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= psy5910
(225 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3HTE|A Chain A, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|B Chain B, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|C Chain C, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|D Chain D, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|E Chain E, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|F Chain F, Crystal Structure Of Nucleotide-Free Hexameric Clpx
Length = 363
Score = 227 bits (579), Expect = 3e-60, Method: Compositional matrix adjust.
Identities = 116/231 (50%), Positives = 163/231 (70%), Gaps = 12/231 (5%)
Query: 3 LDRHIIGQHETKKIVSVGVYNHYKRLFLLKSKN-IYLEKSNILLVGPTGCGKTLMVKTLA 61
LD ++IGQ + KK+++V VYNHYKRL + N + L KSNILL+GPTG GKTL+ +TLA
Sbjct: 13 LDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLA 72
Query: 62 KIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVELAEQSIIYIDEIDKISKKT 121
++++VP + DAT+ TEAGYVG+DVE+IIQKLL +CDYDV+ A++ I+YID+IDKIS+K+
Sbjct: 73 RLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQKAQRGIVYIDQIDKISRKS 132
Query: 122 DVVS-GKDVSGEGVQQSLLKLIEGVNLSITSLAEKKNPSQNPQVFNIDTTNILFIAGGAF 180
D S +DVSGEGVQQ+LLKLIEG ++ +K+P Q + +DT+ ILFI GGAF
Sbjct: 133 DNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQ--EFLQVDTSKILFICGGAF 190
Query: 181 SGIENFIINRINQET--NFLEKLNNNYN------LICETNTEDLINFGIIP 223
+G++ I +R+ + F + + L+ + EDLI FG+IP
Sbjct: 191 AGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKFGLIP 241
>pdb|3HWS|A Chain A, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|B Chain B, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|C Chain C, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|D Chain D, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|E Chain E, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|F Chain F, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
Length = 363
Score = 227 bits (579), Expect = 4e-60, Method: Compositional matrix adjust.
Identities = 116/231 (50%), Positives = 163/231 (70%), Gaps = 12/231 (5%)
Query: 3 LDRHIIGQHETKKIVSVGVYNHYKRLFLLKSKN-IYLEKSNILLVGPTGCGKTLMVKTLA 61
LD ++IGQ + KK+++V VYNHYKRL + N + L KSNILL+GPTG GKTL+ +TLA
Sbjct: 13 LDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLA 72
Query: 62 KIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVELAEQSIIYIDEIDKISKKT 121
++++VP + DAT+ TEAGYVG+DVE+IIQKLL +CDYDV+ A++ I+YID+IDKIS+K+
Sbjct: 73 RLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQKAQRGIVYIDQIDKISRKS 132
Query: 122 DVVS-GKDVSGEGVQQSLLKLIEGVNLSITSLAEKKNPSQNPQVFNIDTTNILFIAGGAF 180
D S +DVSGEGVQQ+LLKLIEG ++ +K+P Q + +DT+ ILFI GGAF
Sbjct: 133 DNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQ--EFLQVDTSKILFICGGAF 190
Query: 181 SGIENFIINRINQET--NFLEKLNNNYN------LICETNTEDLINFGIIP 223
+G++ I +R+ + F + + L+ + EDLI FG+IP
Sbjct: 191 AGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKFGLIP 241
>pdb|1UM8|A Chain A, Crystal Structure Of Helicobacter Pylori Clpx
Length = 376
Score = 196 bits (498), Expect = 8e-51, Method: Compositional matrix adjust.
Identities = 114/246 (46%), Positives = 159/246 (64%), Gaps = 27/246 (10%)
Query: 3 LDRHIIGQHETKKIVSVGVYNHYKRLFL---LKSKN-------------IYLEKSNILLV 46
LD ++IGQ + KK+ SV VYNHYKRL LK ++ + L KSNILL+
Sbjct: 19 LDNYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLI 78
Query: 47 GPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVELAEQ 106
GPTG GKTLM +TLAK +++PI + DATS TEAGYVG+DVE+I+ +LL D++V+ A++
Sbjct: 79 GPTGSGKTLMAQTLAKHLDIPIAISDATSLTEAGYVGEDVENILTRLLQASDWNVQKAQK 138
Query: 107 SIIYIDEIDKISKKTDVVS-GKDVSGEGVQQSLLKLIEGVNLSITSLAEKKNPSQNPQVF 165
I++IDEIDKIS+ ++ S +DVSGEGVQQ+LLK++EG ++I +K+P N
Sbjct: 139 GIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEGSLVNIPPKGGRKHPEGN--FI 196
Query: 166 NIDTTNILFIAGGAFSGIENFIINRINQETNFL----EKLNNNYN--LICETNTEDLINF 219
IDT++ILFI GAF G+ I R Q N L EK++ ++ T DL+ +
Sbjct: 197 QIDTSDILFICAGAFDGLAEIIKKRTTQ--NVLGFTQEKMSKKEQEAILHLVQTHDLVTY 254
Query: 220 GIIPVL 225
G+IP L
Sbjct: 255 GLIPEL 260
>pdb|1OFH|A Chain A, Asymmetric Complex Between Hslv And I-domain Deleted Hslu
(h. Influenzae)
pdb|1OFH|B Chain B, Asymmetric Complex Between Hslv And I-domain Deleted Hslu
(h. Influenzae)
pdb|1OFH|C Chain C, Asymmetric Complex Between Hslv And I-domain Deleted Hslu
(h. Influenzae)
pdb|1OFI|A Chain A, Asymmetric Complex Between Hslv And I-Domain Deleted Hslu
(H. Influenzae)
pdb|1OFI|B Chain B, Asymmetric Complex Between Hslv And I-Domain Deleted Hslu
(H. Influenzae)
pdb|1OFI|C Chain C, Asymmetric Complex Between Hslv And I-Domain Deleted Hslu
(H. Influenzae)
Length = 310
Score = 143 bits (361), Expect = 6e-35, Method: Compositional matrix adjust.
Identities = 80/180 (44%), Positives = 111/180 (61%), Gaps = 15/180 (8%)
Query: 2 ELDRHIIGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLA 61
ELD+HIIGQ + K+ V++ + N ++R+ L + + NIL++GPTG GKT + + LA
Sbjct: 12 ELDQHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLA 71
Query: 62 KIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVELAEQS-IIYIDEIDKISKK 120
K+ N P I V+AT FTE GYVG +V+SII+ L ++ EQ+ I++IDEIDKI KK
Sbjct: 72 KLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKK 131
Query: 121 TDVVSGKDVSGEGVQQSLLKLIEGVNLSITSLAEKKNPSQNPQVFNIDTTNILFIAGGAF 180
+ SG DVS EGVQ+ LL L+EG +S + T +ILFIA GAF
Sbjct: 132 GE-YSGADVSREGVQRDLLPLVEGSTVSTKH-------------GMVKTDHILFIASGAF 177
>pdb|1G3I|A Chain A, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|B Chain B, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|C Chain C, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|D Chain D, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|E Chain E, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|F Chain F, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|S Chain S, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|T Chain T, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|U Chain U, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|V Chain V, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|W Chain W, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|X Chain X, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G41|A Chain A, Crystal Structure Of Hslu Haemophilus Influenzae
pdb|1KYI|A Chain A, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|B Chain B, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|C Chain C, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|D Chain D, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|E Chain E, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|F Chain F, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|S Chain S, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|T Chain T, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|U Chain U, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|V Chain V, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|W Chain W, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|X Chain X, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
Length = 444
Score = 98.2 bits (243), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 44/92 (47%), Positives = 64/92 (69%)
Query: 2 ELDRHIIGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLA 61
ELD+HIIGQ + K+ V++ + N ++R+ L + + NIL++GPTG GKT + + LA
Sbjct: 12 ELDQHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLA 71
Query: 62 KIINVPIIVVDATSFTEAGYVGDDVESIIQKL 93
K+ N P I V+AT FTE GYVG +V+SII+ L
Sbjct: 72 KLANAPFIKVEATKFTEVGYVGKEVDSIIRDL 103
Score = 54.3 bits (129), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 34/73 (46%), Positives = 42/73 (57%), Gaps = 14/73 (19%)
Query: 108 IIYIDEIDKISKKTDVVSGKDVSGEGVQQSLLKLIEGVNLSITSLAEKKNPSQNPQVFNI 167
I++IDEIDKI KK + SG DVS EGVQ+ LL L+EG +S +
Sbjct: 253 IVFIDEIDKICKKGEY-SGADVSREGVQRDLLPLVEGSTVSTKH-------------GMV 298
Query: 168 DTTNILFIAGGAF 180
T +ILFIA GAF
Sbjct: 299 KTDHILFIASGAF 311
>pdb|1G4A|E Chain E, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4A|F Chain F, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|E Chain E, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|F Chain F, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|K Chain K, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|L Chain L, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1YYF|A Chain A, Correction Of X-Ray Intensities From An Hslv-Hslu Co-
Crystal Containing Lattice Translocation Defects
pdb|1YYF|B Chain B, Correction Of X-Ray Intensities From An Hslv-Hslu Co-
Crystal Containing Lattice Translocation Defects
Length = 443
Score = 96.3 bits (238), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 44/92 (47%), Positives = 63/92 (68%)
Query: 2 ELDRHIIGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLA 61
ELD+HIIGQ K+ V++ + N ++R+ L + + NIL++GPTG GKT + + LA
Sbjct: 12 ELDKHIIGQDNAKRSVAIALRNRWRRMQLNEELRHEVTPKNILMIGPTGVGKTEIARRLA 71
Query: 62 KIINVPIIVVDATSFTEAGYVGDDVESIIQKL 93
K+ N P I V+AT FTE GYVG +V+SII+ L
Sbjct: 72 KLANAPFIKVEATKFTEVGYVGKEVDSIIRDL 103
Score = 54.3 bits (129), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 33/76 (43%), Positives = 43/76 (56%), Gaps = 14/76 (18%)
Query: 105 EQSIIYIDEIDKISKKTDVVSGKDVSGEGVQQSLLKLIEGVNLSITSLAEKKNPSQNPQV 164
+ I++IDEIDKI K+ + SG DVS EGVQ+ LL L+EG +S
Sbjct: 249 QHGIVFIDEIDKICKRGES-SGPDVSREGVQRDLLPLVEGCTVSTKH------------- 294
Query: 165 FNIDTTNILFIAGGAF 180
+ T +ILFIA GAF
Sbjct: 295 GMVKTDHILFIASGAF 310
>pdb|1DO2|A Chain A, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO2|B Chain B, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO2|C Chain C, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO2|D Chain D, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO0|A Chain A, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|B Chain B, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|C Chain C, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|D Chain D, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|E Chain E, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|F Chain F, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
Length = 442
Score = 96.3 bits (238), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 44/92 (47%), Positives = 63/92 (68%)
Query: 2 ELDRHIIGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLA 61
ELD+HIIGQ K+ V++ + N ++R+ L + + NIL++GPTG GKT + + LA
Sbjct: 11 ELDKHIIGQDNAKRSVAIALRNRWRRMQLNEELRHEVTPKNILMIGPTGVGKTEIARRLA 70
Query: 62 KIINVPIIVVDATSFTEAGYVGDDVESIIQKL 93
K+ N P I V+AT FTE GYVG +V+SII+ L
Sbjct: 71 KLANAPFIKVEATKFTEVGYVGKEVDSIIRDL 102
Score = 54.3 bits (129), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 33/76 (43%), Positives = 43/76 (56%), Gaps = 14/76 (18%)
Query: 105 EQSIIYIDEIDKISKKTDVVSGKDVSGEGVQQSLLKLIEGVNLSITSLAEKKNPSQNPQV 164
+ I++IDEIDKI K+ + SG DVS EGVQ+ LL L+EG +S
Sbjct: 248 QHGIVFIDEIDKICKRGES-SGPDVSREGVQRDLLPLVEGCTVSTKH------------- 293
Query: 165 FNIDTTNILFIAGGAF 180
+ T +ILFIA GAF
Sbjct: 294 GMVKTDHILFIASGAF 309
>pdb|1E94|E Chain E, Hslv-Hslu From E.Coli
pdb|1E94|F Chain F, Hslv-Hslu From E.Coli
pdb|1HT2|E Chain E, Nucleotide-dependent Conformational Changes In A
Protease-associated Atpase Hslu
pdb|1HT2|F Chain F, Nucleotide-dependent Conformational Changes In A
Protease-associated Atpase Hslu
pdb|1HT2|G Chain G, Nucleotide-dependent Conformational Changes In A
Protease-associated Atpase Hslu
pdb|1HT2|H Chain H, Nucleotide-dependent Conformational Changes In A
Protease-associated Atpase Hslu
pdb|1HT1|E Chain E, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HT1|F Chain F, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HT1|G Chain G, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HT1|I Chain I, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HQY|E Chain E, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HQY|F Chain F, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
Length = 449
Score = 96.3 bits (238), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 44/92 (47%), Positives = 63/92 (68%)
Query: 2 ELDRHIIGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLA 61
ELD+HIIGQ K+ V++ + N ++R+ L + + NIL++GPTG GKT + + LA
Sbjct: 18 ELDKHIIGQDNAKRSVAIALRNRWRRMQLNEELRHEVTPKNILMIGPTGVGKTEIARRLA 77
Query: 62 KIINVPIIVVDATSFTEAGYVGDDVESIIQKL 93
K+ N P I V+AT FTE GYVG +V+SII+ L
Sbjct: 78 KLANAPFIKVEATKFTEVGYVGKEVDSIIRDL 109
Score = 54.3 bits (129), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 33/76 (43%), Positives = 43/76 (56%), Gaps = 14/76 (18%)
Query: 105 EQSIIYIDEIDKISKKTDVVSGKDVSGEGVQQSLLKLIEGVNLSITSLAEKKNPSQNPQV 164
+ I++IDEIDKI K+ + SG DVS EGVQ+ LL L+EG +S
Sbjct: 255 QHGIVFIDEIDKICKRGES-SGPDVSREGVQRDLLPLVEGCTVSTKH------------- 300
Query: 165 FNIDTTNILFIAGGAF 180
+ T +ILFIA GAF
Sbjct: 301 GMVKTDHILFIASGAF 316
>pdb|1IM2|A Chain A, Hslu, Haemophilus Influenzae, Selenomethionine Variant
Length = 444
Score = 95.5 bits (236), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 44/92 (47%), Positives = 62/92 (67%)
Query: 2 ELDRHIIGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLA 61
ELD+HIIGQ + K+ V++ + N ++R L + + NIL +GPTG GKT + + LA
Sbjct: 12 ELDQHIIGQADAKRAVAIALRNRWRRXQLQEPLRHEVTPKNILXIGPTGVGKTEIARRLA 71
Query: 62 KIINVPIIVVDATSFTEAGYVGDDVESIIQKL 93
K+ N P I V+AT FTE GYVG +V+SII+ L
Sbjct: 72 KLANAPFIKVEATKFTEVGYVGKEVDSIIRDL 103
Score = 54.7 bits (130), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 34/73 (46%), Positives = 42/73 (57%), Gaps = 14/73 (19%)
Query: 108 IIYIDEIDKISKKTDVVSGKDVSGEGVQQSLLKLIEGVNLSITSLAEKKNPSQNPQVFNI 167
I++IDEIDKI KK + SG DVS EGVQ+ LL L+EG +S +
Sbjct: 253 IVFIDEIDKICKKGEY-SGADVSREGVQRDLLPLVEGSTVSTKH-------------GXV 298
Query: 168 DTTNILFIAGGAF 180
T +ILFIA GAF
Sbjct: 299 KTDHILFIASGAF 311
>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp
Length = 262
Score = 54.7 bits (130), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 38/119 (31%), Positives = 54/119 (45%), Gaps = 18/119 (15%)
Query: 7 IIGQHETKKIVSVGVYNHYKRLFLLKSKNIYLE-----KSNILLVGPTGCGKTLMVKTLA 61
+ G HE K + V + Y LKS +L+ LL+GP GCGKTL+ K +A
Sbjct: 8 VAGMHEAK--LEVREFVDY-----LKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVA 60
Query: 62 KIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVELAEQSIIYIDEIDKISKK 120
VP + + F E +G + ++ L E I+YIDEID + KK
Sbjct: 61 TEAQVPFLAMAGAEFVE--VIGGLGAARVRSLFKEARARA----PCIVYIDEIDAVGKK 113
>pdb|2R62|A Chain A, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh
pdb|2R62|B Chain B, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh
pdb|2R65|A Chain A, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
pdb|2R65|B Chain B, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
pdb|2R65|C Chain C, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
pdb|2R65|D Chain D, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
pdb|2R65|E Chain E, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
Length = 268
Score = 52.8 bits (125), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 38/102 (37%), Positives = 52/102 (50%), Gaps = 9/102 (8%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVE 102
+LLVGP G GKTL+ K +A +VP + +SF E +VG S ++ L
Sbjct: 47 VLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIEM-FVGLGA-SRVRDLFETAKKQA- 103
Query: 103 LAEQSIIYIDEIDKISKKT---DVVSGKDVSGEGVQQSLLKL 141
SII+IDEID I K VVSG D + + Q L ++
Sbjct: 104 ---PSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEM 142
>pdb|3H4M|A Chain A, Aaa Atpase Domain Of The Proteasome- Activating
Nucleotidase
pdb|3H4M|B Chain B, Aaa Atpase Domain Of The Proteasome- Activating
Nucleotidase
pdb|3H4M|C Chain C, Aaa Atpase Domain Of The Proteasome- Activating
Nucleotidase
Length = 285
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 38/105 (36%), Positives = 56/105 (53%), Gaps = 14/105 (13%)
Query: 41 SNILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESI--IQKLLHECD 98
ILL GP G GKTL+ K +A N I V + + ++G+ + I KL E
Sbjct: 52 KGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVKK-FIGEGASLVKDIFKLAKE-- 108
Query: 99 YDVELAEQSIIYIDEIDKI-SKKTDVVSGKDVSGEGVQQSLLKLI 142
SII+IDEID I +K+TD ++G D VQ++L++L+
Sbjct: 109 -----KAPSIIFIDEIDAIAAKRTDALTGGDRE---VQRTLMQLL 145
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 47.4 bits (111), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 42/79 (53%), Gaps = 6/79 (7%)
Query: 42 NILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDV 101
+L+VGP G GKTL+ K +A VP + + F E +VG S ++ + +
Sbjct: 47 GVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEM-FVGVGA-SRVRDMFEQA---- 100
Query: 102 ELAEQSIIYIDEIDKISKK 120
+ A II+IDEID + ++
Sbjct: 101 KKAAPCIIFIDEIDAVGRQ 119
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 47.0 bits (110), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 34/109 (31%), Positives = 55/109 (50%), Gaps = 11/109 (10%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESI--IQKLLHECDYD 100
+LL GP G GKT++VK +A I V+ + F Y+G+ + + +L E
Sbjct: 209 VLLYGPPGTGKTMLVKAVANSTKAAFIRVNGSEFVHK-YLGEGPRMVRDVFRLAREN--- 264
Query: 101 VELAEQSIIYIDEIDKIS-KKTDVVSGKDVSGEGVQQSLLKLIEGVNLS 148
SII+IDE+D I+ K+ D +G D + + LL ++G + S
Sbjct: 265 ----APSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQS 309
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 32/102 (31%), Positives = 51/102 (50%), Gaps = 8/102 (7%)
Query: 42 NILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDV 101
+LLVGP G GKT + + +A VP I + F E +VG V + + L E
Sbjct: 75 GVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEM-FVG--VGAARVRDLFET---A 128
Query: 102 ELAEQSIIYIDEIDKISKK--TDVVSGKDVSGEGVQQSLLKL 141
+ I++IDEID + +K + V G D + + Q L+++
Sbjct: 129 KRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEM 170
>pdb|2CE7|A Chain A, Edta Treated
pdb|2CE7|B Chain B, Edta Treated
pdb|2CE7|C Chain C, Edta Treated
pdb|2CE7|D Chain D, Edta Treated
pdb|2CE7|E Chain E, Edta Treated
pdb|2CE7|F Chain F, Edta Treated
pdb|2CEA|A Chain A, Cell Division Protein Ftsh
pdb|2CEA|B Chain B, Cell Division Protein Ftsh
pdb|2CEA|C Chain C, Cell Division Protein Ftsh
pdb|2CEA|D Chain D, Cell Division Protein Ftsh
pdb|2CEA|E Chain E, Cell Division Protein Ftsh
pdb|2CEA|F Chain F, Cell Division Protein Ftsh
Length = 476
Score = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 40/78 (51%), Gaps = 6/78 (7%)
Query: 42 NILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDV 101
ILLVGP G GKTL+ + +A NVP + + F E +VG + ++ L +
Sbjct: 51 GILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVEL-FVGVGA-ARVRDLFAQAKAHA 108
Query: 102 ELAEQSIIYIDEIDKISK 119
I++IDEID + +
Sbjct: 109 ----PCIVFIDEIDAVGR 122
>pdb|4EIW|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|B Chain B, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|C Chain C, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|D Chain D, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|E Chain E, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|F Chain F, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
Length = 508
Score = 44.3 bits (103), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 32/102 (31%), Positives = 51/102 (50%), Gaps = 8/102 (7%)
Query: 42 NILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDV 101
+LLVGP G GKT + + +A VP I + F E +VG V + + L E
Sbjct: 75 GVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEM-FVG--VGAARVRDLFET---A 128
Query: 102 ELAEQSIIYIDEIDKISKK--TDVVSGKDVSGEGVQQSLLKL 141
+ I++IDEID + +K + V G D + + Q L+++
Sbjct: 129 KRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEM 170
>pdb|1IXZ|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
pdb|1IY0|A Chain A, Crystal Structure Of The Ftsh Atpase Domain With Amp-Pnp
From Thermus Thermophilus
pdb|1IY1|A Chain A, Crystal Structure Of The Ftsh Atpase Domain With Adp From
Thermus Thermophilus
Length = 254
Score = 43.9 bits (102), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 32/102 (31%), Positives = 51/102 (50%), Gaps = 8/102 (7%)
Query: 42 NILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDV 101
+LLVGP G GKT + + +A VP I + F E +VG V + + L E
Sbjct: 51 GVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEM-FVG--VGAARVRDLFET---A 104
Query: 102 ELAEQSIIYIDEIDKISKK--TDVVSGKDVSGEGVQQSLLKL 141
+ I++IDEID + +K + V G D + + Q L+++
Sbjct: 105 KRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEM 146
>pdb|2DHR|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|B Chain B, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|C Chain C, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|D Chain D, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|E Chain E, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|F Chain F, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
Length = 499
Score = 43.9 bits (102), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 32/102 (31%), Positives = 51/102 (50%), Gaps = 8/102 (7%)
Query: 42 NILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDV 101
+LLVGP G GKT + + +A VP I + F E +VG V + + L E
Sbjct: 66 GVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEM-FVG--VGAARVRDLFET---A 119
Query: 102 ELAEQSIIYIDEIDKISKK--TDVVSGKDVSGEGVQQSLLKL 141
+ I++IDEID + +K + V G D + + Q L+++
Sbjct: 120 KRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEM 161
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 43.9 bits (102), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 29/100 (29%), Positives = 50/100 (50%), Gaps = 8/100 (8%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVE 102
+LL GP G GKTL+ K +A I I A+ + Y+G+ I + + ++
Sbjct: 218 VLLYGPPGTGKTLLAKAVAATIGANFIFSPASGIVDK-YIGESARIIREMFAYAKEH--- 273
Query: 103 LAEQSIIYIDEIDKISKKTDVVSGKDVSGEGVQQSLLKLI 142
E II++DE+D I + G E +Q++L++L+
Sbjct: 274 --EPCIIFMDEVDAIGGRR-FSEGTSADRE-IQRTLMELL 309
>pdb|3B9P|A Chain A, Spastin
Length = 297
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 41/73 (56%), Gaps = 6/73 (8%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVE 102
+LL GP G GKTL+ + +A + + + A S T + YVGD E +++ L +
Sbjct: 57 LLLFGPPGNGKTLLARAVATECSATFLNISAASLT-SKYVGDG-EKLVRALFAVARH--- 111
Query: 103 LAEQSIIYIDEID 115
+ SII+IDE+D
Sbjct: 112 -MQPSIIFIDEVD 123
>pdb|3KDS|E Chain E, Apo-ftsh Crystal Structure
pdb|3KDS|F Chain F, Apo-ftsh Crystal Structure
pdb|3KDS|G Chain G, Apo-ftsh Crystal Structure
Length = 465
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 39/78 (50%), Gaps = 6/78 (7%)
Query: 42 NILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDV 101
ILLVGP G G TL+ + +A NVP + + F E +VG + ++ L +
Sbjct: 51 GILLVGPPGTGATLLARAVAGEANVPFFHISGSDFVEL-FVGVGA-ARVRDLFAQAKAHA 108
Query: 102 ELAEQSIIYIDEIDKISK 119
I++IDEID + +
Sbjct: 109 ----PCIVFIDEIDAVGR 122
>pdb|3D8B|A Chain A, Crystal Structure Of Human Fidgetin-Like Protein 1 In
Complex With Adp
pdb|3D8B|B Chain B, Crystal Structure Of Human Fidgetin-Like Protein 1 In
Complex With Adp
Length = 357
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 34/109 (31%), Positives = 57/109 (52%), Gaps = 12/109 (11%)
Query: 42 NILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDV 101
ILL GP G GKTL+ K +A + A+S T + +VG+ E +++ L + V
Sbjct: 119 GILLFGPPGTGKTLIGKCIASQSGATFFSISASSLT-SKWVGEG-EKMVRAL-----FAV 171
Query: 102 ELAEQ-SIIYIDEIDK-ISKKTDVVSGKDVSGEGVQQSLLKLIEGVNLS 148
+Q ++I+IDEID +S++ D G+ S ++ L ++G S
Sbjct: 172 ARCQQPAVIFIDEIDSLLSQRGD---GEHESSRRIKTEFLVQLDGATTS 217
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 27/75 (36%), Positives = 42/75 (56%), Gaps = 6/75 (8%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVE 102
+LL GP G GKT++ K +A N + A S T + YVG+ E +++ L E
Sbjct: 151 LLLFGPPGNGKTMLAKAVAAESNATFFNISAASLT-SKYVGEG-EKLVRALFAVAR---E 205
Query: 103 LAEQSIIYIDEIDKI 117
L + SII+ID++D +
Sbjct: 206 L-QPSIIFIDQVDSL 219
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 40.4 bits (93), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 49/104 (47%), Gaps = 8/104 (7%)
Query: 39 EKSNILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECD 98
+ ++L GP G GKTL+ + +A + I V + Y+G+ +++ E
Sbjct: 181 QPKGVILYGPPGTGKTLLARAVAHHTDCKFIRVSGAELVQK-YIGEG-----SRMVRELF 234
Query: 99 YDVELAEQSIIYIDEIDKISKKTDVVSGKDVSGEGVQQSLLKLI 142
SII++DEID I + V G VQ+++L+L+
Sbjct: 235 VMAREHAPSIIFMDEIDSIG--STRVEGSGGGDSEVQRTMLELL 276
>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
Length = 312
Score = 40.4 bits (93), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 29/101 (28%), Positives = 49/101 (48%), Gaps = 22/101 (21%)
Query: 31 LKSK-NIYLEKS--------NILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGY 81
LK K +YLE + ++LL GP G GKT + +A + V + V + + G
Sbjct: 20 LKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKPG- 78
Query: 82 VGDDVESIIQKLLHECDYDVELAEQSIIYIDEIDKISKKTD 122
D+ +I+ L E D I++IDEI ++S++ +
Sbjct: 79 ---DLAAILANSLEEGD---------ILFIDEIHRLSRQAE 107
>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii
Length = 318
Score = 40.4 bits (93), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 29/101 (28%), Positives = 49/101 (48%), Gaps = 22/101 (21%)
Query: 31 LKSK-NIYLEKS--------NILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGY 81
LK K +YLE + ++LL GP G GKT + +A + V + V + + G
Sbjct: 20 LKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKPG- 78
Query: 82 VGDDVESIIQKLLHECDYDVELAEQSIIYIDEIDKISKKTD 122
D+ +I+ L E D I++IDEI ++S++ +
Sbjct: 79 ---DLAAILANSLEEGD---------ILFIDEIHRLSRQAE 107
>pdb|1HQC|A Chain A, Structure Of Ruvb From Thermus Thermophilus Hb8
pdb|1HQC|B Chain B, Structure Of Ruvb From Thermus Thermophilus Hb8
Length = 324
Score = 40.4 bits (93), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 29/101 (28%), Positives = 49/101 (48%), Gaps = 22/101 (21%)
Query: 31 LKSK-NIYLEKS--------NILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGY 81
LK K +YLE + ++LL GP G GKT + +A + V + V + + G
Sbjct: 20 LKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKPG- 78
Query: 82 VGDDVESIIQKLLHECDYDVELAEQSIIYIDEIDKISKKTD 122
D+ +I+ L E D I++IDEI ++S++ +
Sbjct: 79 ---DLAAILANSLEEGD---------ILFIDEIHRLSRQAE 107
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 40.0 bits (92), Expect = 0.001, Method: Composition-based stats.
Identities = 31/103 (30%), Positives = 52/103 (50%), Gaps = 8/103 (7%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVE 102
ILL GP G GKTL+ + +A +++ + + ES ++K E + +
Sbjct: 241 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK--LAGESESNLRKAFEEAEKNAP 298
Query: 103 LAEQSIIYIDEIDKISKKTDVVSGKDVSGEGVQQSLLKLIEGV 145
+II+IDE+D I+ K + G +V V Q LL L++G+
Sbjct: 299 ----AIIFIDELDAIAPKREKTHG-EVERRIVSQ-LLTLMDGL 335
Score = 33.5 bits (75), Expect = 0.090, Method: Composition-based stats.
Identities = 19/77 (24%), Positives = 36/77 (46%), Gaps = 6/77 (7%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVE 102
+L GP GCGKTL+ K +A I + + + E+ ++++ +
Sbjct: 514 VLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWF--GESEANVREIFDK----AR 567
Query: 103 LAEQSIIYIDEIDKISK 119
A +++ DE+D I+K
Sbjct: 568 QAAPCVLFFDELDSIAK 584
>pdb|3CF1|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX
pdb|3CF1|B Chain B, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX
pdb|3CF1|C Chain C, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX
pdb|3CF2|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF2|B Chain B, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF2|C Chain C, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF2|D Chain D, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF3|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADP
pdb|3CF3|B Chain B, Structure Of P97VCP IN COMPLEX WITH ADP
pdb|3CF3|C Chain C, Structure Of P97VCP IN COMPLEX WITH ADP
Length = 806
Score = 40.0 bits (92), Expect = 0.001, Method: Composition-based stats.
Identities = 31/103 (30%), Positives = 52/103 (50%), Gaps = 8/103 (7%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVE 102
ILL GP G GKTL+ + +A +++ + + ES ++K E + +
Sbjct: 241 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK--LAGESESNLRKAFEEAEKNAP 298
Query: 103 LAEQSIIYIDEIDKISKKTDVVSGKDVSGEGVQQSLLKLIEGV 145
+II+IDE+D I+ K + G +V V Q LL L++G+
Sbjct: 299 ----AIIFIDELDAIAPKREKTHG-EVERRIVSQ-LLTLMDGL 335
Score = 33.5 bits (75), Expect = 0.094, Method: Composition-based stats.
Identities = 19/77 (24%), Positives = 36/77 (46%), Gaps = 6/77 (7%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVE 102
+L GP GCGKTL+ K +A I + + + E+ ++++ +
Sbjct: 514 VLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWF--GESEANVREIFDK----AR 567
Query: 103 LAEQSIIYIDEIDKISK 119
A +++ DE+D I+K
Sbjct: 568 QAAPCVLFFDELDSIAK 584
>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C-
Terminal Aaa-Atpase Domain
Length = 274
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 43/90 (47%), Gaps = 7/90 (7%)
Query: 41 SNILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYD 100
+ +LL GP GCGKTL+ K +A + I V YVG+ ++ Q
Sbjct: 45 AGVLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNM-YVGESERAVRQVFQR----- 98
Query: 101 VELAEQSIIYIDEIDKI-SKKTDVVSGKDV 129
+ + +I+ DE+D + +++D +G V
Sbjct: 99 AKNSAPCVIFFDEVDALCPRRSDRETGASV 128
>pdb|3HU3|A Chain A, Structure Of P97 N-D1 R155h Mutant In Complex With Atpgs
pdb|3HU3|B Chain B, Structure Of P97 N-D1 R155h Mutant In Complex With Atpgs
Length = 489
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 35/110 (31%), Positives = 55/110 (50%), Gaps = 22/110 (20%)
Query: 43 ILLVGPTGCGKTLMVKTLAK-------IINVPIIVVDATSFTEAGYVGDDVESIIQKLLH 95
ILL GP G GKTL+ + +A +IN P I+ + + ES ++K
Sbjct: 241 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM---------SKLAGESESNLRKAFE 291
Query: 96 ECDYDVELAEQSIIYIDEIDKISKKTDVVSGKDVSGEGVQQSLLKLIEGV 145
E + + +II+IDE+D I+ K + G +V V Q LL L++G+
Sbjct: 292 EAEKNA----PAIIFIDELDAIAPKREKTHG-EVERRIVSQ-LLTLMDGL 335
>pdb|3HU2|A Chain A, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|B Chain B, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|C Chain C, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|D Chain D, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|E Chain E, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|F Chain F, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
Length = 489
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 35/110 (31%), Positives = 55/110 (50%), Gaps = 22/110 (20%)
Query: 43 ILLVGPTGCGKTLMVKTLAK-------IINVPIIVVDATSFTEAGYVGDDVESIIQKLLH 95
ILL GP G GKTL+ + +A +IN P I+ + + ES ++K
Sbjct: 241 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM---------SKLAGESESNLRKAFE 291
Query: 96 ECDYDVELAEQSIIYIDEIDKISKKTDVVSGKDVSGEGVQQSLLKLIEGV 145
E + + +II+IDE+D I+ K + G +V V Q LL L++G+
Sbjct: 292 EAEKNA----PAIIFIDELDAIAPKREKTHG-EVERRIVSQ-LLTLMDGL 335
>pdb|3HU1|A Chain A, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|B Chain B, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|C Chain C, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|D Chain D, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|E Chain E, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|F Chain F, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
Length = 489
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 35/110 (31%), Positives = 55/110 (50%), Gaps = 22/110 (20%)
Query: 43 ILLVGPTGCGKTLMVKTLAK-------IINVPIIVVDATSFTEAGYVGDDVESIIQKLLH 95
ILL GP G GKTL+ + +A +IN P I+ + + ES ++K
Sbjct: 241 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM---------SKLAGESESNLRKAFE 291
Query: 96 ECDYDVELAEQSIIYIDEIDKISKKTDVVSGKDVSGEGVQQSLLKLIEGV 145
E + + +II+IDE+D I+ K + G +V V Q LL L++G+
Sbjct: 292 EAEKNA----PAIIFIDELDAIAPKREKTHG-EVERRIVSQ-LLTLMDGL 335
>pdb|1E32|A Chain A, Structure Of The N-Terminal Domain And The D1 Aaa Domain
Of Membrane Fusion Atpase P97
pdb|1S3S|A Chain A, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|B Chain B, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|C Chain C, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|D Chain D, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|E Chain E, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|F Chain F, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
Length = 458
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 31/103 (30%), Positives = 52/103 (50%), Gaps = 8/103 (7%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVE 102
ILL GP G GKTL+ + +A +++ + + ES ++K E + +
Sbjct: 241 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM--SKLAGESESNLRKAFEEAEKNA- 297
Query: 103 LAEQSIIYIDEIDKISKKTDVVSGKDVSGEGVQQSLLKLIEGV 145
+II+IDE+D I+ K + G +V V Q LL L++G+
Sbjct: 298 ---PAIIFIDELDAIAPKREKTHG-EVERRIVSQ-LLTLMDGL 335
>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 29/100 (29%), Positives = 50/100 (50%), Gaps = 10/100 (10%)
Query: 44 LLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVEL 103
L+ GP G GKTL+ + A N + + A + Y+G+ KL+ + +
Sbjct: 219 LMYGPPGTGKTLLARACAAQTNATFLKLAAPQLVQM-YIGEGA-----KLVRDAFALAKE 272
Query: 104 AEQSIIYIDEIDKI-SKKTDVVSGKDVSGEGVQQSLLKLI 142
+II+IDE+D I +K+ D D VQ+++L+L+
Sbjct: 273 KAPTIIFIDELDAIGTKRFDSEKSGDRE---VQRTMLELL 309
>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 467
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 31/102 (30%), Positives = 49/102 (48%), Gaps = 10/102 (9%)
Query: 42 NILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDV 101
ILL GP G GKTL + +A + I V + + YVG+ +++ E
Sbjct: 245 GILLYGPPGTGKTLCARAVANRTDATFIRVIGSELVQK-YVGEGA-----RMVRELFEMA 298
Query: 102 ELAEQSIIYIDEIDKI-SKKTDVVSGKDVSGEGVQQSLLKLI 142
+ II+ DEID + + D +G D VQ+++L+LI
Sbjct: 299 RTKKACIIFFDEIDAVGGARFDDGAGGDNE---VQRTMLELI 337
>pdb|3VAA|A Chain A, 1.7 Angstrom Resolution Crystal Structure Of Shikimate
Kinase From Bacteroides Thetaiotaomicron
pdb|3VAA|B Chain B, 1.7 Angstrom Resolution Crystal Structure Of Shikimate
Kinase From Bacteroides Thetaiotaomicron
pdb|3VAA|C Chain C, 1.7 Angstrom Resolution Crystal Structure Of Shikimate
Kinase From Bacteroides Thetaiotaomicron
Length = 199
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 37/80 (46%), Gaps = 16/80 (20%)
Query: 31 LKSKNIYLEKS---NILLVGPTGCGKTLMVKTLAKIINVPIIVVD-----------ATSF 76
L ++N+Y + + I L G G GKT + K A+ +NVP I +D F
Sbjct: 13 LGTENLYFQSNAMVRIFLTGYMGAGKTTLGKAFARKLNVPFIDLDWYIEERFHKTVGELF 72
Query: 77 TEAGYVGDDVESIIQKLLHE 96
TE G G + + +LHE
Sbjct: 73 TERGEAG--FRELERNMLHE 90
>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
Length = 331
Score = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 42/78 (53%), Gaps = 6/78 (7%)
Query: 41 SNILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYD 100
S ILL GP G GK+ + K +A N V ++ + ++G+ E ++++L +
Sbjct: 61 SGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLV-SKWMGES-EKLVKQLFAMAREN 118
Query: 101 VELAEQSIIYIDEIDKIS 118
+ SII+IDE+D ++
Sbjct: 119 ----KPSIIFIDEVDALT 132
>pdb|2QP9|X Chain X, Crystal Structure Of S.Cerevisiae Vps4
pdb|2QPA|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Adp
pdb|2QPA|B Chain B, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Adp
pdb|2QPA|C Chain C, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Adp
Length = 355
Score = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 42/78 (53%), Gaps = 6/78 (7%)
Query: 41 SNILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYD 100
S ILL GP G GK+ + K +A N V ++ + ++G+ E ++++L +
Sbjct: 85 SGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLV-SKWMGES-EKLVKQLFAMAREN 142
Query: 101 VELAEQSIIYIDEIDKIS 118
+ SII+ID++D ++
Sbjct: 143 ----KPSIIFIDQVDALT 156
>pdb|3EIH|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Atpgammas
pdb|3EIH|B Chain B, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Atpgammas
pdb|3EIH|C Chain C, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Atpgammas
Length = 340
Score = 36.2 bits (82), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 42/78 (53%), Gaps = 6/78 (7%)
Query: 41 SNILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYD 100
S ILL GP G GK+ + K +A N V ++ + ++G+ E ++++L +
Sbjct: 70 SGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLV-SKWMGES-EKLVKQLFAMAREN 127
Query: 101 VELAEQSIIYIDEIDKIS 118
+ SII+ID++D ++
Sbjct: 128 ----KPSIIFIDQVDALT 141
>pdb|1KSF|X Chain X, Crystal Structure Of Clpa, An Hsp100 Chaperone And
Regulator Of Clpap Protease: Structural Basis Of
Differences In Function Of The Two Aaa+ Atpase Domains
pdb|1R6B|X Chain X, High Resolution Crystal Structure Of Clpa
Length = 758
Score = 36.2 bits (82), Expect = 0.017, Method: Composition-based stats.
Identities = 31/89 (34%), Positives = 47/89 (52%), Gaps = 16/89 (17%)
Query: 40 KSNILLVGPTGCGKTLMVKTLA-KII--NVPIIVVDATSFT--------EAGYVGDDVES 88
K+N LLVG +G GKT + + LA +I+ +VP ++ D T ++ Y G D E
Sbjct: 207 KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRG-DFEK 265
Query: 89 IIQKLLHECDYDVELAEQSIIYIDEIDKI 117
+ LL + + D SI++IDEI I
Sbjct: 266 RFKALLKQLEQDT----NSILFIDEIHTI 290
Score = 30.4 bits (67), Expect = 0.78, Method: Composition-based stats.
Identities = 21/86 (24%), Positives = 39/86 (45%), Gaps = 18/86 (20%)
Query: 42 NILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTE-----------AGYVGDDVESII 90
+ L GPTG GKT + L+K + + ++ D + + E GYVG D ++
Sbjct: 490 SFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAPPGYVGFDQGGLL 549
Query: 91 QKLLHECDYDVELAEQSIIYIDEIDK 116
+ + +++ +DEI+K
Sbjct: 550 TDAVIK-------HPHAVLLLDEIEK 568
>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
State
Length = 322
Score = 35.8 bits (81), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 42/78 (53%), Gaps = 6/78 (7%)
Query: 41 SNILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYD 100
S ILL GP G GK+ + K +A N V ++ + ++G+ E ++++L +
Sbjct: 52 SGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLV-SKWMGES-EKLVKQLFAMAREN 109
Query: 101 VELAEQSIIYIDEIDKIS 118
+ SII+ID++D ++
Sbjct: 110 ----KPSIIFIDQVDALT 123
>pdb|3CF0|A Chain A, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|B Chain B, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|C Chain C, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|D Chain D, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|E Chain E, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|F Chain F, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|G Chain G, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|H Chain H, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|I Chain I, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|J Chain J, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|K Chain K, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|L Chain L, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|M Chain M, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|N Chain N, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
Length = 301
Score = 35.4 bits (80), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 36/77 (46%), Gaps = 6/77 (7%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVE 102
+L GP GCGKTL+ K +A I + + + E+ ++++ +
Sbjct: 52 VLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWF--GESEANVREIFDK----AR 105
Query: 103 LAEQSIIYIDEIDKISK 119
A +++ DE+D I+K
Sbjct: 106 QAAPCVLFFDELDSIAK 122
>pdb|4FCT|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FD2|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FD2|B Chain B, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FD2|D Chain D, Crystal Structure Of The C-Terminal Domain Of Clpb
Length = 308
Score = 35.0 bits (79), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 33/126 (26%), Positives = 53/126 (42%), Gaps = 26/126 (20%)
Query: 5 RHIIGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLAKII 64
+ ++GQ E + V+ + L K N + + L +GPTG GKT + KTLA +
Sbjct: 14 KRVVGQDEAIRAVADAIRRARAGL---KDPNRPI--GSFLFLGPTGVGKTELAKTLAATL 68
Query: 65 ---NVPIIVVDATSFTE-----------AGYVGDDVESIIQKLLHECDYDVELAEQSIIY 110
+I +D T + E GYVG + + + + Y S+I
Sbjct: 69 FDTEEAMIRIDMTEYMEKHAVSRLIGAPPGYVGYEEGGQLTEAVRRRPY-------SVIL 121
Query: 111 IDEIDK 116
D I+K
Sbjct: 122 FDAIEK 127
>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 35.0 bits (79), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 35/108 (32%), Positives = 57/108 (52%), Gaps = 24/108 (22%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHE----CD 98
++L G G GKTL+ K +A + TS T VG + +IQK L + C
Sbjct: 219 VILYGAPGTGKTLLAKAVA----------NQTSATFLRIVGSE---LIQKYLGDGPRLCR 265
Query: 99 YDVELAEQ---SIIYIDEIDKI-SKKTDVVSGKDVSGEGVQQSLLKLI 142
++A + SI++IDEID I +K+ D SG + +Q+++L+L+
Sbjct: 266 QIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGERE---IQRTMLELL 310
>pdb|2ZAM|A Chain A, Crystal Structure Of Mouse Skd1VPS4B APO-Form
pdb|2ZAN|A Chain A, Crystal Structure Of Mouse Skd1VPS4B ATP-Form
pdb|2ZAO|A Chain A, Crystal Structure Of Mouse Skd1VPS4B ADP-Form
Length = 444
Score = 34.7 bits (78), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 41/78 (52%), Gaps = 11/78 (14%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVE 102
ILL GP G GK+ + K +A N ++S + ++G+ E +++ L +
Sbjct: 170 ILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGES-EKLVKNLF-------Q 221
Query: 103 LAEQ---SIIYIDEIDKI 117
LA + SII+IDEID +
Sbjct: 222 LARENKPSIIFIDEIDSL 239
>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b
Length = 322
Score = 34.7 bits (78), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 41/78 (52%), Gaps = 11/78 (14%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVE 102
ILL GP G GK+ + K +A N ++S + ++G+ E +++ L +
Sbjct: 48 ILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGES-EKLVKNLF-------Q 99
Query: 103 LAEQ---SIIYIDEIDKI 117
LA + SII+IDEID +
Sbjct: 100 LARENKPSIIFIDEIDSL 117
>pdb|4FCV|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCV|B Chain B, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCV|C Chain C, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCW|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCW|C Chain C, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCW|F Chain F, Crystal Structure Of The C-Terminal Domain Of Clpb
Length = 311
Score = 34.7 bits (78), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 33/126 (26%), Positives = 52/126 (41%), Gaps = 26/126 (20%)
Query: 5 RHIIGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLAKII 64
+ ++GQ E + V+ + L K N + + L +GPTG GKT + KTLA +
Sbjct: 17 KRVVGQDEAIRAVADAIRRARAGL---KDPNRPI--GSFLFLGPTGVGKTELAKTLAATL 71
Query: 65 ---NVPIIVVDATSFTE-----------AGYVGDDVESIIQKLLHECDYDVELAEQSIIY 110
I +D T + E GYVG + + + + Y S+I
Sbjct: 72 FDTEEAXIRIDXTEYXEKHAVSRLIGAPPGYVGYEEGGQLTEAVRRRPY-------SVIL 124
Query: 111 IDEIDK 116
D I+K
Sbjct: 125 FDAIEK 130
>pdb|1KAG|A Chain A, Crystal Structure Of The Escherichia Coli Shikimate
Kinase I (Arok)
pdb|1KAG|B Chain B, Crystal Structure Of The Escherichia Coli Shikimate
Kinase I (Arok)
Length = 173
Score = 34.3 bits (77), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 20/28 (71%)
Query: 39 EKSNILLVGPTGCGKTLMVKTLAKIINV 66
EK NI LVGP G GK+ + + LA+ +N+
Sbjct: 3 EKRNIFLVGPMGAGKSTIGRQLAQQLNM 30
>pdb|1QVR|A Chain A, Crystal Structure Analysis Of Clpb
pdb|1QVR|B Chain B, Crystal Structure Analysis Of Clpb
pdb|1QVR|C Chain C, Crystal Structure Analysis Of Clpb
Length = 854
Score = 34.3 bits (77), Expect = 0.057, Method: Composition-based stats.
Identities = 27/89 (30%), Positives = 40/89 (44%), Gaps = 21/89 (23%)
Query: 42 NILLVGPTGCGKTLMVKTLAKII---NVPIIVVDATSFTEA-----------GYVGDDVE 87
+ L +GPTG GKT + KTLA + +I +D T + E GYVG +
Sbjct: 590 SFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSRLIGAPPGYVGYEEG 649
Query: 88 SIIQKLLHECDYDVELAEQSIIYIDEIDK 116
+ + + Y S+I DEI+K
Sbjct: 650 GQLTEAVRRRPY-------SVILFDEIEK 671
Score = 29.6 bits (65), Expect = 1.3, Method: Composition-based stats.
Identities = 32/136 (23%), Positives = 61/136 (44%), Gaps = 21/136 (15%)
Query: 40 KSNILLVGPTGCGKTLMVKTLAKII---NVP-------IIVVDATSFTEAGYVGDDVESI 89
K+N +L+G G GKT +V+ LA+ I +VP I+ + S + E
Sbjct: 191 KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEFEER 250
Query: 90 IQKLLHECDYDVELAEQSIIYIDEIDKI---SKKTDVVSGKDVSGEGVQQSLLKLIEGVN 146
++ ++ E V+ + I++IDE+ + K V ++ + + L+LI
Sbjct: 251 LKAVIQEV---VQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARGELRLI---- 303
Query: 147 LSITSLAEKKNPSQNP 162
T+L E + ++P
Sbjct: 304 -GATTLDEYREIEKDP 318
>pdb|2P65|A Chain A, Crystal Structure Of The First Nucleotide Binding Domain
Of Chaperone Clpb1, Putative, (Pv089580) From Plasmodium
Vivax
Length = 187
Score = 32.7 bits (73), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 31/98 (31%), Positives = 50/98 (51%), Gaps = 15/98 (15%)
Query: 40 KSNILLVGPTGCGKTLMVKTLA-KII--NVP-------IIVVDATSFTEAGYVGDDVESI 89
K+N +L+G G GKT +V+ LA KI+ +VP ++ +D +S D E
Sbjct: 43 KNNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVSLDLSSLIAGAKYRGDFEER 102
Query: 90 IQKLLHECDYDVELAE-QSIIYIDEIDKISKKTDVVSG 126
++ +L E V+ AE Q +++IDEI + V G
Sbjct: 103 LKSILKE----VQDAEGQVVMFIDEIHTVVGAGAVAEG 136
>pdb|3FOZ|A Chain A, Structure Of E. Coli Isopentenyl-Trna Transferase In
Complex With E. Coli Trna(Phe)
pdb|3FOZ|B Chain B, Structure Of E. Coli Isopentenyl-Trna Transferase In
Complex With E. Coli Trna(Phe)
pdb|2ZXU|A Chain A, Crystal Structure Of Trna Modification Enzyme Miaa In
The Complex With Trna(Phe) And Dmaspp
pdb|2ZXU|B Chain B, Crystal Structure Of Trna Modification Enzyme Miaa In
The Complex With Trna(Phe) And Dmaspp
Length = 316
Score = 32.3 bits (72), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 20/32 (62%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDAT 74
I L+GPT GKT + L KI+ V +I VD+
Sbjct: 13 IFLMGPTASGKTALAIELRKILPVELISVDSA 44
>pdb|2ZM5|A Chain A, Crystal Structure Of Trna Modification Enzyme Miaa In
The Complex With Trna(Phe)
pdb|2ZM5|B Chain B, Crystal Structure Of Trna Modification Enzyme Miaa In
The Complex With Trna(Phe)
Length = 316
Score = 32.0 bits (71), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 19/32 (59%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDAT 74
I L GPT GKT + L KI+ V +I VD+
Sbjct: 13 IFLXGPTASGKTALAIELRKILPVELISVDSA 44
>pdb|1YQT|A Chain A, Rnase-L Inhibitor
Length = 538
Score = 31.6 bits (70), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 32/109 (29%), Positives = 49/109 (44%), Gaps = 16/109 (14%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPI---IVVDATSFTEAGYVGDDVESIIQKLLHECD- 98
I +VGP G GKT VK LA + P I D T + Y+ D E + +LL + D
Sbjct: 315 IGIVGPNGIGKTTFVKXLAG-VEEPTEGKIEWDLTVAYKPQYIKADYEGTVYELLSKIDA 373
Query: 99 -------YDVELAEQSIIYIDEIDKISKKTDVVSGKDVSGEGVQQSLLK 140
Y EL + I ID ++ + +SG ++ + +LL+
Sbjct: 374 SKLNSNFYKTELLKPLGI----IDLYDREVNELSGGELQRVAIAATLLR 418
Score = 26.9 bits (58), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 35/67 (52%), Gaps = 3/67 (4%)
Query: 29 FLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEA--GYVGDDV 86
F+L + E + +VGP G GK+ VK LA + +P + D S+ + G+++
Sbjct: 36 FVLYRLPVVKEGXVVGIVGPNGTGKSTAVKILAGQL-IPNLCGDNDSWDGVIRAFRGNEL 94
Query: 87 ESIIQKL 93
++ +KL
Sbjct: 95 QNYFEKL 101
>pdb|3V4R|A Chain A, Crystal Structure Of A Uvrb Dimer-Dna Complex
pdb|3V4R|B Chain B, Crystal Structure Of A Uvrb Dimer-Dna Complex
Length = 667
Score = 31.2 bits (69), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 34 KNIYLEKSNILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAG 80
K I K + L+G TG GKT V L K +N P +V+ A + T AG
Sbjct: 32 KGIQEGKKHQTLLGATGTGKTFTVSNLIKEVNKPTLVI-AHNKTLAG 77
>pdb|2D7D|A Chain A, Structural Insights Into The Cryptic Dna Dependent
Atp-Ase Activity Of Uvrb
pdb|2NMV|A Chain A, Damage Detection By The Uvrabc Pathway: Crystal
Structure Of Uvrb Bound To Fluorescein-Adducted Dna
Length = 661
Score = 31.2 bits (69), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 34 KNIYLEKSNILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAG 80
K I K + L+G TG GKT V L K +N P +V+ A + T AG
Sbjct: 26 KGIQEGKKHQTLLGATGTGKTFTVSNLIKEVNKPTLVI-AHNKTLAG 71
>pdb|3PVS|A Chain A, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
pdb|3PVS|B Chain B, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
pdb|3PVS|C Chain C, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
pdb|3PVS|D Chain D, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
Length = 447
Score = 31.2 bits (69), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 17/78 (21%), Positives = 39/78 (50%), Gaps = 9/78 (11%)
Query: 42 NILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDV 101
+++L GP G GKT + + +A+ N + + A V V+ I++ + +
Sbjct: 52 SMILWGPPGTGKTTLAEVIARYANADVERISA--------VTSGVKE-IREAIERARQNR 102
Query: 102 ELAEQSIIYIDEIDKISK 119
++I+++DE+ + +K
Sbjct: 103 NAGRRTILFVDEVHRFNK 120
>pdb|3PFI|A Chain A, 2.7 Angstrom Resolution Crystal Structure Of A Probable
Holliday Junction Dna Helicase (Ruvb) From Campylobacter
Jejuni Subsp. Jejuni Nctc 11168 In Complex With
Adenosine-5'-Diphosphate
pdb|3PFI|B Chain B, 2.7 Angstrom Resolution Crystal Structure Of A Probable
Holliday Junction Dna Helicase (Ruvb) From Campylobacter
Jejuni Subsp. Jejuni Nctc 11168 In Complex With
Adenosine-5'-Diphosphate
Length = 338
Score = 30.8 bits (68), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 30/111 (27%), Positives = 48/111 (43%), Gaps = 23/111 (20%)
Query: 8 IGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLAKIINVP 67
IGQ KK ++V + KR L +IL GP G GKT + ++ +
Sbjct: 32 IGQESIKKNLNVFIAAAKKRNECL---------DHILFSGPAGLGKTTLANIISYEXSAN 82
Query: 68 IIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVELAEQSIIYIDEIDKIS 118
I A ++G D+ +I+ L+E I++IDEI ++S
Sbjct: 83 IKTTAAPXIEKSG----DLAAIL----------TNLSEGDILFIDEIHRLS 119
>pdb|1J7K|A Chain A, Thermotoga Maritima Ruvb P216g Mutant
Length = 334
Score = 30.0 bits (66), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 28/115 (24%), Positives = 48/115 (41%), Gaps = 23/115 (20%)
Query: 8 IGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLAKIINVP 67
IGQ KK +S+ + R +L ++LL GP G GKT + +A +
Sbjct: 28 IGQENVKKKLSLALEAAKMRGEVL---------DHVLLAGPPGLGKTTLAHIIASELQTN 78
Query: 68 IIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVELAEQSIIYIDEIDKISKKTD 122
I V + G D+ +I+ L +++IDEI +++K +
Sbjct: 79 IHVTSGPVLVKQG----DMAAIL----------TSLERGDVLFIDEIHRLNKAVE 119
>pdb|1IN8|A Chain A, Thermotoga Maritima Ruvb T158v
Length = 334
Score = 30.0 bits (66), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 28/115 (24%), Positives = 48/115 (41%), Gaps = 23/115 (20%)
Query: 8 IGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLAKIINVP 67
IGQ KK +S+ + R +L ++LL GP G GKT + +A +
Sbjct: 28 IGQENVKKKLSLALEAAKMRGEVL---------DHVLLAGPPGLGKTTLAHIIASELQTN 78
Query: 68 IIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVELAEQSIIYIDEIDKISKKTD 122
I V + G D+ +I+ L +++IDEI +++K +
Sbjct: 79 IHVTSGPVLVKQG----DMAAIL----------TSLERGDVLFIDEIHRLNKAVE 119
>pdb|1IN4|A Chain A, Thermotoga Maritima Ruvb Holliday Junction Branch
Migration Motor
Length = 334
Score = 30.0 bits (66), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 28/115 (24%), Positives = 48/115 (41%), Gaps = 23/115 (20%)
Query: 8 IGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLAKIINVP 67
IGQ KK +S+ + R +L ++LL GP G GKT + +A +
Sbjct: 28 IGQENVKKKLSLALEAAKMRGEVL---------DHVLLAGPPGLGKTTLAHIIASELQTN 78
Query: 68 IIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVELAEQSIIYIDEIDKISKKTD 122
I V + G D+ +I+ L +++IDEI +++K +
Sbjct: 79 IHVTSGPVLVKQG----DMAAIL----------TSLERGDVLFIDEIHRLNKAVE 119
>pdb|1IN5|A Chain A, Thermogota Maritima Ruvb A156s Mutant
Length = 334
Score = 30.0 bits (66), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 28/115 (24%), Positives = 48/115 (41%), Gaps = 23/115 (20%)
Query: 8 IGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLAKIINVP 67
IGQ KK +S+ + R +L ++LL GP G GKT + +A +
Sbjct: 28 IGQENVKKKLSLALEAAKMRGEVL---------DHVLLAGPPGLGKTTLAHIIASELQTN 78
Query: 68 IIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVELAEQSIIYIDEIDKISKKTD 122
I V + G D+ +I+ L +++IDEI +++K +
Sbjct: 79 IHVTSGPVLVKQG----DMAAIL----------TSLERGDVLFIDEIHRLNKAVE 119
>pdb|1IN7|A Chain A, Thermotoga Maritima Ruvb R170a
Length = 334
Score = 30.0 bits (66), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 28/115 (24%), Positives = 48/115 (41%), Gaps = 23/115 (20%)
Query: 8 IGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLAKIINVP 67
IGQ KK +S+ + R +L ++LL GP G GKT + +A +
Sbjct: 28 IGQENVKKKLSLALEAAKMRGEVL---------DHVLLAGPPGLGKTTLAHIIASELQTN 78
Query: 68 IIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVELAEQSIIYIDEIDKISKKTD 122
I V + G D+ +I+ L +++IDEI +++K +
Sbjct: 79 IHVTSGPVLVKQG----DMAAIL----------TSLERGDVLFIDEIHRLNKAVE 119
>pdb|4GL2|A Chain A, Structural Basis For Dsrna Duplex Backbone Recognition
By Mda5
pdb|4GL2|B Chain B, Structural Basis For Dsrna Duplex Backbone Recognition
By Mda5
Length = 699
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 21/36 (58%)
Query: 27 RLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLAK 62
R + ++ LE NI++ PTGCGKT + +AK
Sbjct: 9 RPYQMEVAQPALEGKNIIICLPTGCGKTRVAVYIAK 44
>pdb|3DWL|A Chain A, Crystal Structure Of Fission Yeast Arp2/3 Complex
Lacking The Arp2 Subunit
pdb|3DWL|B Chain B, Crystal Structure Of Fission Yeast Arp2/3 Complex
Lacking The Arp2 Subunit
Length = 427
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 64 INVPIIVVDATSFTEAGYVGDDVESII 90
NVPII+ + T +++ GY G+D S +
Sbjct: 4 FNVPIIMDNGTGYSKLGYAGNDAPSYV 30
>pdb|3CRM|A Chain A, Structure Of Trna Dimethylallyltransferase: Rna
Modification Through A Channel
pdb|3CRQ|A Chain A, Structure Of Trna Dimethylallyltransferase: Rna
Modification Through A Channel
pdb|3CRR|A Chain A, Structure Of Trna Dimethylallyltransferase: Rna
Modification Through A Channel
Length = 323
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 18/32 (56%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDAT 74
I L+GPT GKT + LA + +I VD+
Sbjct: 8 IFLMGPTAAGKTDLAMALADALPCELISVDSA 39
>pdb|1IN6|A Chain A, Thermotoga Maritima Ruvb K64r Mutant
Length = 334
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 27/115 (23%), Positives = 48/115 (41%), Gaps = 23/115 (20%)
Query: 8 IGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLAKIINVP 67
IGQ KK +S+ + R +L ++LL GP G G+T + +A +
Sbjct: 28 IGQENVKKKLSLALEAAKMRGEVL---------DHVLLAGPPGLGRTTLAHIIASELQTN 78
Query: 68 IIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVELAEQSIIYIDEIDKISKKTD 122
I V + G D+ +I+ L +++IDEI +++K +
Sbjct: 79 IHVTSGPVLVKQG----DMAAIL----------TSLERGDVLFIDEIHRLNKAVE 119
>pdb|1Q1B|A Chain A, Crystal Structure Of E. Coli Malk In The Nucleotide-Free
Form
pdb|1Q1B|B Chain B, Crystal Structure Of E. Coli Malk In The Nucleotide-Free
Form
pdb|1Q1B|C Chain C, Crystal Structure Of E. Coli Malk In The Nucleotide-Free
Form
pdb|1Q1B|D Chain D, Crystal Structure Of E. Coli Malk In The Nucleotide-Free
Form
Length = 381
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 23/34 (67%), Gaps = 3/34 (8%)
Query: 33 SKNIYL---EKSNILLVGPTGCGKTLMVKTLAKI 63
SK+I L E ++ VGP+GCGK+ +++ +A +
Sbjct: 19 SKDINLDIHEGEFVVFVGPSGCGKSTLLRMIAGL 52
>pdb|1Q12|A Chain A, Crystal Structure Of The Atp-bound E. Coli Malk
pdb|1Q12|B Chain B, Crystal Structure Of The Atp-bound E. Coli Malk
pdb|1Q12|C Chain C, Crystal Structure Of The Atp-bound E. Coli Malk
pdb|1Q12|D Chain D, Crystal Structure Of The Atp-bound E. Coli Malk
pdb|1Q1E|A Chain A, The Atpase Component Of E. Coli Maltose Transporter
(Malk) In The Nucleotide-Free Form
pdb|1Q1E|B Chain B, The Atpase Component Of E. Coli Maltose Transporter
(Malk) In The Nucleotide-Free Form
pdb|2AWN|A Chain A, Crystal Structure Of The Adp-Mg-Bound E. Coli Malk
(Crystallized With Atp-Mg)
pdb|2AWN|B Chain B, Crystal Structure Of The Adp-Mg-Bound E. Coli Malk
(Crystallized With Atp-Mg)
pdb|2AWN|C Chain C, Crystal Structure Of The Adp-Mg-Bound E. Coli Malk
(Crystallized With Atp-Mg)
pdb|2AWN|D Chain D, Crystal Structure Of The Adp-Mg-Bound E. Coli Malk
(Crystallized With Atp-Mg)
pdb|2AWO|A Chain A, Crystal Structure Of The Adp-mg-bound E. Coli Malk
(crystallized With Adp-mg)
pdb|2AWO|B Chain B, Crystal Structure Of The Adp-mg-bound E. Coli Malk
(crystallized With Adp-mg)
pdb|2AWO|C Chain C, Crystal Structure Of The Adp-mg-bound E. Coli Malk
(crystallized With Adp-mg)
pdb|2AWO|D Chain D, Crystal Structure Of The Adp-mg-bound E. Coli Malk
(crystallized With Adp-mg)
pdb|3FH6|A Chain A, Crystal Structure Of The Resting State Maltose
Transporter From E. Coli
pdb|3FH6|B Chain B, Crystal Structure Of The Resting State Maltose
Transporter From E. Coli
pdb|3FH6|C Chain C, Crystal Structure Of The Resting State Maltose
Transporter From E. Coli
pdb|3FH6|D Chain D, Crystal Structure Of The Resting State Maltose
Transporter From E. Coli
pdb|3PUY|A Chain A, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Amp-Pnp After Crystal
Soaking Of The Pretranslocation State
pdb|3PUY|B Chain B, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Amp-Pnp After Crystal
Soaking Of The Pretranslocation State
pdb|3PUZ|A Chain A, Crystal Structure Of A Pre-Translocation State
Mbp-Maltose Transporter Complex Bound To Amp-Pnp
pdb|3PUZ|B Chain B, Crystal Structure Of A Pre-Translocation State
Mbp-Maltose Transporter Complex Bound To Amp-Pnp
pdb|3PV0|A Chain A, Crystal Structure Of A Pre-Translocation State
Mbp-Maltose Transporter Complex Without Nucleotide
pdb|3PV0|B Chain B, Crystal Structure Of A Pre-Translocation State
Mbp-Maltose Transporter Complex Without Nucleotide
pdb|3PUV|A Chain A, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Vo4
pdb|3PUV|B Chain B, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Vo4
pdb|3PUW|A Chain A, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Alf4
pdb|3PUW|B Chain B, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Alf4
pdb|3PUX|A Chain A, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Bef3
pdb|3PUX|B Chain B, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Bef3
pdb|3RLF|A Chain A, Crystal Structure Of The Maltose-Binding ProteinMALTOSE
TRANSPORTER Complex In An Outward-Facing Conformation
Bound To Mgamppnp
pdb|3RLF|B Chain B, Crystal Structure Of The Maltose-Binding ProteinMALTOSE
TRANSPORTER Complex In An Outward-Facing Conformation
Bound To Mgamppnp
Length = 381
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 23/34 (67%), Gaps = 3/34 (8%)
Query: 33 SKNIYL---EKSNILLVGPTGCGKTLMVKTLAKI 63
SK+I L E ++ VGP+GCGK+ +++ +A +
Sbjct: 19 SKDINLDIHEGEFVVFVGPSGCGKSTLLRMIAGL 52
>pdb|2R6G|A Chain A, The Crystal Structure Of The E. Coli Maltose Transporter
pdb|2R6G|B Chain B, The Crystal Structure Of The E. Coli Maltose Transporter
Length = 381
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 23/34 (67%), Gaps = 3/34 (8%)
Query: 33 SKNIYL---EKSNILLVGPTGCGKTLMVKTLAKI 63
SK+I L E ++ VGP+GCGK+ +++ +A +
Sbjct: 19 SKDINLDIHEGEFVVFVGPSGCGKSTLLRMIAGL 52
>pdb|3QF4|B Chain B, Crystal Structure Of A Heterodimeric Abc Transporter In
Its Inward- Facing Conformation
Length = 598
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 34/63 (53%), Gaps = 5/63 (7%)
Query: 5 RHIIGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSN-ILLVGPTGCGKTLMVKTLAKI 63
R + G+ E K + +++ K+ +LK +++ + LVGPTG GKT +V L +
Sbjct: 349 REVRGEIEFKNVW----FSYDKKKPVLKDITFHIKPGQKVALVGPTGSGKTTIVNLLMRF 404
Query: 64 INV 66
+V
Sbjct: 405 YDV 407
>pdb|3IIJ|A Chain A, The Structure Of Hcinap-Adp Complex At 1.76 Angstroms
Resolution.
pdb|3IIK|A Chain A, The Structure Of Hcinap-So4 Complex At 1.95 Angstroms
Resolution
pdb|3IIL|A Chain A, The Structure Of Hcinap-Mgadp-Pi Complex At 2.0 Angstroms
Resolution
pdb|3IIM|A Chain A, The Structure Of Hcinap-Dadp Complex At 2.0 Angstroms
Resolution
Length = 180
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 37/84 (44%), Gaps = 12/84 (14%)
Query: 41 SNILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYD 100
NILL G G GKT + K LA + I V + E Y G D E YD
Sbjct: 12 PNILLTGTPGVGKTTLGKELASKSGLKYINVGDLAREEQLYDGYDEE-----------YD 60
Query: 101 VELAEQSIIYIDEIDKISKKTDVV 124
+ ++ + +DE+D ++ V+
Sbjct: 61 CPILDEDRV-VDELDNQMREGGVI 83
>pdb|3D3Q|A Chain A, Crystal Structure Of Trna
Delta(2)-Isopentenylpyrophosphate Transferase (Se0981)
From Staphylococcus Epidermidis. Northeast Structural
Genomics Consortium Target Ser100
pdb|3D3Q|B Chain B, Crystal Structure Of Trna
Delta(2)-Isopentenylpyrophosphate Transferase (Se0981)
From Staphylococcus Epidermidis. Northeast Structural
Genomics Consortium Target Ser100
Length = 340
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 23/44 (52%), Gaps = 4/44 (9%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDV 86
I++VGPT GKT + +AK N II D+ Y G D+
Sbjct: 10 IVIVGPTASGKTELSIEVAKKFNGEIISGDSXQV----YQGXDI 49
>pdb|3M6A|A Chain A, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|B Chain B, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|C Chain C, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|D Chain D, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|E Chain E, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|F Chain F, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
Length = 543
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 35/84 (41%), Gaps = 14/84 (16%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAG--------YVGDDVESIIQKLL 94
+ L GP G GKT + K++AK + + + + YVG IIQ +
Sbjct: 111 LCLAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRDESEIRGHRRTYVGAMPGRIIQGMK 170
Query: 95 HECDYDVELAEQSIIYIDEIDKIS 118
+ + +DEIDK+S
Sbjct: 171 KAGKLN------PVFLLDEIDKMS 188
>pdb|1RKB|A Chain A, The Structure Of Adrenal Gland Protein Ad-004
Length = 173
Score = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 37/84 (44%), Gaps = 12/84 (14%)
Query: 41 SNILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYD 100
NILL G G GKT + K LA + I V + E Y G D E YD
Sbjct: 5 PNILLTGTPGVGKTTLGKELASKSGLKYINVGDLAREEQLYDGYDEE-----------YD 53
Query: 101 VELAEQSIIYIDEIDKISKKTDVV 124
+ ++ + +DE+D ++ V+
Sbjct: 54 CPILDEDRV-VDELDNQMREGGVI 76
>pdb|2D62|A Chain A, Crystal Structure Of Multiple Sugar Binding Transport
Atp- Binding Protein
Length = 375
Score = 28.9 bits (63), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 9/19 (47%), Positives = 16/19 (84%)
Query: 43 ILLVGPTGCGKTLMVKTLA 61
++L+GP+GCGKT ++ +A
Sbjct: 35 LVLLGPSGCGKTTTLRXIA 53
>pdb|1G29|1 Chain 1, Malk
pdb|1G29|2 Chain 2, Malk
Length = 372
Score = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 9/19 (47%), Positives = 16/19 (84%)
Query: 43 ILLVGPTGCGKTLMVKTLA 61
++L+GP+GCGKT ++ +A
Sbjct: 32 MILLGPSGCGKTTTLRMIA 50
>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 = 28.5 bits (62), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 31/54 (57%), Gaps = 4/54 (7%)
Query: 12 ETKKIVSVGVYNHYKRL--FLLKSK-NIYLEKSNIL-LVGPTGCGKTLMVKTLA 61
E K+V V + N KR F +K N+ ++ L L+GP+GCGKT ++ +A
Sbjct: 6 EVIKMVEVKLENLTKRFGNFTAVNKLNLTIKDGEFLVLLGPSGCGKTTTLRMIA 59
>pdb|1V43|A Chain A, Crystal Structure Of Atpase Subunit Of Abc Sugar
Transporter
Length = 372
Score = 28.5 bits (62), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 31/54 (57%), Gaps = 4/54 (7%)
Query: 12 ETKKIVSVGVYNHYKRL--FLLKSK-NIYLEKSNIL-LVGPTGCGKTLMVKTLA 61
E K+V V + N KR F +K N+ ++ L L+GP+GCGKT ++ +A
Sbjct: 5 EVIKMVEVKLENLTKRFGNFTAVNKLNLTIKDGEFLVLLGPSGCGKTTTLRMIA 58
>pdb|2CLS|A Chain A, The Crystal Structure Of The Human Rnd1 Gtpase In The
Active Gtp Bound State
pdb|2CLS|B Chain B, The Crystal Structure Of The Human Rnd1 Gtpase In The
Active Gtp Bound State
Length = 198
Score = 28.5 bits (62), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 20/32 (62%)
Query: 31 LKSKNIYLEKSNILLVGPTGCGKTLMVKTLAK 62
+++ + + ++LVG CGKT M++ LAK
Sbjct: 2 MRAPQPVVARCKLVLVGDVQCGKTAMLQVLAK 33
>pdb|3PXG|A Chain A, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|B Chain B, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|C Chain C, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|D Chain D, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|E Chain E, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|F Chain F, Structure Of Meca121 And Clpc1-485 Complex
Length = 468
Score = 28.1 bits (61), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 25/41 (60%), Gaps = 3/41 (7%)
Query: 40 KSNILLVGPTGCGKTLMVKTLA-KIIN--VPIIVVDATSFT 77
K+N +L+G G GKT + + LA +IIN VP I+ D T
Sbjct: 201 KNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMT 241
>pdb|3BK7|A Chain A, Structure Of The Complete Abce1RNAASE-L Inhibitor Protein
From Pyrococcus Abysii
Length = 607
Score = 28.1 bits (61), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 30/109 (27%), Positives = 48/109 (44%), Gaps = 16/109 (14%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPI---IVVDATSFTEAGYVGDDVESIIQKLLHECD- 98
I +VGP G GKT VK LA + P + D T + Y+ + E + +LL + D
Sbjct: 385 IGIVGPNGIGKTTFVKMLAG-VEEPTEGKVEWDLTVAYKPQYIKAEYEGTVYELLSKIDS 443
Query: 99 -------YDVELAEQSIIYIDEIDKISKKTDVVSGKDVSGEGVQQSLLK 140
Y EL + I ID + + +SG ++ + +LL+
Sbjct: 444 SKLNSNFYKTELLKPLGI----IDLYDRNVEDLSGGELQRVAIAATLLR 488
Score = 27.3 bits (59), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 29/51 (56%), Gaps = 3/51 (5%)
Query: 45 LVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEA--GYVGDDVESIIQKL 93
+VGP G GKT VK LA + +P + D S+ + G+++++ ++L
Sbjct: 122 IVGPNGTGKTTAVKILAGQL-IPNLCEDNDSWDNVIRAFRGNELQNYFERL 171
>pdb|1JBK|A Chain A, Crystal Structure Of The First Nucelotide Binding Domain
Of Clpb
Length = 195
Score = 28.1 bits (61), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 46/88 (52%), Gaps = 19/88 (21%)
Query: 40 KSNILLVGPTGCGKTLMVKTLA-KIIN--VP-------IIVVDATSFTEAGYVGDDVESI 89
K+N +L+G G GKT +V+ LA +IIN VP ++ +D + + E
Sbjct: 43 KNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFEER 102
Query: 90 IQKLLHECDYDVELAEQS---IIYIDEI 114
++ +L+ +LA+Q I++IDE+
Sbjct: 103 LKGVLN------DLAKQEGNVILFIDEL 124
>pdb|3J15|B Chain B, Model Of Ribosome-Bound Archaeal Pelota And Abce1
Length = 593
Score = 28.1 bits (61), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 30/109 (27%), Positives = 48/109 (44%), Gaps = 16/109 (14%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPI---IVVDATSFTEAGYVGDDVESIIQKLLHECD- 98
I +VGP G GKT VK LA + P + D T + Y+ + E + +LL + D
Sbjct: 371 IGIVGPNGIGKTTFVKMLAG-VEEPTEGKVEWDLTVAYKPQYIKAEYEGTVYELLSKIDS 429
Query: 99 -------YDVELAEQSIIYIDEIDKISKKTDVVSGKDVSGEGVQQSLLK 140
Y EL + I ID + + +SG ++ + +LL+
Sbjct: 430 SKLNSNFYKTELLKPLGI----IDLYDRNVEDLSGGELQRVAIAATLLR 474
Score = 27.3 bits (59), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 29/51 (56%), Gaps = 3/51 (5%)
Query: 45 LVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEA--GYVGDDVESIIQKL 93
+VGP G GKT VK LA + +P + D S+ + G+++++ ++L
Sbjct: 108 IVGPNGTGKTTAVKILAGQL-IPNLCEDNDSWDNVIRAFRGNELQNYFERL 157
>pdb|2HXD|A Chain A, Bifunctional Dctp Deaminase-Dutpase Mutant Enzyme Variant
E145a From Methanocaldococcus Jannaschii In Complex With
Alpha,Beta-Imido Dutp And Magnesium
Length = 204
Score = 28.1 bits (61), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 17/24 (70%)
Query: 97 CDYDVELAEQSIIYIDEIDKISKK 120
C YDV L ++ IIY DE+ +SK+
Sbjct: 30 CSYDVTLGDEFIIYDDEVYDLSKE 53
>pdb|3QMZ|A Chain A, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
pdb|3QMZ|B Chain B, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
Length = 2486
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 32/63 (50%), Gaps = 8/63 (12%)
Query: 37 YLEKSN--ILLVGPTGCGKTLMVKTLAKIINV------PIIVVDATSFTEAGYVGDDVES 88
Y++K+ ++LVG GCGKT KT+ + + + V+D T+ G +++
Sbjct: 699 YMQKTQQALILVGKAGCGKTATWKTVIDAMAIFDGHANVVYVIDTKVLTKESLYGSMLKA 758
Query: 89 IIQ 91
++
Sbjct: 759 TLE 761
>pdb|3GF0|A Chain A, Bifunctional Dctp Deaminase-Dutpase Mutant Enzyme Variant
E145q From Methanocaldococcus Jannaschii In Complex With
Pyrophosphate And Magnesium
Length = 204
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 17/24 (70%)
Query: 97 CDYDVELAEQSIIYIDEIDKISKK 120
C YDV L ++ IIY DE+ +SK+
Sbjct: 30 CSYDVTLGDEFIIYDDEVYDLSKE 53
>pdb|1OGH|A Chain A, Structure Of The Bifunctional Dctp Deaminase-Dutpase From
Methanocaldococcus Jannaschii
pdb|1OGH|B Chain B, Structure Of The Bifunctional Dctp Deaminase-Dutpase From
Methanocaldococcus Jannaschii
pdb|1PKH|A Chain A, Structural Basis For Recognition And Catalysis By The
Bifunctional Dctp Deaminase And Dutpase From
Methanococcus Jannaschii
pdb|1PKH|B Chain B, Structural Basis For Recognition And Catalysis By The
Bifunctional Dctp Deaminase And Dutpase From
Methanococcus Jannaschii
pdb|1PKJ|A Chain A, Structural Basis For Recognition And Catalysis By The
Bifunctional Dctp Deaminase And Dutpase From
Methanococcus Jannaschii
pdb|1PKJ|B Chain B, Structural Basis For Recognition And Catalysis By The
Bifunctional Dctp Deaminase And Dutpase From
Methanococcus Jannaschii
pdb|1PKK|A Chain A, Structural Basis For Recognition And Catalysis By The
Bifunctional Dctp Deaminase And Dutpase From
Methanococcus Jannaschii
pdb|1PKK|B Chain B, Structural Basis For Recognition And Catalysis By The
Bifunctional Dctp Deaminase And Dutpase From
Methanococcus Jannaschii
pdb|2HXB|A Chain A, Dctp Deaminase-Dutpase From Methanocaldococcus Jannaschii
Length = 204
Score = 28.1 bits (61), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 17/24 (70%)
Query: 97 CDYDVELAEQSIIYIDEIDKISKK 120
C YDV L ++ IIY DE+ +SK+
Sbjct: 30 CSYDVTLGDEFIIYDDEVYDLSKE 53
>pdb|3VKH|A Chain A, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
pdb|3VKH|B Chain B, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
Length = 3367
Score = 28.1 bits (61), Expect = 4.3, Method: Composition-based stats.
Identities = 20/89 (22%), Positives = 40/89 (44%), Gaps = 19/89 (21%)
Query: 39 EKSNILLVGPTGCGKTL-MVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHEC 97
E ++L GP G GKT+ + TL + ++ ++ +S T E +++ H C
Sbjct: 1303 EHRPLILCGPPGSGKTMTLTSTLRAFPDFEVVSLNFSSATTP-------ELLLKTFDHHC 1355
Query: 98 DYD-----------VELAEQSIIYIDEID 115
+Y +L + +++ DEI+
Sbjct: 1356 EYKRTPSGETVLRPTQLGKWLVVFCDEIN 1384
>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex
pdb|4AI6|B Chain B, Dynein Motor Domain - Adp Complex
pdb|4AKG|A Chain A, Dynein Motor Domain - Atp Complex
pdb|4AKG|B Chain B, Dynein Motor Domain - Atp Complex
pdb|4AKH|A Chain A, Dynein Motor Domain - Amppnp Complex
pdb|4AKH|B Chain B, Dynein Motor Domain - Amppnp Complex
pdb|4AKI|A Chain A, Dynein Motor Domain - Luac Derivative
pdb|4AKI|B Chain B, Dynein Motor Domain - Luac Derivative
Length = 2695
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 32/63 (50%), Gaps = 8/63 (12%)
Query: 37 YLEKSN--ILLVGPTGCGKTLMVKTLAKIINV------PIIVVDATSFTEAGYVGDDVES 88
Y++K+ ++LVG GCGKT KT+ + + + V+D T+ G +++
Sbjct: 918 YMQKTQQALILVGKAGCGKTATWKTVIDAMAIFDGHANVVYVIDTKVLTKESLYGSMLKA 977
Query: 89 IIQ 91
++
Sbjct: 978 TLE 980
>pdb|3VKG|A Chain A, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor
Domain
pdb|3VKG|B Chain B, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor
Domain
Length = 3245
Score = 28.1 bits (61), Expect = 4.5, Method: Composition-based stats.
Identities = 20/89 (22%), Positives = 40/89 (44%), Gaps = 19/89 (21%)
Query: 39 EKSNILLVGPTGCGKTL-MVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHEC 97
E ++L GP G GKT+ + TL + ++ ++ +S T E +++ H C
Sbjct: 1303 EHRPLILCGPPGSGKTMTLTSTLRAFPDFEVVSLNFSSATTP-------ELLLKTFDHHC 1355
Query: 98 DYD-----------VELAEQSIIYIDEID 115
+Y +L + +++ DEI+
Sbjct: 1356 EYKRTPSGETVLRPTQLGKWLVVFCDEIN 1384
>pdb|2YYZ|A Chain A, Crystal Structure Of Sugar Abc Transporter, Atp-Binding
Protein
Length = 359
Score = 27.7 bits (60), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 15/21 (71%)
Query: 43 ILLVGPTGCGKTLMVKTLAKI 63
+ L+GP+GCGKT + LA I
Sbjct: 32 VALLGPSGCGKTTTLLMLAGI 52
>pdb|3Q3J|B Chain B, Crystal Structure Of Plexin A2 Rbd In Complex With Rnd1
Length = 214
Score = 27.7 bits (60), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 3/45 (6%)
Query: 18 SVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLAK 62
S G N Y F ++ + + ++LVG CGKT M++ LAK
Sbjct: 8 SSGRENLY---FQGRAPQPVVARCKLVLVGDVQCGKTAMLQVLAK 49
>pdb|3MSW|A Chain A, Crystal Structure Of A Protein With Unknown Function
(Bf3112 Bacteroides Fragilis Nctc 9343 At 1.90 A
Resolution
Length = 145
Score = 27.7 bits (60), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 23/43 (53%)
Query: 5 RHIIGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVG 47
R +I ++ET+ V V+N K F L K IY+ +N L+
Sbjct: 71 RTVISRYETETSVEYSVWNKEKGSFDLSKKYIYITDNNNQLIA 113
>pdb|4F4C|A Chain A, The Crystal Structure Of The Multi-Drug Transporter
Length = 1321
Score = 27.7 bits (60), Expect = 5.6, Method: Composition-based stats.
Identities = 14/34 (41%), Positives = 21/34 (61%), Gaps = 1/34 (2%)
Query: 30 LLKSKNIYLEKSNIL-LVGPTGCGKTLMVKTLAK 62
+LK + +E L LVGP+GCGK+ +V L +
Sbjct: 1094 ILKGLSFSVEPGQTLALVGPSGCGKSTVVALLER 1127
>pdb|2REX|B Chain B, Crystal Structure Of The Effector Domain Of Plxnb1 Bound
With Rnd1 Gtpase
pdb|2REX|D Chain D, Crystal Structure Of The Effector Domain Of Plxnb1 Bound
With Rnd1 Gtpase
Length = 197
Score = 27.3 bits (59), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 19/31 (61%)
Query: 32 KSKNIYLEKSNILLVGPTGCGKTLMVKTLAK 62
++ + + ++LVG CGKT M++ LAK
Sbjct: 2 RAPQPVVARCKLVLVGDVQCGKTAMLQVLAK 32
>pdb|2P5T|B Chain B, Molecular And Structural Characterization Of The Pezat
Chromosomal Toxin-Antitoxin System Of The Human
Pathogen Streptococcus Pneumoniae
pdb|2P5T|D Chain D, Molecular And Structural Characterization Of The Pezat
Chromosomal Toxin-Antitoxin System Of The Human
Pathogen Streptococcus Pneumoniae
pdb|2P5T|F Chain F, Molecular And Structural Characterization Of The Pezat
Chromosomal Toxin-Antitoxin System Of The Human
Pathogen Streptococcus Pneumoniae
pdb|2P5T|H Chain H, Molecular And Structural Characterization Of The Pezat
Chromosomal Toxin-Antitoxin System Of The Human
Pathogen Streptococcus Pneumoniae
Length = 253
Score = 27.3 bits (59), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 19/34 (55%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSF 76
ILL G +G GKT + + K I+++D SF
Sbjct: 35 ILLGGQSGAGKTTIHRIKQKEFQGNIVIIDGDSF 68
>pdb|2EHH|A Chain A, Crystal Structure Of Dihydrodipicolinate Synthase From
Aquifex Aeolicus
pdb|2EHH|C Chain C, Crystal Structure Of Dihydrodipicolinate Synthase From
Aquifex Aeolicus
pdb|2EHH|D Chain D, Crystal Structure Of Dihydrodipicolinate Synthase From
Aquifex Aeolicus
pdb|2EHH|E Chain E, Crystal Structure Of Dihydrodipicolinate Synthase From
Aquifex Aeolicus
Length = 294
Score = 27.3 bits (59), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 46/85 (54%), Gaps = 9/85 (10%)
Query: 48 PTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVELAEQS 107
PT G KT+A+ +++PII+ + S T V V+++ KL EC+ ++ +++S
Sbjct: 109 PTQRGLYEHFKTVAQEVDIPIIIYNIPSRT---CVEISVDTMF-KLASECE-NIVASKES 163
Query: 108 IIYIDEIDKISKKT----DVVSGKD 128
+D I +I K+ V+SG D
Sbjct: 164 TPNMDRISEIVKRLGESFSVLSGDD 188
>pdb|2AXP|A Chain A, X-Ray Crystal Structure Of Protein Bsu20280 From Bacillus
Subtilis. Northeast Structural Genomics Consortium
Target Sr256.
pdb|2AXP|B Chain B, X-Ray Crystal Structure Of Protein Bsu20280 From Bacillus
Subtilis. Northeast Structural Genomics Consortium
Target Sr256.
pdb|3KB2|A Chain A, Crystal Structure Of Yorr Protein In Complex With
Phosphorylated Gdp From Bacillus Subtilis, Northeast
Structural Genomics Consortium Target Sr256
pdb|3KB2|B Chain B, Crystal Structure Of Yorr Protein In Complex With
Phosphorylated Gdp From Bacillus Subtilis, Northeast
Structural Genomics Consortium Target Sr256
Length = 173
Score = 27.3 bits (59), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 26/99 (26%), Positives = 44/99 (44%), Gaps = 20/99 (20%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAG---------YVGDDVESIIQKL 93
I+L GP C K+ + L+K + PII + ++G + D+ II +
Sbjct: 4 IILEGPDCCFKSTVAAKLSKELKYPIIKGSSFELAKSGNEKLFEHFNKLADEDNVIIDRF 63
Query: 94 LHE--------CDYDVELAEQSIIYIDEIDKISKKTDVV 124
++ DY + L E+ + +I+ DKI K VV
Sbjct: 64 VYSNLVYAKKFKDYSI-LTERQLRFIE--DKIKAKAKVV 99
>pdb|2V3C|C Chain C, Crystal Structure Of The Srp54-Srp19-7s.S Srp Rna Complex
Of M. Jannaschii
pdb|2V3C|D Chain D, Crystal Structure Of The Srp54-Srp19-7s.S Srp Rna Complex
Of M. Jannaschii
Length = 432
Score = 26.9 bits (58), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 33/67 (49%), Gaps = 6/67 (8%)
Query: 21 VYNHYKRLFLLKSKNIYL--EKSN-ILLVGPTGCGKTLMVKTLAKIIN---VPIIVVDAT 74
VY +L ++K + L +K N ILLVG G GKT LA+ I + ++ A
Sbjct: 77 VYEELVKLLGEEAKKLELNPKKQNVILLVGIQGSGKTTTAAKLARYIQKRGLKPALIAAD 136
Query: 75 SFTEAGY 81
++ A Y
Sbjct: 137 TYRPAAY 143
>pdb|1SHK|A Chain A, The Three-dimensional Structure Of Shikimate Kinase From
Erwinia Chrysanthemi
pdb|2SHK|A Chain A, The Three-Dimensional Structure Of Shikimate Kinase From
Erwinia Chrysanthemi Complexed With Adp
pdb|1SHK|B Chain B, The Three-dimensional Structure Of Shikimate Kinase From
Erwinia Chrysanthemi
pdb|2SHK|B Chain B, The Three-Dimensional Structure Of Shikimate Kinase From
Erwinia Chrysanthemi Complexed With Adp
Length = 173
Score = 26.9 bits (58), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 17/30 (56%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVD 72
I +VG GCGKT + + LA+ + + D
Sbjct: 5 IFMVGARGCGKTTVGRELARALGYEFVDTD 34
>pdb|3NDB|B Chain B, Crystal Structure Of A Signal Sequence Bound To The Signal
Recognition Particle
Length = 454
Score = 26.9 bits (58), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 33/67 (49%), Gaps = 6/67 (8%)
Query: 21 VYNHYKRLFLLKSKNIYL--EKSN-ILLVGPTGCGKTLMVKTLAKIIN---VPIIVVDAT 74
VY +L ++K + L +K N ILLVG G GKT LA+ I + ++ A
Sbjct: 77 VYEELVKLLGEEAKKLELNPKKQNVILLVGIQGSGKTTTAAKLARYIQKRGLKPALIAAD 136
Query: 75 SFTEAGY 81
++ A Y
Sbjct: 137 TYRPAAY 143
>pdb|4HSE|A Chain A, Crystal Structure Of Clpb Nbd1 In Complex With
Guanidinium Chloride And Adp
Length = 397
Score = 26.9 bits (58), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 21/31 (67%), Gaps = 3/31 (9%)
Query: 40 KSNILLVGPTGCGKTLMVKTLAKII---NVP 67
K+N +L+G G GKT +V+ LA+ I +VP
Sbjct: 54 KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVP 84
>pdb|2PJZ|A Chain A, The Crystal Structure Of Putative Cobalt Transport Atp-
Binding Protein (cbio-2), St1066
Length = 263
Score = 26.9 bits (58), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 11/40 (27%), Positives = 27/40 (67%), Gaps = 1/40 (2%)
Query: 25 YKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLAKII 64
Y+R F L++ N+ + ++++GP G GKT +++ ++ ++
Sbjct: 16 YER-FSLENINLEVNGEKVIILGPNGSGKTTLLRAISGLL 54
>pdb|3BB1|A Chain A, Crystal Structure Of Toc34 From Pisum Sativum In Complex
With Mg2+ And Gmppnp
pdb|3BB1|B Chain B, Crystal Structure Of Toc34 From Pisum Sativum In Complex
With Mg2+ And Gmppnp
pdb|3BB1|C Chain C, Crystal Structure Of Toc34 From Pisum Sativum In Complex
With Mg2+ And Gmppnp
pdb|3BB1|D Chain D, Crystal Structure Of Toc34 From Pisum Sativum In Complex
With Mg2+ And Gmppnp
pdb|3BB1|E Chain E, Crystal Structure Of Toc34 From Pisum Sativum In Complex
With Mg2+ And Gmppnp
pdb|3BB1|F Chain F, Crystal Structure Of Toc34 From Pisum Sativum In Complex
With Mg2+ And Gmppnp
pdb|3BB1|G Chain G, Crystal Structure Of Toc34 From Pisum Sativum In Complex
With Mg2+ And Gmppnp
pdb|3BB1|H Chain H, Crystal Structure Of Toc34 From Pisum Sativum In Complex
With Mg2+ And Gmppnp
Length = 274
Score = 26.9 bits (58), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 22/95 (23%), Positives = 43/95 (45%), Gaps = 28/95 (29%)
Query: 43 ILLVGPTGCGKTLMVKTL--AKIINV---------PIIV-----------VDATSFTEAG 80
IL++G G GK+ V ++ +++++ P++V +D E G
Sbjct: 42 ILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAGFTLNIIDTPGLIEGG 101
Query: 81 YVGDDVESIIQKLLHECDYDVELAEQSIIYIDEID 115
Y+ D +II+ L + DV ++Y+D +D
Sbjct: 102 YINDMALNIIKSFLLDKTIDV------LLYVDRLD 130
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
0.317 0.138 0.380
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,474,541
Number of Sequences: 62578
Number of extensions: 254559
Number of successful extensions: 1241
Number of sequences better than 100.0: 132
Number of HSP's better than 100.0 without gapping: 68
Number of HSP's successfully gapped in prelim test: 64
Number of HSP's that attempted gapping in prelim test: 1104
Number of HSP's gapped (non-prelim): 164
length of query: 225
length of database: 14,973,337
effective HSP length: 95
effective length of query: 130
effective length of database: 9,028,427
effective search space: 1173695510
effective search space used: 1173695510
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: 50 (23.9 bits)