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= 040463
(192 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 43.5 bits (101), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 47/175 (26%), Positives = 78/175 (44%), Gaps = 33/175 (18%)
Query: 13 LERFVKRKEFYRNVGRAWKRGYLLYSPPRTGKSSLTAAMANYLN---FDVCDLELTTLRD 69
+E VK E + ++G A +G +LY PP TGK+ L A+A++ + V EL
Sbjct: 164 IELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKFIRVSGAELVQKYI 223
Query: 70 NTKLRNV----LIATENK-SILAVEDIDCSINLQGRHSQAKTLNPVNSNAIKPVTNVNQE 124
R V ++A E+ SI+ +++ID + S ++ + E
Sbjct: 224 GEGSRMVRELFVMAREHAPSIIFMDEIDS----------------IGSTRVEGSGGGDSE 267
Query: 125 PKVTLSGLLNFIDGVCRAVEMRGSQYSQLIIKT---DLTLNLLLRPGCMDMHIHM 176
+ T+ LLN +DG S+ ++I+ T D+ LLRPG +D I
Sbjct: 268 VQRTMLELLNQLDG------FETSKNIKIIMATNRLDILDPALLRPGRIDRKIEF 316
>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 = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 43/172 (25%), Positives = 76/172 (44%), Gaps = 35/172 (20%)
Query: 16 FVKRKEFYRNVGRAWKRGYLLYSPPRTGKSSLTAAMANYLNFDVCD------LELTTLRD 69
F+K E Y N+G +G LL PP TGK+ L A+A + +E+
Sbjct: 29 FLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIEMFVGLG 88
Query: 70 NTKLRNVLIATENK--SILAVEDIDCSINLQGRHSQAKTLNPVNSNAIKPVTNVNQEPKV 127
+++R++ + + SI+ +++ID G+ S A V + N E +
Sbjct: 89 ASRVRDLFETAKKQAPSIIFIDEIDAI----GK-----------SRAAGGVVSGNDEREQ 133
Query: 128 TLSGLLNFIDGVCRAVEMRGSQYSQLII-----KTDLTLNLLLRPGCMDMHI 174
TL+ LL +DG GS+ + +I+ + ++ L+RPG D +
Sbjct: 134 TLNQLLAEMDGF-------GSENAPVIVLAATNRPEILDPALMRPGRFDRQV 178
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 42/167 (25%), Positives = 74/167 (44%), Gaps = 33/167 (19%)
Query: 21 EFYRNVGRAWKRGYLLYSPPRTGKSSLTAAMAN-----YLNFDVCDLELTTLRDNTKL-R 74
+ Y +G RG LLY PP TGK+ L A+AN ++ + + L + ++ R
Sbjct: 196 DLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGSEFVHKYLGEGPRMVR 255
Query: 75 NVL-IATENK-SILAVEDIDCSINLQGRHSQAKTLNPVNSNAIKPVTNVNQEPKVTLSGL 132
+V +A EN SI+ ++++D + + T ++E + L L
Sbjct: 256 DVFRLARENAPSIIFIDEVDS----------------IATKRFDAQTGSDREVQRILIEL 299
Query: 133 LNFIDGVCRAVEMRGSQYSQLIIKTDLTLNL---LLRPGCMDMHIHM 176
L +DG ++ ++ +I+ T+ L LLRPG +D I
Sbjct: 300 LTQMDGFDQSTNVK------VIMATNRADTLDPALLRPGRLDRKIEF 340
>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b
Length = 322
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 27/71 (38%), Positives = 40/71 (56%), Gaps = 9/71 (12%)
Query: 32 RGYLLYSPPRTGKSSLTAAMA------NYLNFDVCDLELTTLRDNTKL-RNVL-IATENK 83
RG LL+ PP TGKS L A+A + + DL L ++ KL +N+ +A ENK
Sbjct: 46 RGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENK 105
Query: 84 -SILAVEDIDC 93
SI+ +++ID
Sbjct: 106 PSIIFIDEIDS 116
>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 30/101 (29%), Positives = 52/101 (51%), Gaps = 9/101 (8%)
Query: 1 MDSNMKHMKMDDLERFVKRKEFYRNVGRAWKRGYLLYSPPRTGKSSLTAAMAN-----YL 55
++S ++ +K + +E + E Y +G +G +LY P TGK+ L A+AN +L
Sbjct: 187 LESQIQEIK-ESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATFL 245
Query: 56 NFDVCDLELTTLRDNTKL-RNVL-IATEN-KSILAVEDIDC 93
+L L D +L R + +A EN SI+ +++ID
Sbjct: 246 RIVGSELIQKYLGDGPRLCRQIFKVAGENAPSIVFIDEIDA 286
>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 = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 27/71 (38%), Positives = 40/71 (56%), Gaps = 9/71 (12%)
Query: 32 RGYLLYSPPRTGKSSLTAAMA------NYLNFDVCDLELTTLRDNTKL-RNVL-IATENK 83
RG LL+ PP TGKS L A+A + + DL L ++ KL +N+ +A ENK
Sbjct: 168 RGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENK 227
Query: 84 -SILAVEDIDC 93
SI+ +++ID
Sbjct: 228 PSIIFIDEIDS 238
>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
Length = 331
Score = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 41/76 (53%), Gaps = 8/76 (10%)
Query: 33 GYLLYSPPRTGKSSLTAAMANYLN---FDVCDLELTT--LRDNTKLRNVL--IATENK-S 84
G LLY PP TGKS L A+A N F V +L + + ++ KL L +A ENK S
Sbjct: 62 GILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPS 121
Query: 85 ILAVEDIDCSINLQGR 100
I+ ++++D +G
Sbjct: 122 IIFIDEVDALTGTRGE 137
>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 = 37.4 bits (85), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 31/56 (55%), Gaps = 1/56 (1%)
Query: 1 MDSNMKHMKMDDLERFVKRKEFYRNVGRAWKRGYLLYSPPRTGKSSLTAAMANYLN 56
++ M+ ++ + +E +K E + VG +G LLY PP TGK+ L A+A N
Sbjct: 22 LEKQMQEIR-EVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETN 76
>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 = 37.0 bits (84), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 40/76 (52%), Gaps = 8/76 (10%)
Query: 33 GYLLYSPPRTGKSSLTAAMANYLN---FDVCDLELTT--LRDNTKLRNVL--IATENK-S 84
G LLY PP TGKS L A+A N F V +L + + ++ KL L +A ENK S
Sbjct: 86 GILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPS 145
Query: 85 ILAVEDIDCSINLQGR 100
I+ ++ +D +G
Sbjct: 146 IIFIDQVDALTGTRGE 161
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 37.0 bits (84), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 42/174 (24%), Positives = 73/174 (41%), Gaps = 17/174 (9%)
Query: 13 LERFVKRKEFYRNVGRAWKRGYLLYSPPRTGKSSLTAAMANYLNFDVCDLELTTLRDNTK 72
+E +K E ++ VG +G LLY PP TGK+ L A+A + + + + D
Sbjct: 197 IELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANFIFSPASGIVDKYI 256
Query: 73 LRNVLIATENKSILAVEDIDCSINLQGRHSQAKTLNPVNSNAIKPVTNVNQEPKVTLSGL 132
+ I E + A E C I + ++ + T+ ++E + TL L
Sbjct: 257 GESARIIREMFA-YAKEHEPCIIFMD-------EVDAIGGRRFSEGTSADREIQRTLMEL 308
Query: 133 LNFIDGVCRAVEMRGSQYSQLIIKTDLTLNL---LLRPGCMDMHIHMSYCTPCG 183
L +DG + +++I+ T+ L LLRPG +D + + G
Sbjct: 309 LTQMDGFDNLGQ------TKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAG 356
>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
State
Length = 322
Score = 36.6 bits (83), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 40/76 (52%), Gaps = 8/76 (10%)
Query: 33 GYLLYSPPRTGKSSLTAAMANYLN---FDVCDLELTT--LRDNTKLRNVL--IATENK-S 84
G LLY PP TGKS L A+A N F V +L + + ++ KL L +A ENK S
Sbjct: 53 GILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPS 112
Query: 85 ILAVEDIDCSINLQGR 100
I+ ++ +D +G
Sbjct: 113 IIFIDQVDALTGTRGE 128
>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 = 36.6 bits (83), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 40/76 (52%), Gaps = 8/76 (10%)
Query: 33 GYLLYSPPRTGKSSLTAAMANYLN---FDVCDLELTT--LRDNTKLRNVL--IATENK-S 84
G LLY PP TGKS L A+A N F V +L + + ++ KL L +A ENK S
Sbjct: 71 GILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPS 130
Query: 85 ILAVEDIDCSINLQGR 100
I+ ++ +D +G
Sbjct: 131 IIFIDQVDALTGTRGE 146
>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 = 36.2 bits (82), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 45/180 (25%), Positives = 74/180 (41%), Gaps = 39/180 (21%)
Query: 9 KMDDLERFVKRKEFYRNVGRAWKRGYLLYSPPRTGKSSLTAAMANYLN---FDVCD---L 62
++ ++ F+K + +G +G LL PP TGK+ L A+A N F + +
Sbjct: 27 ELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFV 86
Query: 63 ELTTLRDNTKLRNVLIATENKS--ILAVEDIDCSINLQGRHSQAKTLNPVNSNAIKPVTN 120
EL ++R++ + + I+ +++ID GRH A +
Sbjct: 87 ELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAV----GRHRGAG------------LGG 130
Query: 121 VNQEPKVTLSGLLNFIDGVCRAVEMRGSQYSQLII------KTDLTLNLLLRPGCMDMHI 174
+ E + TL+ LL VEM G + II + D+ LLRPG D I
Sbjct: 131 GHDEREQTLNQLL---------VEMDGFDSKEGIIVMAATNRPDILDPALLRPGRFDKKI 181
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 35.8 bits (81), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 27/99 (27%), Positives = 44/99 (44%), Gaps = 11/99 (11%)
Query: 19 RKEFYRNVGRAWKRGYLLYSPPRTGKSSLTAAM-----ANYLNFDVCDLELTTLRDNTKL 73
R E + + RA RG LL+ PP GK+ L A+ A + N L + + KL
Sbjct: 137 RPELFTGL-RAPARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKL 195
Query: 74 RNVLIATENK---SILAVEDIDCSI--NLQGRHSQAKTL 107
L A + SI+ ++ +D + +G H ++ L
Sbjct: 196 VRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRL 234
>pdb|3B9P|A Chain A, Spastin
Length = 297
Score = 35.4 bits (80), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 38/82 (46%), Gaps = 9/82 (10%)
Query: 19 RKEFYRNVGRAWKRGYLLYSPPRTGKSSLTAAM-----ANYLNFDVCDLELTTLRDNTKL 73
R E + + RA +G LL+ PP GK+ L A+ A +LN L + D KL
Sbjct: 43 RPELFTGL-RAPAKGLLLFGPPGNGKTLLARAVATECSATFLNISAASLTSKYVGDGEKL 101
Query: 74 RNVLIATE---NKSILAVEDID 92
L A SI+ ++++D
Sbjct: 102 VRALFAVARHMQPSIIFIDEVD 123
>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 = 35.0 bits (79), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 20/32 (62%)
Query: 22 FYRNVGRAWKRGYLLYSPPRTGKSSLTAAMAN 53
++ +G RG LLY PP TGK+ + A+AN
Sbjct: 229 LFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
>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 = 35.0 bits (79), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 20/32 (62%)
Query: 22 FYRNVGRAWKRGYLLYSPPRTGKSSLTAAMAN 53
++ +G RG LLY PP TGK+ + A+AN
Sbjct: 229 LFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
>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 = 35.0 bits (79), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 20/32 (62%)
Query: 22 FYRNVGRAWKRGYLLYSPPRTGKSSLTAAMAN 53
++ +G RG LLY PP TGK+ + A+AN
Sbjct: 229 LFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
>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 = 35.0 bits (79), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 20/32 (62%)
Query: 22 FYRNVGRAWKRGYLLYSPPRTGKSSLTAAMAN 53
++ +G RG LLY PP TGK+ + A+AN
Sbjct: 229 LFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 34.7 bits (78), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 20/32 (62%)
Query: 22 FYRNVGRAWKRGYLLYSPPRTGKSSLTAAMAN 53
++ +G RG LLY PP TGK+ + A+AN
Sbjct: 229 LFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
Score = 29.3 bits (64), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 19/37 (51%)
Query: 17 VKRKEFYRNVGRAWKRGYLLYSPPRTGKSSLTAAMAN 53
V+ + + G +G L Y PP GK+ L A+AN
Sbjct: 497 VEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN 533
>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 = 34.7 bits (78), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 20/32 (62%)
Query: 22 FYRNVGRAWKRGYLLYSPPRTGKSSLTAAMAN 53
++ +G RG LLY PP TGK+ + A+AN
Sbjct: 229 LFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
Score = 29.3 bits (64), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 19/37 (51%)
Query: 17 VKRKEFYRNVGRAWKRGYLLYSPPRTGKSSLTAAMAN 53
V+ + + G +G L Y PP GK+ L A+AN
Sbjct: 497 VEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN 533
>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 = 34.3 bits (77), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 44/180 (24%), Positives = 73/180 (40%), Gaps = 39/180 (21%)
Query: 9 KMDDLERFVKRKEFYRNVGRAWKRGYLLYSPPRTGKSSLTAAMANYLN---FDVCD---L 62
++ ++ F+K + +G +G LL PP TG + L A+A N F + +
Sbjct: 27 ELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGATLLARAVAGEANVPFFHISGSDFV 86
Query: 63 ELTTLRDNTKLRNVLIATENKS--ILAVEDIDCSINLQGRHSQAKTLNPVNSNAIKPVTN 120
EL ++R++ + + I+ +++ID GRH A +
Sbjct: 87 ELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAV----GRHRGAG------------LGG 130
Query: 121 VNQEPKVTLSGLLNFIDGVCRAVEMRGSQYSQLII------KTDLTLNLLLRPGCMDMHI 174
+ E + TL+ LL VEM G + II + D+ LLRPG D I
Sbjct: 131 GHDEREQTLNQLL---------VEMDGFDSKEGIIVMAATNRPDILDPALLRPGRFDKKI 181
>pdb|1SXJ|A Chain A, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 516
Score = 34.3 bits (77), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 37/72 (51%), Gaps = 2/72 (2%)
Query: 32 RGYLLYSPPRTGKSSLTAAMANYLNFDVCDLELTTLRDNTKLR-NVLIATENKSILA-VE 89
R +LY PP GK++ +A L +D+ + + +R T L V A +N S++ +
Sbjct: 78 RAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFK 137
Query: 90 DIDCSINLQGRH 101
+ + NL G+H
Sbjct: 138 HNEEAQNLNGKH 149
>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 33.5 bits (75), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 24/40 (60%)
Query: 17 VKRKEFYRNVGRAWKRGYLLYSPPRTGKSSLTAAMANYLN 56
+KR + ++++G +G L+Y PP TGK+ L A A N
Sbjct: 201 MKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTN 240
>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 = 32.7 bits (73), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 36/66 (54%), Gaps = 7/66 (10%)
Query: 8 MKMDDLERFVKRKEFY---RNVGRAWKRGYL----LYSPPRTGKSSLTAAMANYLNFDVC 60
M+ ++L +++ ++ + + RA + G+L L+ PP TGK++L +A Y N DV
Sbjct: 20 MRPENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYANADVE 79
Query: 61 DLELTT 66
+ T
Sbjct: 80 RISAVT 85
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 32.3 bits (72), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 40/175 (22%), Positives = 68/175 (38%), Gaps = 39/175 (22%)
Query: 16 FVKRKEFYRNVGRAWKRGYLLYSPPRTGKSSLTAAMAN-----YLNFDVCD-LELTTLRD 69
F+K + +G +G LL PP GK+ L A+A ++ D +E+
Sbjct: 58 FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVG 117
Query: 70 NTKLRNVLIATENKS--ILAVEDIDCSINLQGRHSQAKTLNPVNSNAIKPVTNVNQEPKV 127
++R++ + + I+ +++ID +G V N E +
Sbjct: 118 AARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSG----------------VGGGNDEREQ 161
Query: 128 TLSGLLNFIDGVCRAVEMRGSQYSQLII------KTDLTLNLLLRPGCMDMHIHM 176
TL+ LL VEM G + I+ + D+ LLRPG D I +
Sbjct: 162 TLNQLL---------VEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAI 207
>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 = 32.0 bits (71), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 40/175 (22%), Positives = 68/175 (38%), Gaps = 39/175 (22%)
Query: 16 FVKRKEFYRNVGRAWKRGYLLYSPPRTGKSSLTAAMAN-----YLNFDVCD-LELTTLRD 69
F+K + +G +G LL PP GK+ L A+A ++ D +E+
Sbjct: 34 FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVG 93
Query: 70 NTKLRNVLIATENKS--ILAVEDIDCSINLQGRHSQAKTLNPVNSNAIKPVTNVNQEPKV 127
++R++ + + I+ +++ID +G V N E +
Sbjct: 94 AARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSG----------------VGGGNDEREQ 137
Query: 128 TLSGLLNFIDGVCRAVEMRGSQYSQLII------KTDLTLNLLLRPGCMDMHIHM 176
TL+ LL VEM G + I+ + D+ LLRPG D I +
Sbjct: 138 TLNQLL---------VEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAI 183
>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 = 31.2 bits (69), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 40/173 (23%), Positives = 67/173 (38%), Gaps = 39/173 (22%)
Query: 16 FVKRKEFYRNVGRAWKRGYLLYSPPRTGKSSLTAAMAN-----YLNFDVCD-LELTTLRD 69
F+K + +G +G LL PP GK+ L A+A ++ D +E+
Sbjct: 58 FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVG 117
Query: 70 NTKLRNVLIATENKS--ILAVEDIDCSINLQGRHSQAKTLNPVNSNAIKPVTNVNQEPKV 127
++R++ + + I+ +++ID +G V N E +
Sbjct: 118 AARVRDLFETAKRHAPCIVFIDEIDAVGRKRG----------------SGVGGGNDEREQ 161
Query: 128 TLSGLLNFIDGVCRAVEMRGSQYSQLII------KTDLTLNLLLRPGCMDMHI 174
TL+ LL VEM G + I+ + D+ LLRPG D I
Sbjct: 162 TLNQLL---------VEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQI 205
>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp
Length = 262
Score = 31.2 bits (69), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 39/179 (21%), Positives = 73/179 (40%), Gaps = 38/179 (21%)
Query: 16 FVKRKEFYRNVGRAWKRGYLLYSPPRTGKSSLTAAMAN-----YLNFDVCD-LELTTLRD 69
++K E + +G +G LL PP GK+ L A+A +L + +E+
Sbjct: 24 YLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIGGLG 83
Query: 70 NTKLRNVLIATENKS--ILAVEDIDCSINLQGRHSQAKTLNPVNSNAIKPVTNVNQEPKV 127
++R++ ++ I+ +++ID + S + +N +E
Sbjct: 84 AARVRSLFKEARARAPCIVYIDEIDA-------------VGKKRSTTMSGFSNTEEEQ-- 128
Query: 128 TLSGLLNFIDGVCRAVEMRGSQYSQLII------KTDLTLNLLLRPGCMDMHIHMSYCT 180
TL+ LL VEM G + +I + D+ L+RPG +D H+ + T
Sbjct: 129 TLNQLL---------VEMDGMGTTDHVIVLASTNRADILDGALMRPGRLDRHVFIDLPT 178
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 31.2 bits (69), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 38/177 (21%), Positives = 74/177 (41%), Gaps = 39/177 (22%)
Query: 12 DLERFVKRKEFYRNVGRAWKRGYLLYSPPRTGKSSLTAAMAN-----YLNFDVCD-LELT 65
+L +++ ++ +G +G L+ PP TGK+ L A+A + D +E+
Sbjct: 26 ELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMF 85
Query: 66 TLRDNTKLRNVLIATENKS--ILAVEDIDCSINLQGRHSQAKTLNPVNSNAIKPVTNVNQ 123
+++R++ + + I+ +++ID GR A + +
Sbjct: 86 VGVGASRVRDMFEQAKKAAPCIIFIDEIDAV----GRQRGAG------------LGGGHD 129
Query: 124 EPKVTLSGLLNFIDGVCRAVEMRGSQYSQLII------KTDLTLNLLLRPGCMDMHI 174
E + TL+ +L VEM G + ++ II + D+ LLRPG D +
Sbjct: 130 EREQTLNQML---------VEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQV 177
>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 = 31.2 bits (69), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 40/173 (23%), Positives = 67/173 (38%), Gaps = 39/173 (22%)
Query: 16 FVKRKEFYRNVGRAWKRGYLLYSPPRTGKSSLTAAMAN-----YLNFDVCD-LELTTLRD 69
F+K + +G +G LL PP GK+ L A+A ++ D +E+
Sbjct: 49 FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVG 108
Query: 70 NTKLRNVLIATENKS--ILAVEDIDCSINLQGRHSQAKTLNPVNSNAIKPVTNVNQEPKV 127
++R++ + + I+ +++ID +G V N E +
Sbjct: 109 AARVRDLFETAKRHAPCIVFIDEIDAVGRKRG----------------SGVGGGNDEREQ 152
Query: 128 TLSGLLNFIDGVCRAVEMRGSQYSQLII------KTDLTLNLLLRPGCMDMHI 174
TL+ LL VEM G + I+ + D+ LLRPG D I
Sbjct: 153 TLNQLL---------VEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQI 196
>pdb|1T8P|A Chain A, Crystal Structure Of Human Erythrocyte 2,3-
Bisphosphoglycerate Mutase
pdb|1T8P|B Chain B, Crystal Structure Of Human Erythrocyte 2,3-
Bisphosphoglycerate Mutase
pdb|2A9J|A Chain A, Human Bisphosphoglycerate Mutase Complexed With 3-
Phosphoglycerate (17 Days)
pdb|2A9J|B Chain B, Human Bisphosphoglycerate Mutase Complexed With 3-
Phosphoglycerate (17 Days)
pdb|2F90|A Chain A, Crystal Structure Of Bisphosphoglycerate Mutase In Complex
With 3-Phosphoglycerate And Alf4-
pdb|2F90|B Chain B, Crystal Structure Of Bisphosphoglycerate Mutase In Complex
With 3-Phosphoglycerate And Alf4-
pdb|2H4X|A Chain A, Human Bisphosphoglycerate Mutase Complex With 3-
Phosphoglycerate With Crystal Growth 90 Days
pdb|2H4X|B Chain B, Human Bisphosphoglycerate Mutase Complex With 3-
Phosphoglycerate With Crystal Growth 90 Days
pdb|2H4Z|A Chain A, Human Bisphosphoglycerate Mutase Complexed With 2,3-
Bisphosphoglycerate
pdb|2H4Z|B Chain B, Human Bisphosphoglycerate Mutase Complexed With 2,3-
Bisphosphoglycerate
pdb|2H52|A Chain A, Crystal Structure Of Human Bisphosphoglycerate Mutase
Complex With 3-Phosphoglycerate (18 Days)
pdb|2H52|B Chain B, Crystal Structure Of Human Bisphosphoglycerate Mutase
Complex With 3-Phosphoglycerate (18 Days)
pdb|3NFY|A Chain A, The Structure Of Human Bisphosphoglycerate Mutase To 1.94a
pdb|3NFY|B Chain B, The Structure Of Human Bisphosphoglycerate Mutase To 1.94a
Length = 267
Score = 30.0 bits (66), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 23/50 (46%)
Query: 28 RAWKRGYLLYSPPRTGKSSLTAAMANYLNFDVCDLELTTLRDNTKLRNVL 77
R W+R Y + PP + N + VCD+ L L + L++VL
Sbjct: 113 RLWRRSYNVTPPPIEESHPYYQEIYNDRRYKVCDVPLDQLPRSESLKDVL 162
>pdb|2HHJ|A Chain A, Human Bisphosphoglycerate Mutase Complexed With 2,3-
Bisphosphoglycerate (15 Days)
pdb|2HHJ|B Chain B, Human Bisphosphoglycerate Mutase Complexed With 2,3-
Bisphosphoglycerate (15 Days)
Length = 267
Score = 30.0 bits (66), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 23/50 (46%)
Query: 28 RAWKRGYLLYSPPRTGKSSLTAAMANYLNFDVCDLELTTLRDNTKLRNVL 77
R W+R Y + PP + N + VCD+ L L + L++VL
Sbjct: 113 RLWRRSYNVTPPPIEESHPYYQEIYNDRRYKVCDVPLDQLPRSESLKDVL 162
>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 = 30.0 bits (66), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 17/80 (21%), Positives = 38/80 (47%), Gaps = 8/80 (10%)
Query: 28 RAWKRGYLLYSPPRTGKSSL-----TAAMANYLNFDVCDLELTTLRDNTKLRNVLIAT-- 80
R +G LL+ PP TGK+ + + + A + + L + + K+ L A
Sbjct: 114 RGPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSKWVGEGEKMVRALFAVAR 173
Query: 81 -ENKSILAVEDIDCSINLQG 99
+ +++ +++ID ++ +G
Sbjct: 174 CQQPAVIFIDEIDSLLSQRG 193
>pdb|1NSF|A Chain A, D2 Hexamerization Domain Of N-Ethylmaleimide Sensitive
Factor (Nsf)
Length = 273
Score = 29.3 bits (64), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 10 MDDLERFVKRKEFYRNVGRAWKRGYLLYSPPRTGKSSLTAAMANYLNF 57
+DD E V++ +N R LL PP +GK++L A +A NF
Sbjct: 45 LDDGELLVQQT---KNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNF 89
>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 467
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%)
Query: 21 EFYRNVGRAWKRGYLLYSPPRTGKSSLTAAMAN 53
E + +G +G LLY PP TGK+ A+AN
Sbjct: 233 ERFATLGIDPPKGILLYGPPGTGKTLCARAVAN 265
>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 = 28.9 bits (63), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 19/37 (51%)
Query: 17 VKRKEFYRNVGRAWKRGYLLYSPPRTGKSSLTAAMAN 53
V+ + + G +G L Y PP GK+ L A+AN
Sbjct: 35 VEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN 71
>pdb|1D2N|A Chain A, D2 Domain Of N-Ethylmaleimide-Sensitive Fusion Protein
Length = 272
Score = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 10 MDDLERFVKRKEFYRNVGRAWKRGYLLYSPPRTGKSSLTAAMANYLNF 57
+DD E V++ +N R LL PP +GK++L A +A NF
Sbjct: 46 LDDGELLVQQT---KNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNF 90
>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C-
Terminal Aaa-Atpase Domain
Length = 274
Score = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 2/43 (4%)
Query: 17 VKRKEFYRNVGRAWKRGYLLYSPPRTGKSSLTAAMANY--LNF 57
V+ + ++ +G G LL PP GK+ L A+AN LNF
Sbjct: 30 VRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGLNF 72
>pdb|2QGZ|A Chain A, Crystal Structure Of A Putative Primosome Component From
Streptococcus Pyogenes Serotype M3. Northeast Structural
Genomics Target Dr58
Length = 308
Score = 28.1 bits (61), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 23/92 (25%), Positives = 39/92 (42%), Gaps = 11/92 (11%)
Query: 13 LERFVKRKEFYRNVGRAWKRGYLLYSPPRTGKSSLTAAMAN-----------YLNFDVCD 61
+E F +F A ++G LY GKS L AAMA+ L+F
Sbjct: 134 MEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHFPSFA 193
Query: 62 LELTTLRDNTKLRNVLIATENKSILAVEDIDC 93
+++ N ++ + A +N +L ++DI
Sbjct: 194 IDVKNAISNGSVKEEIDAVKNVPVLILDDIGA 225
>pdb|1IN7|A Chain A, Thermotoga Maritima Ruvb R170a
Length = 334
Score = 27.3 bits (59), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 21/99 (21%), Positives = 45/99 (45%), Gaps = 9/99 (9%)
Query: 2 DSNMKHMKMDDLERFVKRKEFYRNVGRAWK----RG-----YLLYSPPRTGKSSLTAAMA 52
DS ++ ++ L+ F+ ++ + + A + RG LL PP GK++L +A
Sbjct: 13 DSGVQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIA 72
Query: 53 NYLNFDVCDLELTTLRDNTKLRNVLIATENKSILAVEDI 91
+ L ++ L + +L + E +L +++I
Sbjct: 73 SELQTNIHVTSGPVLVKQGDMAAILTSLERGDVLFIDEI 111
>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 = 27.3 bits (59), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 20/36 (55%)
Query: 21 EFYRNVGRAWKRGYLLYSPPRTGKSSLTAAMANYLN 56
E ++ V + L+ P +GKS+ AAM +YLN
Sbjct: 113 EVFKRVSDVPRGLVLVTGPTGSGKSTTLAAMLDYLN 148
>pdb|1IN5|A Chain A, Thermogota Maritima Ruvb A156s Mutant
Length = 334
Score = 27.3 bits (59), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 21/99 (21%), Positives = 45/99 (45%), Gaps = 9/99 (9%)
Query: 2 DSNMKHMKMDDLERFVKRKEFYRNVGRAWK----RG-----YLLYSPPRTGKSSLTAAMA 52
DS ++ ++ L+ F+ ++ + + A + RG LL PP GK++L +A
Sbjct: 13 DSGVQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIA 72
Query: 53 NYLNFDVCDLELTTLRDNTKLRNVLIATENKSILAVEDI 91
+ L ++ L + +L + E +L +++I
Sbjct: 73 SELQTNIHVTSGPVLVKQGDMAAILTSLERGDVLFIDEI 111
>pdb|1IN4|A Chain A, Thermotoga Maritima Ruvb Holliday Junction Branch
Migration Motor
Length = 334
Score = 27.3 bits (59), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 21/99 (21%), Positives = 45/99 (45%), Gaps = 9/99 (9%)
Query: 2 DSNMKHMKMDDLERFVKRKEFYRNVGRAWK----RG-----YLLYSPPRTGKSSLTAAMA 52
DS ++ ++ L+ F+ ++ + + A + RG LL PP GK++L +A
Sbjct: 13 DSGVQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIA 72
Query: 53 NYLNFDVCDLELTTLRDNTKLRNVLIATENKSILAVEDI 91
+ L ++ L + +L + E +L +++I
Sbjct: 73 SELQTNIHVTSGPVLVKQGDMAAILTSLERGDVLFIDEI 111
>pdb|1IN8|A Chain A, Thermotoga Maritima Ruvb T158v
Length = 334
Score = 27.3 bits (59), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 21/99 (21%), Positives = 45/99 (45%), Gaps = 9/99 (9%)
Query: 2 DSNMKHMKMDDLERFVKRKEFYRNVGRAWK----RG-----YLLYSPPRTGKSSLTAAMA 52
DS ++ ++ L+ F+ ++ + + A + RG LL PP GK++L +A
Sbjct: 13 DSGVQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIA 72
Query: 53 NYLNFDVCDLELTTLRDNTKLRNVLIATENKSILAVEDI 91
+ L ++ L + +L + E +L +++I
Sbjct: 73 SELQTNIHVTSGPVLVKQGDMAAILTSLERGDVLFIDEI 111
>pdb|1J7K|A Chain A, Thermotoga Maritima Ruvb P216g Mutant
Length = 334
Score = 27.3 bits (59), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 21/99 (21%), Positives = 45/99 (45%), Gaps = 9/99 (9%)
Query: 2 DSNMKHMKMDDLERFVKRKEFYRNVGRAWK----RG-----YLLYSPPRTGKSSLTAAMA 52
DS ++ ++ L+ F+ ++ + + A + RG LL PP GK++L +A
Sbjct: 13 DSGVQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIA 72
Query: 53 NYLNFDVCDLELTTLRDNTKLRNVLIATENKSILAVEDI 91
+ L ++ L + +L + E +L +++I
Sbjct: 73 SELQTNIHVTSGPVLVKQGDMAAILTSLERGDVLFIDEI 111
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
0.321 0.134 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,159,155
Number of Sequences: 62578
Number of extensions: 179887
Number of successful extensions: 509
Number of sequences better than 100.0: 46
Number of HSP's better than 100.0 without gapping: 36
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 470
Number of HSP's gapped (non-prelim): 49
length of query: 192
length of database: 14,973,337
effective HSP length: 93
effective length of query: 99
effective length of database: 9,153,583
effective search space: 906204717
effective search space used: 906204717
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 49 (23.5 bits)