 44
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 17/19 (89%)
Query: 159 NAIIGPNGSGKSNVIDSML 177
N IIG NGSGKS+++D++L
Sbjct: 26 NLIIGQNGSGKSSLLDAIL 44
>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 = 30.0 bits (66), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 29/103 (28%), Positives = 50/103 (48%), Gaps = 18/103 (17%)
Query: 159 NAIIGPNGSGKSNVIDSMLFVFGYRASKIRAN-----KLSVLMHKSDQVGGVSR------ 207
A++GP+GSGKS V+ +L ++ + I + +L+ + +S ++G VS+
Sbjct: 373 TALVGPSGSGKSTVLSLLLRLYDPASGTISLDGHDIRQLNPVWLRS-KIGTVSQEPILFS 431
Query: 208 CSVAIHFAQIIDKPNEEYEIIPGTDLEIARTAFYDNSSYYTLN 250
CS+A + A D P+ T EI R A N+ + N
Sbjct: 432 CSIAENIAYGADDPSSV------TAEEIQRVAEVANAVAFIRN 468
>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 = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 18/21 (85%), Gaps = 1/21 (4%)
Query: 138 AIIGPNGSGKSNVIDSMLFRF 158
A++GP+G+GKS ++ +LFRF
Sbjct: 84 ALVGPSGAGKSTIL-RLLFRF 103
>pdb|2PTS|A Chain A, Crystal Structure Of Wild Type Escherichia Coli
Adenylosuccinate Lyase
Length = 462
Score = 28.9 bits (63), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 37/66 (56%), Gaps = 3/66 (4%)
Query: 247 YTLNGKKVHFKEVAK--VLRDHGVDLLNNRFLILQEPIAKMEVLYG-KYDEERTEKLTRV 303
Y L + K V+K V RDH +D L++ + +L EPI + YG + E+ ++LTR
Sbjct: 352 YALIAYQSTLKGVSKLEVNRDHLLDELDHNWEVLAEPIQTVXRRYGIEKPYEKLKELTRG 411
Query: 304 QLVETD 309
+ V+ +
Sbjct: 412 KRVDAE 417
>pdb|2IX8|A Chain A, Model For Eef3 Bound To An 80s Ribosome
Length = 976
Score = 28.5 bits (62), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 33/66 (50%), Gaps = 8/66 (12%)
Query: 160 AIIGPNGSGKSNVIDSMLFVFGYRASKIRANKLSVLMHKSDQVGGVSRCSVAIHFAQIID 219
A+IGPNG+GKS +I+ + ++ V H++ ++ + + + A H +D
Sbjct: 697 AVIGPNGAGKSTLINVL-------TGELLPTSGEVYTHENCRIAYIKQHAFA-HIESHLD 748
Query: 220 KPNEEY 225
K EY
Sbjct: 749 KTPSEY 754
>pdb|3UNV|A Chain A, Pantoea Agglomerans Phenylalanine Aminomutase
pdb|3UNV|B Chain B, Pantoea Agglomerans Phenylalanine Aminomutase
Length = 547
Score = 28.5 bits (62), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 33/65 (50%), Gaps = 14/65 (21%)
Query: 234 EIARTAFYDNSSYYTLNGKKVHFKEVAKVLRDHGVDLLNNRFL--------ILQEPIAKM 285
+I RT+F+ +S GK + +E+A+ RDH L++ + IL+ ++
Sbjct: 21 QIERTSFHISS------GKDISLEEIARAARDHQPVTLHDEVVNRVTRSRSILESMVSDE 74
Query: 286 EVLYG 290
V+YG
Sbjct: 75 RVIYG 79
>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 = 28.5 bits (62), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 33/66 (50%), Gaps = 8/66 (12%)
Query: 160 AIIGPNGSGKSNVIDSMLFVFGYRASKIRANKLSVLMHKSDQVGGVSRCSVAIHFAQIID 219
A+IGPNG+GKS +I+ + ++ V H++ ++ + + + A H +D
Sbjct: 703 AVIGPNGAGKSTLINVL-------TGELLPTSGEVYTHENCRIAYIKQHAFA-HIESHLD 754
Query: 220 KPNEEY 225
K EY
Sbjct: 755 KTPSEY 760
>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 = 28.5 bits (62), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 33/66 (50%), Gaps = 8/66 (12%)
Query: 160 AIIGPNGSGKSNVIDSMLFVFGYRASKIRANKLSVLMHKSDQVGGVSRCSVAIHFAQIID 219
A+IGPNG+GKS +I+ + ++ V H++ ++ + + + A H +D
Sbjct: 703 AVIGPNGAGKSTLINVL-------TGELLPTSGEVYTHENCRIAYIKQHAFA-HIESHLD 754
Query: 220 KPNEEY 225
K EY
Sbjct: 755 KTPSEY 760
>pdb|3JVV|A Chain A, Crystal Structure Of P. Aeruginosa Pilt With Bound Amp-Pcp
pdb|3JVV|B Chain B, Crystal Structure Of P. Aeruginosa Pilt With Bound Amp-Pcp
pdb|3JVV|C Chain C, Crystal Structure Of P. Aeruginosa Pilt With Bound Amp-Pcp
pdb|3JVU|A Chain A, Crystal Structure Of Unliganded P. Aeruginosa Pilt
pdb|3JVU|B Chain B, Crystal Structure Of Unliganded P. Aeruginosa Pilt
pdb|3JVU|C Chain C, Crystal Structure Of Unliganded P. Aeruginosa Pilt
Length = 356
Score = 28.5 bits (62), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 37/81 (45%), Gaps = 14/81 (17%)
Query: 79 KIVAFNFKSYAGYVTLGPFNTGEVEQISMMPPKGKTEKETGLLEYLEEIIGTNRYKRFNA 138
++ AFN AG V F T +P K T +E G+ E + + ++ +
Sbjct: 82 RVNAFNQNRGAGAV----FRT--------IPSKVLTMEELGMGEVFKRV--SDVPRGLVL 127
Query: 139 IIGPNGSGKSNVIDSMLFRFN 159
+ GP GSGKS + +ML N
Sbjct: 128 VTGPTGSGKSTTLAAMLDYLN 148
>pdb|3GZH|A Chain A, Crystal Structure Of Phosphate-Bound Adenylosuccinate
Lyase From E. Coli
Length = 482
Score = 28.5 bits (62), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 37/66 (56%), Gaps = 3/66 (4%)
Query: 247 YTLNGKKVHFKEVAK--VLRDHGVDLLNNRFLILQEPIAKMEVLYG-KYDEERTEKLTRV 303
Y L + K V+K V RDH +D L++ + +L EPI + YG + E+ ++LTR
Sbjct: 378 YALIAYQSTLKGVSKLEVNRDHLLDELDHNWEVLAEPIQTVMRRYGIEKPYEKLKELTRG 437
Query: 304 QLVETD 309
+ V+ +
Sbjct: 438 KRVDAE 443
>pdb|2PTQ|A Chain A, Crystal Structure Of Escherichia Coli Adenylosuccinate
Lyase Mutant H171n With Bound Amp And Fumarate
pdb|2PTQ|B Chain B, Crystal Structure Of Escherichia Coli Adenylosuccinate
Lyase Mutant H171n With Bound Amp And Fumarate
Length = 462
Score = 28.5 bits (62), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 37/66 (56%), Gaps = 3/66 (4%)
Query: 247 YTLNGKKVHFKEVAK--VLRDHGVDLLNNRFLILQEPIAKMEVLYG-KYDEERTEKLTRV 303
Y L + K V+K V RDH +D L++ + +L EPI + YG + E+ ++LTR
Sbjct: 352 YALIAYQSTLKGVSKLEVNRDHLLDELDHNWEVLAEPIQTVMRRYGIEKPYEKLKELTRG 411
Query: 304 QLVETD 309
+ V+ +
Sbjct: 412 KRVDAE 417
>pdb|2PTR|A Chain A, Crystal Structure Of Escherichia Coli Adenylosuccinate
Lyase Mutant H171a With Bound Adenylosuccinate Substrate
pdb|2PTR|B Chain B, Crystal Structure Of Escherichia Coli Adenylosuccinate
Lyase Mutant H171a With Bound Adenylosuccinate Substrate
Length = 462
Score = 28.5 bits (62), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 37/66 (56%), Gaps = 3/66 (4%)
Query: 247 YTLNGKKVHFKEVAK--VLRDHGVDLLNNRFLILQEPIAKMEVLYG-KYDEERTEKLTRV 303
Y L + K V+K V RDH +D L++ + +L EPI + YG + E+ ++LTR
Sbjct: 352 YALIAYQSTLKGVSKLEVNRDHLLDELDHNWEVLAEPIQTVMRRYGIEKPYEKLKELTRG 411
Query: 304 QLVETD 309
+ V+ +
Sbjct: 412 KRVDAE 417
>pdb|3QF4|B Chain B, Crystal Structure Of A Heterodimeric Abc Transporter In
Its Inward- Facing Conformation
Length = 598
Score = 28.1 bits (61), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 30/117 (25%), Positives = 50/117 (42%), Gaps = 15/117 (12%)
Query: 160 AIIGPNGSGKSNVIDSMLFVFGYRASKIRANKLSVLMHKSDQVGGVSRCSVAIHFAQII- 218
A++GP GSGK+ +++ ++ + +I + + + K + R S+ I I
Sbjct: 385 ALVGPTGSGKTTIVNLLMRFYDVDRGQILVDGIDIRKIKRSSL----RSSIGIVLQDTIL 440
Query: 219 ----DKPNEEYEIIPGTDLEIARTAFYDNSSYYTLNGKKVHFKE-VAKVLRDHGVDL 270
K N +Y TD EI A +S ++ H E VL D+G DL
Sbjct: 441 FSTTVKENLKYGNPGATDEEIKEAAKLTHSDHFI-----KHLPEGYETVLTDNGEDL 492
>pdb|1II2|A Chain A, Crystal Structure Of Phosphoenolpyruvate Carboxykinase
(Pepck) From Trypanosoma Cruzi
pdb|1II2|B Chain B, Crystal Structure Of Phosphoenolpyruvate Carboxykinase
(Pepck) From Trypanosoma Cruzi
Length = 524
Score = 28.1 bits (61), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 66 CFADPTGPRLIITKIVAFNFKSYAGYVTLGPFNTGEVEQ 104
C ADP+ P L T VA NFK+ V LG GE+++
Sbjct: 148 CKADPSIPGLTSTTCVALNFKTRE-QVILGTEYAGEMKK 185
>pdb|3P8C|A Chain A, Structure And Control Of The Actin Regulatory Wave Complex
Length = 1253
Score = 28.1 bits (61), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 26/41 (63%), Gaps = 1/41 (2%)
Query: 298 EKLTRVQLVETDLKALEPELRKAVNFLELE-NCVQRKHNEI 337
E+ RV++ E ++ LEPE+ K +NF+ + N ++R E+
Sbjct: 100 EQPNRVEIYEKTVEVLEPEVTKLMNFMYFQRNAIERFCGEV 140
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
0.315 0.134 0.379
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,349,876
Number of Sequences: 62578
Number of extensions: 471276
Number of successful extensions: 1318
Number of sequences better than 100.0: 47
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 34
Number of HSP's that attempted gapping in prelim test: 1270
Number of HSP's gapped (non-prelim): 83
length of query: 388
length of database: 14,973,337
effective HSP length: 101
effective length of query: 287
effective length of database: 8,652,959
effective search space: 2483399233
effective search space used: 2483399233
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: 52 (24.6 bits)