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= 048723
(236 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 44.3 bits (103), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 31/49 (63%)
Query: 44 KSTMIAAMANFLNYDLVGEKGIVFTTNYVDKLDPALIRRGRMDKRIEMS 92
+ T++ + +D +G+ I+ TN D LDPAL+R GR+D+++E+
Sbjct: 302 QRTLMELLTQMDGFDNLGQTKIIMATNRPDTLDPALLRPGRLDRKVEIP 350
Score = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 27/48 (56%), Gaps = 2/48 (4%)
Query: 21 EYCAKIGKAWKRGYLLYGPPGTGKSTMIAAMANFL--NYDLVGEKGIV 66
E ++G +G LLYGPPGTGK+ + A+A + N+ GIV
Sbjct: 205 EIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANFIFSPASGIV 252
>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 467
Score = 43.9 bits (102), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 36/66 (54%), Gaps = 4/66 (6%)
Query: 44 KSTMIAAMANFLNYDLVGEKGIVFTTNYVDKLDPALIRRGRMDKRIEMSYCCFEA----F 99
+ TM+ + +D G ++F TN + LDPAL+R GR+D+++E S E F
Sbjct: 330 QRTMLELITQLDGFDPRGNIKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIF 389
Query: 100 MVLAKS 105
+ +KS
Sbjct: 390 RIHSKS 395
Score = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 26/52 (50%)
Query: 21 EYCAKIGKAWKRGYLLYGPPGTGKSTMIAAMANFLNYDLVGEKGIVFTTNYV 72
E A +G +G LLYGPPGTGK+ A+AN + + G YV
Sbjct: 233 ERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATFIRVIGSELVQKYV 284
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/57 (38%), Positives = 32/57 (56%), Gaps = 1/57 (1%)
Query: 25 KIGKAWKRGYLLYGPPGTGKSTMIAAMANFLNYDLVGEKGIVFTTNYVDKLDPALIR 81
+IG RG LLYGPPGTGK+ ++ A+AN + G F Y+ + P ++R
Sbjct: 200 QIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGSEFVHKYLGE-GPRMVR 255
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 26/47 (55%)
Query: 44 KSTMIAAMANFLNYDLVGEKGIVFTTNYVDKLDPALIRRGRMDKRIE 90
+ +I + +D ++ TN D LDPAL+R GR+D++IE
Sbjct: 293 QRILIELLTQMDGFDQSTNVKVIMATNRADTLDPALLRPGRLDRKIE 339
>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 29/46 (63%)
Query: 44 KSTMIAAMANFLNYDLVGEKGIVFTTNYVDKLDPALIRRGRMDKRI 89
+ TM+ + +D G+ ++ TN ++ LDPALIR GR+D++I
Sbjct: 303 QRTMLELLNQLDGFDDRGDVKVIMATNKIETLDPALIRPGRIDRKI 348
Score = 32.3 bits (72), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 21/33 (63%)
Query: 21 EYCAKIGKAWKRGYLLYGPPGTGKSTMIAAMAN 53
E ++G +G +LYG PGTGK+ + A+AN
Sbjct: 206 ELYEEMGIKPPKGVILYGAPGTGKTLLAKAVAN 238
>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 = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 34/64 (53%)
Query: 29 AWKRGYLLYGPPGTGKSTMIAAMANFLNYDLVGEKGIVFTTNYVDKLDPALIRRGRMDKR 88
A KR L G + T++ +A +D G+ I+ TN D LDPA++R GR D+
Sbjct: 123 AAKRTDALTGGDREVQRTLMQLLAEMDGFDARGDVKIIGATNRPDILDPAILRPGRFDRI 182
Query: 89 IEMS 92
IE+
Sbjct: 183 IEVP 186
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 26/52 (50%)
Query: 21 EYCAKIGKAWKRGYLLYGPPGTGKSTMIAAMANFLNYDLVGEKGIVFTTNYV 72
E K+G +G LLYGPPGTGK+ + A+A N + G ++
Sbjct: 41 ELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVKKFI 92
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 27/52 (51%)
Query: 21 EYCAKIGKAWKRGYLLYGPPGTGKSTMIAAMANFLNYDLVGEKGIVFTTNYV 72
E +G A +G +LYGPPGTGK+ + A+A+ + + G Y+
Sbjct: 172 ELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKFIRVSGAELVQKYI 223
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 30/54 (55%), Gaps = 4/54 (7%)
Query: 41 GTGKSTMIAAMANFLN----YDLVGEKGIVFTTNYVDKLDPALIRRGRMDKRIE 90
G G S + M LN ++ I+ TN +D LDPAL+R GR+D++IE
Sbjct: 262 GGGDSEVQRTMLELLNQLDGFETSKNIKIIMATNRLDILDPALLRPGRIDRKIE 315
>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 = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/28 (60%), Positives = 20/28 (71%)
Query: 26 IGKAWKRGYLLYGPPGTGKSTMIAAMAN 53
IG RG LLYGPPGTGK+ + A+AN
Sbjct: 233 IGVKPPRGILLYGPPGTGKTLIARAVAN 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 = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/28 (60%), Positives = 20/28 (71%)
Query: 26 IGKAWKRGYLLYGPPGTGKSTMIAAMAN 53
IG RG LLYGPPGTGK+ + A+AN
Sbjct: 233 IGVKPPRGILLYGPPGTGKTLIARAVAN 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 = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/28 (60%), Positives = 20/28 (71%)
Query: 26 IGKAWKRGYLLYGPPGTGKSTMIAAMAN 53
IG RG LLYGPPGTGK+ + A+AN
Sbjct: 233 IGVKPPRGILLYGPPGTGKTLIARAVAN 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 = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/28 (60%), Positives = 20/28 (71%)
Query: 26 IGKAWKRGYLLYGPPGTGKSTMIAAMAN 53
IG RG LLYGPPGTGK+ + A+AN
Sbjct: 233 IGVKPPRGILLYGPPGTGKTLIARAVAN 260
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/28 (60%), Positives = 20/28 (71%)
Query: 26 IGKAWKRGYLLYGPPGTGKSTMIAAMAN 53
IG RG LLYGPPGTGK+ + A+AN
Sbjct: 233 IGVKPPRGILLYGPPGTGKTLIARAVAN 260
Score = 36.6 bits (83), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 24/47 (51%)
Query: 25 KIGKAWKRGYLLYGPPGTGKSTMIAAMANFLNYDLVGEKGIVFTTNY 71
K G +G L YGPPG GK+ + A+AN + + KG T +
Sbjct: 505 KFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMW 551
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 37/71 (52%), Gaps = 1/71 (1%)
Query: 65 IVFTTNYVDKLDPALIRRGRMDKRIEMSYCCFEAFMVLAKSYLDIESHAFFAEINSLLAE 124
I+ TN D +DPA++R GR+D+ I + ++ + + K+ L A ++ L
Sbjct: 619 IIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKM 678
Query: 125 TN-MASADVAE 134
TN + AD+ E
Sbjct: 679 TNGFSGADLTE 689
>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 = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/28 (60%), Positives = 20/28 (71%)
Query: 26 IGKAWKRGYLLYGPPGTGKSTMIAAMAN 53
IG RG LLYGPPGTGK+ + A+AN
Sbjct: 233 IGVKPPRGILLYGPPGTGKTLIARAVAN 260
Score = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 24/47 (51%)
Query: 25 KIGKAWKRGYLLYGPPGTGKSTMIAAMANFLNYDLVGEKGIVFTTNY 71
K G +G L YGPPG GK+ + A+AN + + KG T +
Sbjct: 505 KFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMW 551
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 37/71 (52%), Gaps = 1/71 (1%)
Query: 65 IVFTTNYVDKLDPALIRRGRMDKRIEMSYCCFEAFMVLAKSYLDIESHAFFAEINSLLAE 124
I+ TN D +DPA++R GR+D+ I + ++ + + K+ L A ++ L
Sbjct: 619 IIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKM 678
Query: 125 TN-MASADVAE 134
TN + AD+ E
Sbjct: 679 TNGFSGADLTE 689
>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 15/26 (57%), Positives = 21/26 (80%)
Query: 65 IVFTTNYVDKLDPALIRRGRMDKRIE 90
++ TN VD LDPAL+R GR+D++IE
Sbjct: 323 VLAATNRVDVLDPALLRSGRLDRKIE 348
Score = 32.0 bits (71), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 19/31 (61%)
Query: 26 IGKAWKRGYLLYGPPGTGKSTMIAAMANFLN 56
+G +G L+YGPPGTGK+ + A A N
Sbjct: 210 MGIRAPKGALMYGPPGTGKTLLARACAAQTN 240
>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C-
Terminal Aaa-Atpase Domain
Length = 274
Score = 37.4 bits (85), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 30/104 (28%), Positives = 47/104 (45%), Gaps = 6/104 (5%)
Query: 26 IGKAWKRGYLLYGPPGTGKSTMIAAMANFLNYDLVGEKGIVFTTNYVDKLDPALIRRGRM 85
+G G LL GPPG GK+ + A+AN + + KG YV + + A+ ++
Sbjct: 39 LGLVTPAGVLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMYVGESERAV---RQV 95
Query: 86 DKRIEMSYCC---FEAFMVLAKSYLDIESHAFFAEINSLLAETN 126
+R + S C F+ L D E+ A +N LL E +
Sbjct: 96 FQRAKNSAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMD 139
Score = 30.4 bits (67), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 18/25 (72%)
Query: 65 IVFTTNYVDKLDPALIRRGRMDKRI 89
I+ TN D +DPA++R GR+DK +
Sbjct: 149 IMAATNRPDIIDPAILRPGRLDKTL 173
>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 = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 24/47 (51%)
Query: 25 KIGKAWKRGYLLYGPPGTGKSTMIAAMANFLNYDLVGEKGIVFTTNY 71
K G +G L YGPPG GK+ + A+AN + + KG T +
Sbjct: 43 KFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMW 89
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 18/25 (72%)
Query: 65 IVFTTNYVDKLDPALIRRGRMDKRI 89
I+ TN D +DPA++R GR+D+ I
Sbjct: 157 IIGATNRPDIIDPAILRPGRLDQLI 181
>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 = 35.8 bits (81), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 41/77 (53%), Gaps = 12/77 (15%)
Query: 19 GKEYCAKIGKAWKR----GYL----LYGPPGTGKSTMIAAMANFLNYDLVGEKGIVFTTN 70
G+++ GK R G+L L+GPPGTGK+T+ +A + N D+ + I T+
Sbjct: 30 GQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYANADV---ERISAVTS 86
Query: 71 YVDKLDPALIRRGRMDK 87
V ++ A I R R ++
Sbjct: 87 GVKEIREA-IERARQNR 102
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 35.4 bits (80), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 23/45 (51%)
Query: 28 KAWKRGYLLYGPPGTGKSTMIAAMANFLNYDLVGEKGIVFTTNYV 72
+A RG LL+GPPG GK+ + A+A N T+ YV
Sbjct: 145 RAPARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYV 189
>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 = 35.0 bits (79), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 24/48 (50%)
Query: 25 KIGKAWKRGYLLYGPPGTGKSTMIAAMANFLNYDLVGEKGIVFTTNYV 72
+IG +G LL GPPGTGK+ + A+A N G F +V
Sbjct: 43 RIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVELFV 90
Score = 32.7 bits (73), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 14/25 (56%), Positives = 18/25 (72%)
Query: 65 IVFTTNYVDKLDPALIRRGRMDKRI 89
++ TN D LDPAL+R GR DK+I
Sbjct: 157 VMAATNRPDILDPALLRPGRFDKKI 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 = 35.0 bits (79), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 24/42 (57%)
Query: 21 EYCAKIGKAWKRGYLLYGPPGTGKSTMIAAMANFLNYDLVGE 62
++ K G R +LYGPPG GK+T +A L YD++ +
Sbjct: 67 KHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQ 108
>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 = 35.0 bits (79), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 15/25 (60%), Positives = 18/25 (72%)
Query: 32 RGYLLYGPPGTGKSTMIAAMANFLN 56
RG LL+GPPGTGKS + A+A N
Sbjct: 168 RGILLFGPPGTGKSYLAKAVATEAN 192
>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 = 34.7 bits (78), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 20/32 (62%)
Query: 21 EYCAKIGKAWKRGYLLYGPPGTGKSTMIAAMA 52
E A +G +G LL GPPGTGK+ + A+A
Sbjct: 34 ERYANLGAKIPKGVLLVGPPGTGKTLLAKAVA 65
Score = 31.2 bits (69), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 37/72 (51%), Gaps = 5/72 (6%)
Query: 65 IVFTTNYVDKLDPALIRRGRMDKRIEMSYCCFEAFMVLAKSYL---DIESHAFFAEINSL 121
++ TN + LDPAL+R GR D+++ + F + + K ++ + + E+ L
Sbjct: 154 VLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGVKLANDVNLQEVAKL 213
Query: 122 LAETNMASADVA 133
A +A AD+A
Sbjct: 214 TA--GLAGADLA 223
>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b
Length = 322
Score = 34.7 bits (78), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 15/25 (60%), Positives = 18/25 (72%)
Query: 32 RGYLLYGPPGTGKSTMIAAMANFLN 56
RG LL+GPPGTGKS + A+A N
Sbjct: 46 RGILLFGPPGTGKSYLAKAVATEAN 70
>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 = 34.3 bits (77), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 15/24 (62%), Positives = 17/24 (70%)
Query: 33 GYLLYGPPGTGKSTMIAAMANFLN 56
G LLYGPPGTGKS + A+A N
Sbjct: 86 GILLYGPPGTGKSYLAKAVATEAN 109
>pdb|3K1J|A Chain A, Crystal Structure Of Lon Protease From Thermococcus
Onnurineus Na1
pdb|3K1J|B Chain B, Crystal Structure Of Lon Protease From Thermococcus
Onnurineus Na1
Length = 604
Score = 33.9 bits (76), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 24/43 (55%), Gaps = 3/43 (6%)
Query: 19 GKEYCAKIGKA---WKRGYLLYGPPGTGKSTMIAAMANFLNYD 58
G+E+ ++ K KR LL G PGTGKS + AMA L +
Sbjct: 45 GQEHAVEVIKTAANQKRHVLLIGEPGTGKSMLGQAMAELLPTE 87
>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 = 33.9 bits (76), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 15/24 (62%), Positives = 17/24 (70%)
Query: 33 GYLLYGPPGTGKSTMIAAMANFLN 56
G LLYGPPGTGKS + A+A N
Sbjct: 71 GILLYGPPGTGKSYLAKAVATEAN 94
>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
Length = 331
Score = 33.9 bits (76), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 15/24 (62%), Positives = 17/24 (70%)
Query: 33 GYLLYGPPGTGKSTMIAAMANFLN 56
G LLYGPPGTGKS + A+A N
Sbjct: 62 GILLYGPPGTGKSYLAKAVATEAN 85
>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
State
Length = 322
Score = 33.9 bits (76), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 15/24 (62%), Positives = 17/24 (70%)
Query: 33 GYLLYGPPGTGKSTMIAAMANFLN 56
G LLYGPPGTGKS + A+A N
Sbjct: 53 GILLYGPPGTGKSYLAKAVATEAN 76
>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 = 33.9 bits (76), Expect = 0.091, Method: Composition-based stats.
Identities = 16/32 (50%), Positives = 23/32 (71%), Gaps = 1/32 (3%)
Query: 31 KRGYLLYGPPGTGKSTMI-AAMANFLNYDLVG 61
KRG +L GPPG+GK+ ++ A+ N YD+VG
Sbjct: 1267 KRGIILCGPPGSGKTMIMNNALRNSSLYDVVG 1298
>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 = 33.9 bits (76), Expect = 0.091, Method: Composition-based stats.
Identities = 16/32 (50%), Positives = 23/32 (71%), Gaps = 1/32 (3%)
Query: 31 KRGYLLYGPPGTGKSTMI-AAMANFLNYDLVG 61
KRG +L GPPG+GK+ ++ A+ N YD+VG
Sbjct: 1048 KRGIILCGPPGSGKTMIMNNALRNSSLYDVVG 1079
>pdb|3B9P|A Chain A, Spastin
Length = 297
Score = 33.5 bits (75), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 24/45 (53%)
Query: 28 KAWKRGYLLYGPPGTGKSTMIAAMANFLNYDLVGEKGIVFTTNYV 72
+A +G LL+GPPG GK+ + A+A + + T+ YV
Sbjct: 51 RAPAKGLLLFGPPGNGKTLLARAVATECSATFLNISAASLTSKYV 95
>pdb|1SXJ|C Chain C, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 340
Score = 33.1 bits (74), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 12/18 (66%), Positives = 15/18 (83%)
Query: 35 LLYGPPGTGKSTMIAAMA 52
L YGPPGTGK++ I A+A
Sbjct: 50 LFYGPPGTGKTSTIVALA 67
>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 = 32.7 bits (73), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 23/48 (47%)
Query: 25 KIGKAWKRGYLLYGPPGTGKSTMIAAMANFLNYDLVGEKGIVFTTNYV 72
+IG +G LL GPPGTG + + A+A N G F +V
Sbjct: 43 RIGARMPKGILLVGPPGTGATLLARAVAGEANVPFFHISGSDFVELFV 90
Score = 32.7 bits (73), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 14/25 (56%), Positives = 18/25 (72%)
Query: 65 IVFTTNYVDKLDPALIRRGRMDKRI 89
++ TN D LDPAL+R GR DK+I
Sbjct: 157 VMAATNRPDILDPALLRPGRFDKKI 181
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 32.7 bits (73), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 19/28 (67%)
Query: 25 KIGKAWKRGYLLYGPPGTGKSTMIAAMA 52
K+G +G L+ GPPGTGK+ + A+A
Sbjct: 39 KLGGKIPKGVLMVGPPGTGKTLLAKAIA 66
Score = 32.3 bits (72), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 21/31 (67%), Gaps = 2/31 (6%)
Query: 61 GEKGIVF--TTNYVDKLDPALIRRGRMDKRI 89
G +GI+ TN D LDPAL+R GR D+++
Sbjct: 147 GNEGIIVIAATNRPDVLDPALLRPGRFDRQV 177
>pdb|1G8P|A Chain A, Crystal Structure Of Bchi Subunit Of Magnesium Chelatase
pdb|2X31|G Chain G, Modelling Of The Complex Between Subunits Bchi And Bchd Of
Magnesium Chelatase Based On Single-Particle Cryo-Em
Reconstruction At 7.5 Ang
pdb|2X31|H Chain H, Modelling Of The Complex Between Subunits Bchi And Bchd Of
Magnesium Chelatase Based On Single-Particle Cryo-Em
Reconstruction At 7.5 Ang
pdb|2X31|I Chain I, Modelling Of The Complex Between Subunits Bchi And Bchd Of
Magnesium Chelatase Based On Single-Particle Cryo-Em
Reconstruction At 7.5 Ang
pdb|2X31|J Chain J, Modelling Of The Complex Between Subunits Bchi And Bchd Of
Magnesium Chelatase Based On Single-Particle Cryo-Em
Reconstruction At 7.5 Ang
pdb|2X31|K Chain K, Modelling Of The Complex Between Subunits Bchi And Bchd Of
Magnesium Chelatase Based On Single-Particle Cryo-Em
Reconstruction At 7.5 Ang
pdb|2X31|L Chain L, Modelling Of The Complex Between Subunits Bchi And Bchd Of
Magnesium Chelatase Based On Single-Particle Cryo-Em
Reconstruction At 7.5 Ang
Length = 350
Score = 32.3 bits (72), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 14/61 (22%)
Query: 33 GYLLYGPPGTGKSTMIAAMANFL--------------NYDLVGEKGIVFTTNYVDKLDPA 78
G L++G GTGKST + A+A L N +++ + V +TN + K P
Sbjct: 47 GVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLSTNVIRKPTPV 106
Query: 79 L 79
+
Sbjct: 107 V 107
>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 = 32.3 bits (72), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 22/36 (61%)
Query: 21 EYCAKIGKAWKRGYLLYGPPGTGKSTMIAAMANFLN 56
E ++ + L+ GP G+GKST +AAM ++LN
Sbjct: 113 EVFKRVSDVPRGLVLVTGPTGSGKSTTLAAMLDYLN 148
>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 = 32.0 bits (71), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 30/53 (56%), Gaps = 4/53 (7%)
Query: 16 FSEGKEYCAKIGKAWKRGYLLYGPPGTGKSTMIAAMANFLNYDLVGEKGIVFT 68
FS ++ + A ++G LYG G GKS ++AAMA ++L +KG+ T
Sbjct: 137 FSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMA----HELSEKKGVSTT 185
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 31.6 bits (70), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 19/27 (70%)
Query: 65 IVFTTNYVDKLDPALIRRGRMDKRIEM 91
++ TN D LDPAL+R GR D++I +
Sbjct: 181 VMAATNRPDILDPALLRPGRFDRQIAI 207
Score = 31.2 bits (69), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 23/48 (47%)
Query: 25 KIGKAWKRGYLLYGPPGTGKSTMIAAMANFLNYDLVGEKGIVFTTNYV 72
++G +G LL GPPG GK+ + A+A + G F +V
Sbjct: 67 EMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFV 114
>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
Length = 312
Score = 31.6 bits (70), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 21/37 (56%)
Query: 23 CAKIGKAWKRGYLLYGPPGTGKSTMIAAMANFLNYDL 59
AK K LL+GPPG GK+T+ +A+ L +L
Sbjct: 30 AAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNL 66
>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 = 31.6 bits (70), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 19/27 (70%)
Query: 65 IVFTTNYVDKLDPALIRRGRMDKRIEM 91
++ TN D LDPAL+R GR D++I +
Sbjct: 157 VMAATNRPDILDPALLRPGRFDRQIAI 183
Score = 31.6 bits (70), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 23/48 (47%)
Query: 25 KIGKAWKRGYLLYGPPGTGKSTMIAAMANFLNYDLVGEKGIVFTTNYV 72
++G +G LL GPPG GK+ + A+A + G F +V
Sbjct: 43 EMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFV 90
>pdb|2XSZ|A Chain A, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
pdb|2XSZ|B Chain B, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
pdb|2XSZ|C Chain C, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
Length = 367
Score = 31.6 bits (70), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 17/28 (60%)
Query: 28 KAWKRGYLLYGPPGTGKSTMIAAMANFL 55
K R LL GPPGTGK+ + A+A L
Sbjct: 74 KXAGRAVLLAGPPGTGKTALALAIAQEL 101
>pdb|2EWV|A Chain A, Crystal Structure Of The Pilus Retraction Motor Pilt And
Bound Adp
Length = 372
Score = 31.6 bits (70), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 18/22 (81%)
Query: 35 LLYGPPGTGKSTMIAAMANFLN 56
L+ GP G+GKST IA+M +++N
Sbjct: 140 LVTGPTGSGKSTTIASMIDYIN 161
>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 = 0.46, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 18/25 (72%)
Query: 65 IVFTTNYVDKLDPALIRRGRMDKRI 89
++ TN D LDPAL+R GR D++I
Sbjct: 181 VMAATNRPDILDPALLRPGRFDRQI 205
Score = 31.2 bits (69), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 23/48 (47%)
Query: 25 KIGKAWKRGYLLYGPPGTGKSTMIAAMANFLNYDLVGEKGIVFTTNYV 72
++G +G LL GPPG GK+ + A+A + G F +V
Sbjct: 67 EMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFV 114
>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii
Length = 318
Score = 31.2 bits (69), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 21/37 (56%)
Query: 23 CAKIGKAWKRGYLLYGPPGTGKSTMIAAMANFLNYDL 59
AK K LL+GPPG GK+T+ +A+ L +L
Sbjct: 30 AAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNL 66
>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 = 0.51, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 18/25 (72%)
Query: 65 IVFTTNYVDKLDPALIRRGRMDKRI 89
++ TN D LDPAL+R GR D++I
Sbjct: 172 VMAATNRPDILDPALLRPGRFDRQI 196
Score = 31.2 bits (69), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 23/48 (47%)
Query: 25 KIGKAWKRGYLLYGPPGTGKSTMIAAMANFLNYDLVGEKGIVFTTNYV 72
++G +G LL GPPG GK+ + A+A + G F +V
Sbjct: 58 EMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFV 105
>pdb|2C9O|A Chain A, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
pdb|2C9O|B Chain B, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
pdb|2C9O|C Chain C, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
Length = 456
Score = 31.2 bits (69), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 13/24 (54%), Positives = 16/24 (66%)
Query: 32 RGYLLYGPPGTGKSTMIAAMANFL 55
R LL GPPGTGK+ + A+A L
Sbjct: 64 RAVLLAGPPGTGKTALALAIAQEL 87
>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 = 31.2 bits (69), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 21/37 (56%)
Query: 23 CAKIGKAWKRGYLLYGPPGTGKSTMIAAMANFLNYDL 59
AK K LL+GPPG GK+T+ +A+ L +L
Sbjct: 30 AAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNL 66
>pdb|1SXJ|D Chain D, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 353
Score = 31.2 bits (69), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 35 LLYGPPGTGKSTMIAAMANFL 55
L YGPPGTGK++ I A+ L
Sbjct: 62 LFYGPPGTGKTSTILALTKEL 82
>pdb|3GK6|A Chain A, Crystal Structure From The Mobile Metagenome Of Vibrio
Cholerae. Integron Cassette Protein Vch_cass2
Length = 170
Score = 30.8 bits (68), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 32/81 (39%), Gaps = 4/81 (4%)
Query: 18 EGKEYCAKIGKAWKRGYLLYGPPGTGKSTMIAAMANFLNYDLVGEKGIVFTTNYVDKLDP 77
E AKIG W++ YL P T KS + N+ + D G ++ + D L P
Sbjct: 44 EXNPXTAKIGNLWEKFYLNAAPKLTDKSKVYGLYTNYES-DFTGAFDVIACS---DTLSP 99
Query: 78 ALIRRGRMDKRIEMSYCCFEA 98
L+ K Y F A
Sbjct: 100 QLLSESVKTKVSSGKYVTFSA 120
>pdb|1IQP|A Chain A, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|B Chain B, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|C Chain C, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|D Chain D, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|E Chain E, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|F Chain F, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
Length = 327
Score = 30.4 bits (67), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 31/62 (50%), Gaps = 15/62 (24%)
Query: 19 GKEYCAKIGKAWKRG----YLLY-GPPGTGKSTMIAAMA----------NFLNYDLVGEK 63
G+E+ K K + + +LL+ GPPG GK+T A+A NFL + E+
Sbjct: 29 GQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDER 88
Query: 64 GI 65
GI
Sbjct: 89 GI 90
>pdb|1ZP6|A Chain A, Crystal Structure Of Atu3015, A Putative Cytidylate
Kinase From Agrobacterium Tumefaciens, Northeast
Structural Genomics Target Atr62
Length = 191
Score = 30.0 bits (66), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 29/59 (49%), Gaps = 9/59 (15%)
Query: 35 LLYGPPGTGKSTMIAAMANFLNYDLVGEKGIVFTTNYVDKLDPALIRRGRMDKRIEMSY 93
LL G PG+GKST+ A+AN G+ + D L I+ GR+D + S+
Sbjct: 13 LLSGHPGSGKSTIAEALANL--------PGVPKVHFHSDDLW-GYIKHGRIDPWLPQSH 62
>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp
Length = 262
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 19/33 (57%)
Query: 21 EYCAKIGKAWKRGYLLYGPPGTGKSTMIAAMAN 53
E ++G +G LL GPPG GK+ + A+A
Sbjct: 29 ERFLQLGAKVPKGALLLGPPGCGKTLLAKAVAT 61
Score = 28.9 bits (63), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 18/25 (72%)
Query: 65 IVFTTNYVDKLDPALIRRGRMDKRI 89
++ +TN D LD AL+R GR+D+ +
Sbjct: 148 VLASTNRADILDGALMRPGRLDRHV 172
>pdb|3UK6|A Chain A, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|B Chain B, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|C Chain C, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|D Chain D, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|E Chain E, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|F Chain F, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|G Chain G, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|H Chain H, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|I Chain I, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|J Chain J, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|K Chain K, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|L Chain L, Crystal Structure Of The Tip48 (Tip49b) Hexamer
Length = 368
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 17/32 (53%)
Query: 27 GKAWKRGYLLYGPPGTGKSTMIAAMANFLNYD 58
GK R L+ G PGTGK+ + MA L D
Sbjct: 66 GKIAGRAVLIAGQPGTGKTAIAMGMAQALGPD 97
>pdb|2EWW|A Chain A, Crystal Structure Of The Pilus Retraction Motor Pilt And
Bound Atp
Length = 372
Score = 29.3 bits (64), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 17/22 (77%)
Query: 35 LLYGPPGTGKSTMIAAMANFLN 56
L+ GP G+GKST IA+ +++N
Sbjct: 140 LVTGPTGSGKSTTIASXIDYIN 161
>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 = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 17/31 (54%)
Query: 29 AWKRGYLLYGPPGTGKSTMIAAMANFLNYDL 59
A KR L GP G GKST+ +A LN +
Sbjct: 2 AEKRNIFLVGPMGAGKSTIGRQLAQQLNMEF 32
>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 = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 17/22 (77%)
Query: 32 RGYLLYGPPGTGKSTMIAAMAN 53
+G LL+GPPGTGK+ + +A+
Sbjct: 118 KGILLFGPPGTGKTLIGKCIAS 139
>pdb|2GSZ|A Chain A, Structure Of A. Aeolicus Pilt With 6 Monomers Per
Asymmetric Unit
pdb|2GSZ|B Chain B, Structure Of A. Aeolicus Pilt With 6 Monomers Per
Asymmetric Unit
pdb|2GSZ|C Chain C, Structure Of A. Aeolicus Pilt With 6 Monomers Per
Asymmetric Unit
pdb|2GSZ|D Chain D, Structure Of A. Aeolicus Pilt With 6 Monomers Per
Asymmetric Unit
pdb|2GSZ|E Chain E, Structure Of A. Aeolicus Pilt With 6 Monomers Per
Asymmetric Unit
pdb|2GSZ|F Chain F, Structure Of A. Aeolicus Pilt With 6 Monomers Per
Asymmetric Unit
Length = 363
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 17/22 (77%)
Query: 35 LLYGPPGTGKSTMIAAMANFLN 56
L+ GP G+GKST IA+ +++N
Sbjct: 129 LVTGPTGSGKSTTIASXIDYIN 150
>pdb|1Y63|A Chain A, Initial Crystal Structural Analysis Of A Probable Kinase
From Leishmania Major Friedlin
Length = 184
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 28/89 (31%), Positives = 42/89 (47%), Gaps = 10/89 (11%)
Query: 35 LLYGPPGTGKST---MIAAMANFLNYDLVGE--KGIVFTTNYVDKLDPALIRRGRMDKRI 89
L+ G PGTGK++ MIAA + + VG+ K F T Y +LD +I D+ +
Sbjct: 14 LITGTPGTGKTSMAEMIAAELDGFQHLEVGKLVKENHFYTEYDTELDTHIIEEKDEDRLL 73
Query: 90 EMSYCCFEAFMVLAKSY-LDIESHAFFAE 117
+ E MV ++ +D S F E
Sbjct: 74 DF----MEPIMVSRGNHVVDYHSSELFPE 98
>pdb|2EYU|A Chain A, The Crystal Structure Of The C-Terminal Domain Of
Aquifex Aeolicus Pilt
pdb|2EYU|B Chain B, The Crystal Structure Of The C-Terminal Domain Of
Aquifex Aeolicus Pilt
Length = 261
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 17/22 (77%)
Query: 35 LLYGPPGTGKSTMIAAMANFLN 56
L+ GP G+GKST IA+ +++N
Sbjct: 29 LVTGPTGSGKSTTIASXIDYIN 50
>pdb|1G6H|A Chain A, Crystal Structure Of The Adp Conformation Of Mj1267, An
Atp- Binding Cassette Of An Abc Transporter
Length = 257
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 3/44 (6%)
Query: 35 LLYGPPGTGKSTMIAAMANFLNYDLVGEKGIVFTTNYVDKLDPA 78
L+ GP G+GKST+I + FL D E + F + +PA
Sbjct: 37 LIIGPNGSGKSTLINVITGFLKAD---EGRVYFENKDITNKEPA 77
>pdb|1G9X|A Chain A, Characterization Of The Twinning Structure Of Mj1267, An
Atp-Binding Cassette Of An Abc Transporter
pdb|1G9X|B Chain B, Characterization Of The Twinning Structure Of Mj1267, An
Atp-Binding Cassette Of An Abc Transporter
pdb|1G9X|C Chain C, Characterization Of The Twinning Structure Of Mj1267, An
Atp-Binding Cassette Of An Abc Transporter
Length = 257
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 3/44 (6%)
Query: 35 LLYGPPGTGKSTMIAAMANFLNYDLVGEKGIVFTTNYVDKLDPA 78
L+ GP G+GKST+I + FL D E + F + +PA
Sbjct: 37 LIIGPNGSGKSTLINVITGFLKAD---EGRVYFENKDITNKEPA 77
>pdb|1GAJ|A Chain A, Crystal Structure Of A Nucleotide-Free Atp-Binding
Cassette From An Abc Transporter
Length = 257
Score = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 3/44 (6%)
Query: 35 LLYGPPGTGKSTMIAAMANFLNYDLVGEKGIVFTTNYVDKLDPA 78
L+ GP G+GKST+I + FL D E + F + +PA
Sbjct: 37 LIIGPNGSGKSTLINVITGFLKAD---EGRVYFENKDITNKEPA 77
>pdb|1ZU4|A Chain A, Crystal Structure Of Ftsy From Mycoplasma Mycoides- Space
Group P21212
pdb|1ZU5|A Chain A, Crystal Structure Of Ftsy From Mycoplasma Mycoides- Space
Group H32
pdb|1ZU5|B Chain B, Crystal Structure Of Ftsy From Mycoplasma Mycoides- Space
Group H32
Length = 320
Score = 28.5 bits (62), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 16/21 (76%)
Query: 34 YLLYGPPGTGKSTMIAAMANF 54
++L G GTGK+T +A MAN+
Sbjct: 108 FMLVGVNGTGKTTSLAKMANY 128
>pdb|2CHG|A Chain A, Replication Factor C Domains 1 And 2
pdb|2CHG|B Chain B, Replication Factor C Domains 1 And 2
pdb|2CHG|C Chain C, Replication Factor C Domains 1 And 2
pdb|2CHG|D Chain D, Replication Factor C Domains 1 And 2
Length = 226
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 20/41 (48%), Gaps = 10/41 (24%)
Query: 35 LLYGPPGTGKSTMIAAMA----------NFLNYDLVGEKGI 65
L GPPGTGK+ A+A NF+ + E+GI
Sbjct: 42 LFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGI 82
>pdb|2CHQ|A Chain A, Replication Factor C Adpnp Complex
pdb|2CHQ|B Chain B, Replication Factor C Adpnp Complex
pdb|2CHQ|C Chain C, Replication Factor C Adpnp Complex
pdb|2CHV|A Chain A, Replication Factor C Adpnp Complex
pdb|2CHV|B Chain B, Replication Factor C Adpnp Complex
pdb|2CHV|C Chain C, Replication Factor C Adpnp Complex
pdb|2CHV|D Chain D, Replication Factor C Adpnp Complex
pdb|2CHV|E Chain E, Replication Factor C Adpnp Complex
pdb|2CHV|F Chain F, Replication Factor C Adpnp Complex
Length = 319
Score = 28.1 bits (61), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 20/41 (48%), Gaps = 10/41 (24%)
Query: 35 LLYGPPGTGKSTMIAAMA----------NFLNYDLVGEKGI 65
L GPPGTGK+ A+A NF+ + E+GI
Sbjct: 42 LFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGI 82
>pdb|4F4C|A Chain A, The Crystal Structure Of The Multi-Drug Transporter
Length = 1321
Score = 28.1 bits (61), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 25/46 (54%), Gaps = 3/46 (6%)
Query: 36 LYGPPGTGKSTMIAAMANFLNYDLVGEKGIVFTTNYVDKLDPALIR 81
L GP G GKST++A + F YD +G + I + + L+P R
Sbjct: 1110 LVGPSGCGKSTVVALLERF--YDTLGGE-IFIDGSEIKTLNPEHTR 1152
>pdb|2D3W|A Chain A, Crystal Structure Of Escherichia Coli Sufc, An Atpase
Compenent Of The Suf Iron-Sulfur Cluster Assembly
Machinery
pdb|2D3W|B Chain B, Crystal Structure Of Escherichia Coli Sufc, An Atpase
Compenent Of The Suf Iron-Sulfur Cluster Assembly
Machinery
pdb|2D3W|C Chain C, Crystal Structure Of Escherichia Coli Sufc, An Atpase
Compenent Of The Suf Iron-Sulfur Cluster Assembly
Machinery
pdb|2D3W|D Chain D, Crystal Structure Of Escherichia Coli Sufc, An Atpase
Compenent Of The Suf Iron-Sulfur Cluster Assembly
Machinery
Length = 248
Score = 27.3 bits (59), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 19/28 (67%)
Query: 34 YLLYGPPGTGKSTMIAAMANFLNYDLVG 61
+ + GP G+GKST+ A +A +Y++ G
Sbjct: 30 HAIMGPNGSGKSTLSATLAGREDYEVTG 57
>pdb|2IWH|A Chain A, Structure Of Yeast Elongation Factor 3 In Complex With
Adpnp
pdb|2IWH|B Chain B, Structure Of Yeast Elongation Factor 3 In Complex With
Adpnp
pdb|2IX3|A Chain A, Structure Of Yeast Elongation Factor 3
pdb|2IX3|B Chain B, Structure Of Yeast Elongation Factor 3
Length = 986
Score = 27.3 bits (59), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 16/22 (72%)
Query: 32 RGYLLYGPPGTGKSTMIAAMAN 53
R Y + GP G GKST++ A+AN
Sbjct: 462 RRYGICGPNGCGKSTLMRAIAN 483
>pdb|2ZU0|C Chain C, Crystal Structure Of Sufc-Sufd Complex Involved In The
Iron- Sulfur Cluster Biosynthesis
pdb|2ZU0|D Chain D, Crystal Structure Of Sufc-Sufd Complex Involved In The
Iron- Sulfur Cluster Biosynthesis
Length = 267
Score = 27.3 bits (59), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 19/28 (67%)
Query: 34 YLLYGPPGTGKSTMIAAMANFLNYDLVG 61
+ + GP G+GKST+ A +A +Y++ G
Sbjct: 49 HAIMGPNGSGKSTLSATLAGREDYEVTG 76
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 0.135 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,661,577
Number of Sequences: 62578
Number of extensions: 191121
Number of successful extensions: 665
Number of sequences better than 100.0: 73
Number of HSP's better than 100.0 without gapping: 63
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 569
Number of HSP's gapped (non-prelim): 106
length of query: 236
length of database: 14,973,337
effective HSP length: 96
effective length of query: 140
effective length of database: 8,965,849
effective search space: 1255218860
effective search space used: 1255218860
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)