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= psy1371
(244 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 42/142 (29%), Positives = 62/142 (43%), Gaps = 12/142 (8%)
Query: 101 TALGSEWRPFGHPKRRRPLNSVVLDS-GVADRILTDIKQFVA----DPAWYLDRGIPYRR 155
T + E P LN V D G + L IK+ V PA + G+ R
Sbjct: 180 TVIHCEGEPIKREDEEESLNEVGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPR 239
Query: 156 GYLLYGPPGCGKSSFITALAGELEFGICVLNLSE-----RGLTDDRLNHLLSVAPQN--S 208
G LLYGPPG GK+ A+A E ++N E G ++ L A +N +
Sbjct: 240 GILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPA 299
Query: 209 IILLEDIDAAFVTREESSQGLE 230
II ++++DA RE++ +E
Sbjct: 300 IIFIDELDAIAPKREKTHGEVE 321
Score = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 131 RILTDIKQF-VADPAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGELE 179
R L ++ Q+ V P +L G+ +G L YGPPGCGK+ A+A E +
Sbjct: 487 RELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQ 536
>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 = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 42/142 (29%), Positives = 62/142 (43%), Gaps = 12/142 (8%)
Query: 101 TALGSEWRPFGHPKRRRPLNSVVLDS-GVADRILTDIKQFVA----DPAWYLDRGIPYRR 155
T + E P LN V D G + L IK+ V PA + G+ R
Sbjct: 180 TVIHCEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPR 239
Query: 156 GYLLYGPPGCGKSSFITALAGELEFGICVLNLSE-----RGLTDDRLNHLLSVAPQN--S 208
G LLYGPPG GK+ A+A E ++N E G ++ L A +N +
Sbjct: 240 GILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPA 299
Query: 209 IILLEDIDAAFVTREESSQGLE 230
II ++++DA RE++ +E
Sbjct: 300 IIFIDELDAIAPKREKTHGEVE 321
Score = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 131 RILTDIKQF-VADPAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGELE 179
R L ++ Q+ V P +L G+ +G L YGPPGCGK+ A+A E +
Sbjct: 487 RELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQ 536
>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 = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 42/142 (29%), Positives = 62/142 (43%), Gaps = 12/142 (8%)
Query: 101 TALGSEWRPFGHPKRRRPLNSVVLDS-GVADRILTDIKQFVA----DPAWYLDRGIPYRR 155
T + E P LN V D G + L IK+ V PA + G+ R
Sbjct: 180 TVIHCEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPR 239
Query: 156 GYLLYGPPGCGKSSFITALAGELEFGICVLNLSE-----RGLTDDRLNHLLSVAPQN--S 208
G LLYGPPG GK+ A+A E ++N E G ++ L A +N +
Sbjct: 240 GILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPA 299
Query: 209 IILLEDIDAAFVTREESSQGLE 230
II ++++DA RE++ +E
Sbjct: 300 IIFIDELDAIAPKREKTHGEVE 321
>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 = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 42/142 (29%), Positives = 62/142 (43%), Gaps = 12/142 (8%)
Query: 101 TALGSEWRPFGHPKRRRPLNSVVLDS-GVADRILTDIKQFVA----DPAWYLDRGIPYRR 155
T + E P LN V D G + L IK+ V PA + G+ R
Sbjct: 180 TVIHCEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPR 239
Query: 156 GYLLYGPPGCGKSSFITALAGELEFGICVLNLSE-----RGLTDDRLNHLLSVAPQN--S 208
G LLYGPPG GK+ A+A E ++N E G ++ L A +N +
Sbjct: 240 GILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPA 299
Query: 209 IILLEDIDAAFVTREESSQGLE 230
II ++++DA RE++ +E
Sbjct: 300 IIFIDELDAIAPKREKTHGEVE 321
>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 = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 42/142 (29%), Positives = 62/142 (43%), Gaps = 12/142 (8%)
Query: 101 TALGSEWRPFGHPKRRRPLNSVVLDS-GVADRILTDIKQFVA----DPAWYLDRGIPYRR 155
T + E P LN V D G + L IK+ V PA + G+ R
Sbjct: 180 TVIHCEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPR 239
Query: 156 GYLLYGPPGCGKSSFITALAGELEFGICVLNLSE-----RGLTDDRLNHLLSVAPQN--S 208
G LLYGPPG GK+ A+A E ++N E G ++ L A +N +
Sbjct: 240 GILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPA 299
Query: 209 IILLEDIDAAFVTREESSQGLE 230
II ++++DA RE++ +E
Sbjct: 300 IIFIDELDAIAPKREKTHGEVE 321
>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 = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 42/142 (29%), Positives = 62/142 (43%), Gaps = 12/142 (8%)
Query: 101 TALGSEWRPFGHPKRRRPLNSVVLDS-GVADRILTDIKQFVA----DPAWYLDRGIPYRR 155
T + E P LN V D G + L IK+ V PA + G+ R
Sbjct: 180 TVIHCEGEPIKREDEEESLNEVGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPR 239
Query: 156 GYLLYGPPGCGKSSFITALAGELEFGICVLNLSE-----RGLTDDRLNHLLSVAPQN--S 208
G LLYGPPG GK+ A+A E ++N E G ++ L A +N +
Sbjct: 240 GILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPA 299
Query: 209 IILLEDIDAAFVTREESSQGLE 230
II ++++DA RE++ +E
Sbjct: 300 IIFIDELDAIAPKREKTHGEVE 321
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 43.9 bits (102), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 29/103 (28%), Positives = 49/103 (47%), Gaps = 7/103 (6%)
Query: 136 IKQFVADPAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGELEFGICVLNLSE-----R 190
I +F+ +P+ + + G +G LL GPPG GK+ A+AGE + S+
Sbjct: 55 IVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFV 114
Query: 191 GLTDDRLNHLLSVAPQNS--IILLEDIDAAFVTREESSQGLED 231
G+ R+ L A +++ I+ +++IDA R G D
Sbjct: 115 GVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGND 157
>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 = 43.9 bits (102), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 31/97 (31%), Positives = 45/97 (46%), Gaps = 7/97 (7%)
Query: 133 LTDIKQFVADPAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGELEFGICVLNLSE--- 189
+ +I F+ P Y + G +G LL GPPG GK+ A+AGE + S
Sbjct: 23 VVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIE 82
Query: 190 --RGLTDDRLNHLLSVAPQN--SIILLEDIDAAFVTR 222
GL R+ L A + SII +++IDA +R
Sbjct: 83 MFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSR 119
>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b
Length = 322
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 33/106 (31%), Positives = 55/106 (51%), Gaps = 10/106 (9%)
Query: 143 PAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGELE----FGICVLNLSER--GLTDDR 196
P + + P+R G LL+GPPG GKS A+A E F I +L + G ++
Sbjct: 35 PHLFTGKRTPWR-GILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKL 93
Query: 197 LNHLLSVAPQN--SIILLEDIDAAFVTREES-SQGLEDIDAAFVTR 239
+ +L +A +N SII +++ID+ +R E+ S+ I F+ +
Sbjct: 94 VKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQ 139
>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 = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 29/103 (28%), Positives = 49/103 (47%), Gaps = 7/103 (6%)
Query: 136 IKQFVADPAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGELEFGICVLNLSE-----R 190
I +F+ +P+ + + G +G LL GPPG GK+ A+AGE + S+
Sbjct: 31 IVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFV 90
Query: 191 GLTDDRLNHLLSVAPQNS--IILLEDIDAAFVTREESSQGLED 231
G+ R+ L A +++ I+ +++IDA R G D
Sbjct: 91 GVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGND 133
>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 = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 33/106 (31%), Positives = 55/106 (51%), Gaps = 10/106 (9%)
Query: 143 PAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGELE----FGICVLNLSER--GLTDDR 196
P + + P+R G LL+GPPG GKS A+A E F I +L + G ++
Sbjct: 157 PHLFTGKRTPWR-GILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKL 215
Query: 197 LNHLLSVAPQN--SIILLEDIDAAFVTREES-SQGLEDIDAAFVTR 239
+ +L +A +N SII +++ID+ +R E+ S+ I F+ +
Sbjct: 216 VKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQ 261
>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 = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 29/103 (28%), Positives = 49/103 (47%), Gaps = 7/103 (6%)
Query: 136 IKQFVADPAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGELEFGICVLNLSE-----R 190
I +F+ +P+ + + G +G LL GPPG GK+ A+AGE + S+
Sbjct: 55 IVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFV 114
Query: 191 GLTDDRLNHLLSVAPQNS--IILLEDIDAAFVTREESSQGLED 231
G+ R+ L A +++ I+ +++IDA R G D
Sbjct: 115 GVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGND 157
>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 = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 29/103 (28%), Positives = 49/103 (47%), Gaps = 7/103 (6%)
Query: 136 IKQFVADPAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGELEFGICVLNLSE-----R 190
I +F+ +P+ + + G +G LL GPPG GK+ A+AGE + S+
Sbjct: 46 IVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFV 105
Query: 191 GLTDDRLNHLLSVAPQNS--IILLEDIDAAFVTREESSQGLED 231
G+ R+ L A +++ I+ +++IDA R G D
Sbjct: 106 GVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGND 148
>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
Length = 331
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 42/76 (55%), Gaps = 7/76 (9%)
Query: 156 GYLLYGPPGCGKSSFITALAGELE---FGICVLNLSER--GLTDDRLNHLLSVAPQN--S 208
G LLYGPPG GKS A+A E F + +L + G ++ + L ++A +N S
Sbjct: 62 GILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPS 121
Query: 209 IILLEDIDAAFVTREE 224
II ++++DA TR E
Sbjct: 122 IIFIDEVDALTGTRGE 137
>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 = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 41/76 (53%), Gaps = 7/76 (9%)
Query: 156 GYLLYGPPGCGKSSFITALAGELE---FGICVLNLSER--GLTDDRLNHLLSVAPQN--S 208
G LLYGPPG GKS A+A E F + +L + G ++ + L ++A +N S
Sbjct: 86 GILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPS 145
Query: 209 IILLEDIDAAFVTREE 224
II ++ +DA TR E
Sbjct: 146 IIFIDQVDALTGTRGE 161
>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp
Length = 262
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 30/109 (27%), Positives = 50/109 (45%), Gaps = 10/109 (9%)
Query: 135 DIKQFV---ADPAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGELEFGICVLNLSE-- 189
++++FV P +L G +G LL GPPGCGK+ A+A E + + +E
Sbjct: 17 EVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFV 76
Query: 190 ---RGLTDDRLNHLLSVAPQNS--IILLEDIDAAFVTREESSQGLEDID 233
GL R+ L A + I+ +++IDA R + G + +
Sbjct: 77 EVIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTE 125
>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
State
Length = 322
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 41/76 (53%), Gaps = 7/76 (9%)
Query: 156 GYLLYGPPGCGKSSFITALAGELE---FGICVLNLSER--GLTDDRLNHLLSVAPQN--S 208
G LLYGPPG GKS A+A E F + +L + G ++ + L ++A +N S
Sbjct: 53 GILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPS 112
Query: 209 IILLEDIDAAFVTREE 224
II ++ +DA TR E
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 = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 41/76 (53%), Gaps = 7/76 (9%)
Query: 156 GYLLYGPPGCGKSSFITALAGELE---FGICVLNLSER--GLTDDRLNHLLSVAPQN--S 208
G LLYGPPG GKS A+A E F + +L + G ++ + L ++A +N S
Sbjct: 71 GILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPS 130
Query: 209 IILLEDIDAAFVTREE 224
II ++ +DA TR E
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 = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 32/103 (31%), Positives = 53/103 (51%), Gaps = 10/103 (9%)
Query: 125 DSGVADRILTDIKQ---FVADPAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGELE-- 179
D G A+ + ++K+ F+ DP+ + G +G LL GPPG GK+ A+AGE
Sbjct: 17 DVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVP 76
Query: 180 -FGICVLNLSE--RGLTDDRLNHLLSVAPQNS--IILLEDIDA 217
F I + E G+ R+ L + A ++ I+ +++IDA
Sbjct: 77 FFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDA 119
>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 = 37/117 (31%), Positives = 57/117 (48%), Gaps = 11/117 (9%)
Query: 125 DSGVADRILTDIKQFV----ADPAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGELE- 179
D G + + +IK+ V P Y + GI +G +LYG PG GK+ A+A +
Sbjct: 183 DIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSA 242
Query: 180 --FGICVLNLSERGLTDD-RL-NHLLSVAPQN--SIILLEDIDAAFVTREESSQGLE 230
I L ++ L D RL + VA +N SI+ +++IDA R +S+ G E
Sbjct: 243 TFLRIVGSELIQKYLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGE 299
>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 = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 131 RILTDIKQF-VADPAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGELE 179
R L ++ Q+ V P +L G+ +G L YGPPGCGK+ A+A E +
Sbjct: 25 RELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQ 74
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 40.8 bits (94), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 40/77 (51%), Gaps = 7/77 (9%)
Query: 155 RGYLLYGPPGCGKSSFITALAGELE---FGICVLNLSER--GLTDDRLNHLLSVAP--QN 207
RG LL+GPPG GK+ A+A E F I +L+ + G + + L +VA Q
Sbjct: 149 RGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKLVRALFAVARELQP 208
Query: 208 SIILLEDIDAAFVTREE 224
SII ++ +D+ R E
Sbjct: 209 SIIFIDQVDSLLCERRE 225
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 40.4 bits (93), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 44/91 (48%), Gaps = 7/91 (7%)
Query: 145 WYLDRGIPYRRGYLLYGPPGCGKSSFITALAGELEFGICVLNLSE-----RGLTDDRLNH 199
Y GI RG LLYGPPG GK+ + A+A + +N SE G +
Sbjct: 197 LYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGSEFVHKYLGEGPRMVRD 256
Query: 200 LLSVAPQN--SIILLEDIDAAFVTREESSQG 228
+ +A +N SII ++++D+ R ++ G
Sbjct: 257 VFRLARENAPSIIFIDEVDSIATKRFDAQTG 287
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 29/96 (30%), Positives = 46/96 (47%), Gaps = 7/96 (7%)
Query: 140 VADPAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGELEFGICVLNLSER-----GLTD 194
V P + GI +G +LYGPPG GK+ A+A + ++ +E G
Sbjct: 168 VKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKFIRVSGAELVQKYIGEGS 227
Query: 195 DRLNHLLSVAPQN--SIILLEDIDAAFVTREESSQG 228
+ L +A ++ SII +++ID+ TR E S G
Sbjct: 228 RMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGG 263
>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 = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 31/103 (30%), Positives = 52/103 (50%), Gaps = 10/103 (9%)
Query: 125 DSGVADRILTDIKQ---FVADPAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGELE-- 179
D G A+ + ++K+ F+ DP+ + G +G LL GPPG G + A+AGE
Sbjct: 17 DVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGATLLARAVAGEANVP 76
Query: 180 -FGICVLNLSE--RGLTDDRLNHLLSVAPQNS--IILLEDIDA 217
F I + E G+ R+ L + A ++ I+ +++IDA
Sbjct: 77 FFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDA 119
>pdb|3OAX|A Chain A, Crystal Structure Of Bovine Rhodopsin With Beta-Ionone
pdb|3OAX|B Chain B, Crystal Structure Of Bovine Rhodopsin With Beta-Ionone
pdb|1GZM|A Chain A, Structure Of Bovine Rhodopsin In A Trigonal Crystal Form
pdb|1GZM|B Chain B, Structure Of Bovine Rhodopsin In A Trigonal Crystal Form
pdb|1HZX|A Chain A, Crystal Structure Of Bovine Rhodopsin
pdb|1HZX|B Chain B, Crystal Structure Of Bovine Rhodopsin
pdb|2I36|A Chain A, Crystal Structure Of Trigonal Crystal Form Of Ground-State
Rhodopsin
pdb|2I36|B Chain B, Crystal Structure Of Trigonal Crystal Form Of Ground-State
Rhodopsin
pdb|2I36|C Chain C, Crystal Structure Of Trigonal Crystal Form Of Ground-State
Rhodopsin
pdb|2I35|A Chain A, Crystal Structure Of Rhombohedral Crystal Form Of
Ground-State Rhodopsin
pdb|2I37|A Chain A, Crystal Structure Of A Photoactivated Rhodopsin
pdb|2I37|B Chain B, Crystal Structure Of A Photoactivated Rhodopsin
pdb|2I37|C Chain C, Crystal Structure Of A Photoactivated Rhodopsin
pdb|2HPY|A Chain A, Crystallographic Model Of Lumirhodopsin
pdb|2HPY|B Chain B, Crystallographic Model Of Lumirhodopsin
pdb|2PED|A Chain A, Crystallographic Model Of 9-Cis-Rhodopsin
pdb|2PED|B Chain B, Crystallographic Model Of 9-Cis-Rhodopsin
pdb|2G87|A Chain A, Crystallographic Model Of Bathorhodopsin
pdb|2G87|B Chain B, Crystallographic Model Of Bathorhodopsin
pdb|1L9H|A Chain A, Crystal Structure Of Bovine Rhodopsin At 2.6 Angstroms
Resolution
pdb|1L9H|B Chain B, Crystal Structure Of Bovine Rhodopsin At 2.6 Angstroms
Resolution
pdb|1U19|A Chain A, Crystal Structure Of Bovine Rhodopsin At 2.2 Angstroms
Resolution
pdb|1U19|B Chain B, Crystal Structure Of Bovine Rhodopsin At 2.2 Angstroms
Resolution
Length = 349
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 32/79 (40%), Gaps = 8/79 (10%)
Query: 112 HPKRRRPLNSVVLDSGVADRILTDIKQFVADPAWYLDRGIPYRRGYLLYGPPGCGKSSFI 171
H K R PLN ++L+ VAD + + GY ++GP GC F
Sbjct: 66 HKKLRTPLNYILLNLAVADLFMVF--------GGFTTTLYTSLHGYFVFGPTGCNLEGFF 117
Query: 172 TALAGELEFGICVLNLSER 190
L GE+ V+ ER
Sbjct: 118 ATLGGEIALWSLVVLAIER 136
>pdb|1JFP|A Chain A, Structure Of Bovine Rhodopsin (Dark Adapted)
pdb|1LN6|A Chain A, Structure Of Bovine Rhodopsin (Metarhodopsin Ii)
pdb|3CAP|A Chain A, Crystal Structure Of Native Opsin: The G Protein-Coupled
Receptor Rhodopsin In Its Ligand-Free State
pdb|3CAP|B Chain B, Crystal Structure Of Native Opsin: The G Protein-Coupled
Receptor Rhodopsin In Its Ligand-Free State
pdb|3C9L|A Chain A, Structure Of Ground-State Bovine Rhodospin In A Hexagonal
Crystal Form
pdb|1F88|A Chain A, Crystal Structure Of Bovine Rhodopsin
pdb|1F88|B Chain B, Crystal Structure Of Bovine Rhodopsin
pdb|3DQB|A Chain A, Crystal Structure Of The Active G-protein-coupled Receptor
Opsin In Complex With A C-terminal Peptide Derived From
The Galpha Subunit Of Transducin
pdb|3PQR|A Chain A, Crystal Structure Of Metarhodopsin Ii In Complex With A
C-Terminal Peptide Derived From The Galpha Subunit Of
Transducin
pdb|3PXO|A Chain A, Crystal Structure Of Metarhodopsin Ii
Length = 348
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 32/79 (40%), Gaps = 8/79 (10%)
Query: 112 HPKRRRPLNSVVLDSGVADRILTDIKQFVADPAWYLDRGIPYRRGYLLYGPPGCGKSSFI 171
H K R PLN ++L+ VAD + + GY ++GP GC F
Sbjct: 65 HKKLRTPLNYILLNLAVADLFMVF--------GGFTTTLYTSLHGYFVFGPTGCNLEGFF 116
Query: 172 TALAGELEFGICVLNLSER 190
L GE+ V+ ER
Sbjct: 117 ATLGGEIALWSLVVLAIER 135
>pdb|2X72|A Chain A, Crystal Structure Of The Constitutively Active E113q,N2c,
D282c Rhodopsin Mutant With Bound Galphact Peptide
Length = 349
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 32/79 (40%), Gaps = 8/79 (10%)
Query: 112 HPKRRRPLNSVVLDSGVADRILTDIKQFVADPAWYLDRGIPYRRGYLLYGPPGCGKSSFI 171
H K R PLN ++L+ VAD + + GY ++GP GC F
Sbjct: 66 HKKLRTPLNYILLNLAVADLFMVF--------GGFTTTLYTSLHGYFVFGPTGCNLQGFF 117
Query: 172 TALAGELEFGICVLNLSER 190
L GE+ V+ ER
Sbjct: 118 ATLGGEIALWSLVVLAIER 136
>pdb|2J4Y|A Chain A, Crystal Structure Of A Rhodopsin Stabilizing Mutant
Expressed In Mammalian Cells
pdb|2J4Y|B Chain B, Crystal Structure Of A Rhodopsin Stabilizing Mutant
Expressed In Mammalian Cells
Length = 349
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 32/79 (40%), Gaps = 8/79 (10%)
Query: 112 HPKRRRPLNSVVLDSGVADRILTDIKQFVADPAWYLDRGIPYRRGYLLYGPPGCGKSSFI 171
H K R PLN ++L+ VAD + + GY ++GP GC F
Sbjct: 66 HKKLRTPLNYILLNLAVADLFMVF--------GGFTTTLYTSLHGYFVFGPTGCNLEGFF 117
Query: 172 TALAGELEFGICVLNLSER 190
L GE+ V+ ER
Sbjct: 118 ATLGGEIALWSLVVLAIER 136
>pdb|3C9M|A Chain A, Structure Of A Mutant Bovine Rhodopsin In Hexagonal
Crystal Form
Length = 348
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 32/79 (40%), Gaps = 8/79 (10%)
Query: 112 HPKRRRPLNSVVLDSGVADRILTDIKQFVADPAWYLDRGIPYRRGYLLYGPPGCGKSSFI 171
H K R PLN ++L+ VAD + + GY ++GP GC F
Sbjct: 65 HKKLRTPLNYILLNLAVADLFMVF--------GGFTTTLYTSLHGYFVFGPTGCNLEGFF 116
Query: 172 TALAGELEFGICVLNLSER 190
L GE+ V+ ER
Sbjct: 117 ATLGGEIALWSLVVLAIER 135
>pdb|4A4M|A Chain A, Crystal Structure Of The Light-Activated Constitutively
Active N2c,M257y,D282c Rhodopsin Mutant In Complex With
A Peptide Resembling The C-Terminus Of The
Galpha-Protein Subunit (Gact)
Length = 349
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 32/79 (40%), Gaps = 8/79 (10%)
Query: 112 HPKRRRPLNSVVLDSGVADRILTDIKQFVADPAWYLDRGIPYRRGYLLYGPPGCGKSSFI 171
H K R PLN ++L+ VAD + + GY ++GP GC F
Sbjct: 66 HKKLRTPLNYILLNLAVADLFMVF--------GGFTTTLYTSLHGYFVFGPTGCNLEGFF 117
Query: 172 TALAGELEFGICVLNLSER 190
L GE+ V+ ER
Sbjct: 118 ATLGGEIALWSLVVLAIER 136
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 51/106 (48%), Gaps = 7/106 (6%)
Query: 133 LTDIKQFVADPAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGELE---FGICVLNLSE 189
+ ++ +++ +P+ + G +G L+ GPPG GK+ A+AGE + F I + E
Sbjct: 24 VAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVE 83
Query: 190 R--GLTDDRLNHLLSVAPQNS--IILLEDIDAAFVTREESSQGLED 231
G+ R+ + A + + II +++IDA R G D
Sbjct: 84 MFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHD 129
>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 = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 34/117 (29%), Positives = 50/117 (42%), Gaps = 15/117 (12%)
Query: 125 DSGVADRILTDIKQFV----ADPAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGELEF 180
D G ++ + +I++ V P + GI +G LLYGPPG GK+ A+A E
Sbjct: 18 DIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNA 77
Query: 181 GICVLNLSE---------RGLTDDRLNHLLSVAPQNSIILLEDIDAAFVTREESSQG 228
+ SE L D AP SII +++IDA R ++ G
Sbjct: 78 TFIRVVGSELVKKFIGEGASLVKDIFKLAKEKAP--SIIFIDEIDAIAAKRTDALTG 132
>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 = 36.6 bits (83), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 39/69 (56%), Gaps = 13/69 (18%)
Query: 130 DRILTDIKQFVADPAWYLDRG-IPYRRGYLLYGPPGCGKSSFITALAGELEFGICVLNLS 188
+ ++T +++FV D G +P+ L YGPPG GK+S I ALA E+ +G N+
Sbjct: 31 NEVITTVRKFV-------DEGKLPH---LLFYGPPGTGKTSTIVALAREI-YGKNYSNMV 79
Query: 189 -ERGLTDDR 196
E +DDR
Sbjct: 80 LELNASDDR 88
>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 = 36.2 bits (82), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 31/99 (31%), Positives = 49/99 (49%), Gaps = 14/99 (14%)
Query: 136 IKQFVADPAWYLD-----RGIPYRRGYLLYGPPGCGKS---SFITALAGELEFGICVLNL 187
IK+ V P D RG P +G LL+GPPG GK+ I + +G F I +L
Sbjct: 96 IKEIVVWPMLRPDIFTGLRGPP--KGILLFGPPGTGKTLIGKCIASQSGATFFSISASSL 153
Query: 188 SER--GLTDDRLNHLLSVA--PQNSIILLEDIDAAFVTR 222
+ + G + + L +VA Q ++I +++ID+ R
Sbjct: 154 TSKWVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQR 192
>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 = 34.7 bits (78), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 37/76 (48%), Gaps = 7/76 (9%)
Query: 155 RGYLLYGPPGCGKSSFITALAGELEFGICVLNLSERGLTDDRLNHLLSVAPQNSIILLED 214
R +LYGPPG GK++ +A EL + I E+ +D R LL+ +N++ +
Sbjct: 78 RAAMLYGPPGIGKTTAAHLVAQELGYDIL-----EQNASDVRSKTLLNAGVKNALDNMSV 132
Query: 215 IDAAFVTREESSQGLE 230
+ + E +Q L
Sbjct: 133 V--GYFKHNEEAQNLN 146
>pdb|3B9P|A Chain A, Spastin
Length = 297
Score = 34.7 bits (78), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 37/71 (52%), Gaps = 11/71 (15%)
Query: 155 RGYLLYGPPGCGKSSFITALAGELEFGICVLNLSERGLT-------DDRLNHLLSVAP-- 205
+G LL+GPPG GK+ A+A E LN+S LT + + L +VA
Sbjct: 55 KGLLLFGPPGNGKTLLARAVATEC--SATFLNISAASLTSKYVGDGEKLVRALFAVARHM 112
Query: 206 QNSIILLEDID 216
Q SII ++++D
Sbjct: 113 QPSIIFIDEVD 123
>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C-
Terminal Aaa-Atpase Domain
Length = 274
Score = 34.3 bits (77), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 21/38 (55%)
Query: 140 VADPAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGE 177
V +P + G+ G LL GPPGCGK+ A+A E
Sbjct: 30 VRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANE 67
>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 34.3 bits (77), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 19/32 (59%)
Query: 146 YLDRGIPYRRGYLLYGPPGCGKSSFITALAGE 177
+ D GI +G L+YGPPG GK+ A A +
Sbjct: 207 FKDMGIRAPKGALMYGPPGTGKTLLARACAAQ 238
>pdb|1SVL|A Chain A, Co-Crystal Structure Of Sv40 Large T Antigen Helicase
Domain And Adp
pdb|1SVL|B Chain B, Co-Crystal Structure Of Sv40 Large T Antigen Helicase
Domain And Adp
pdb|1SVL|C Chain C, Co-Crystal Structure Of Sv40 Large T Antigen Helicase
Domain And Adp
pdb|1SVM|A Chain A, Co-Crystal Structure Of Sv40 Large T Antigen Helicase
Domain And Atp
pdb|1SVM|B Chain B, Co-Crystal Structure Of Sv40 Large T Antigen Helicase
Domain And Atp
pdb|1SVM|C Chain C, Co-Crystal Structure Of Sv40 Large T Antigen Helicase
Domain And Atp
pdb|1SVM|D Chain D, Co-Crystal Structure Of Sv40 Large T Antigen Helicase
Domain And Atp
pdb|1SVM|E Chain E, Co-Crystal Structure Of Sv40 Large T Antigen Helicase
Domain And Atp
pdb|1SVM|F Chain F, Co-Crystal Structure Of Sv40 Large T Antigen Helicase
Domain And Atp
pdb|1SVO|A Chain A, Structure Of Sv40 Large T Antigen Helicase Domain
pdb|1SVO|B Chain B, Structure Of Sv40 Large T Antigen Helicase Domain
Length = 377
Score = 34.3 bits (77), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 29/87 (33%), Positives = 43/87 (49%), Gaps = 9/87 (10%)
Query: 150 GIPYRRGYLLYGPPGCGKSSFITALAGELEF-GICVLNLSERGLTDDRLNHLLSVAPQNS 208
IP +R +L GP GK++ AL LE G LN++ L DRLN L VA
Sbjct: 165 NIPKKRYWLFKGPIDSGKTTLAAAL---LELCGGKALNVN---LPLDRLNFELGVAIDQF 218
Query: 209 IILLEDIDAAFVTREE--SSQGLEDID 233
+++ ED+ + S QG+ ++D
Sbjct: 219 LVVFEDVKGTGGESRDLPSGQGINNLD 245
>pdb|1N25|A Chain A, Crystal Structure Of The Sv40 Large T Antigen Helicase
Domain
pdb|1N25|B Chain B, Crystal Structure Of The Sv40 Large T Antigen Helicase
Domain
Length = 368
Score = 34.3 bits (77), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 29/87 (33%), Positives = 43/87 (49%), Gaps = 9/87 (10%)
Query: 150 GIPYRRGYLLYGPPGCGKSSFITALAGELEF-GICVLNLSERGLTDDRLNHLLSVAPQNS 208
IP +R +L GP GK++ AL LE G LN++ L DRLN L VA
Sbjct: 156 NIPKKRYWLFKGPIDSGKTTLAAAL---LELCGGKALNVN---LPLDRLNFELGVAIDQF 209
Query: 209 IILLEDIDAAFVTREE--SSQGLEDID 233
+++ ED+ + S QG+ ++D
Sbjct: 210 LVVFEDVKGTGGESRDLPSGQGINNLD 236
>pdb|2H1L|A Chain A, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|B Chain B, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|C Chain C, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|D Chain D, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|E Chain E, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|F Chain F, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|G Chain G, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|H Chain H, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|I Chain I, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|J Chain J, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|K Chain K, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|L Chain L, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
Length = 370
Score = 33.9 bits (76), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 29/87 (33%), Positives = 43/87 (49%), Gaps = 9/87 (10%)
Query: 150 GIPYRRGYLLYGPPGCGKSSFITALAGELEF-GICVLNLSERGLTDDRLNHLLSVAPQNS 208
IP +R +L GP GK++ AL LE G LN++ L DRLN L VA
Sbjct: 158 NIPKKRYWLFKGPIDSGKTTLAAAL---LELCGGKALNVN---LPLDRLNFELGVAIDQF 211
Query: 209 IILLEDIDAAFVTREE--SSQGLEDID 233
+++ ED+ + S QG+ ++D
Sbjct: 212 LVVFEDVKGTGGESRDLPSGQGINNLD 238
>pdb|4E2I|A Chain A, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|B Chain B, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|C Chain C, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|D Chain D, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|E Chain E, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|F Chain F, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|G Chain G, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|H Chain H, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|I Chain I, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|J Chain J, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|K Chain K, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|L Chain L, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
Length = 362
Score = 33.9 bits (76), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 29/87 (33%), Positives = 43/87 (49%), Gaps = 9/87 (10%)
Query: 150 GIPYRRGYLLYGPPGCGKSSFITALAGELEF-GICVLNLSERGLTDDRLNHLLSVAPQNS 208
IP +R +L GP GK++ AL LE G LN++ L DRLN L VA
Sbjct: 150 NIPKKRYWLFKGPIDSGKTTLAAAL---LELCGGKALNVN---LPLDRLNFELGVAIDQF 203
Query: 209 IILLEDIDAAFVTREE--SSQGLEDID 233
+++ ED+ + S QG+ ++D
Sbjct: 204 LVVFEDVKGTGGESRDLPSGQGINNLD 230
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 33.5 bits (75), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 22/39 (56%)
Query: 140 VADPAWYLDRGIPYRRGYLLYGPPGCGKSSFITALAGEL 178
+ +P + GI +G LLYGPPG GK+ A+A +
Sbjct: 201 LKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATI 239
>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 = 32.7 bits (73), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 22/44 (50%), Positives = 26/44 (59%), Gaps = 9/44 (20%)
Query: 158 LLYGPPGCGKSSFITALAGELEFG-------ICVLNLS-ERGLT 193
L YGPPG GK+S I AL EL +G I LN S ERG++
Sbjct: 62 LFYGPPGTGKTSTILALTKEL-YGPDLMKSRILELNASDERGIS 104
>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 = 30.8 bits (68), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 36/82 (43%), Gaps = 18/82 (21%)
Query: 154 RRGYLLYGPPGCGKSSFITALAGEL--------------EFGICVLNLSERGLTDDRLNH 199
++G LYG G GKS + A+A EL F I V N G + ++
Sbjct: 152 QKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHFPSFAIDVKNAISNGSVKEEIDA 211
Query: 200 LLSVAPQNSIILLEDIDAAFVT 221
+ +V +++L+DI A T
Sbjct: 212 VKNVP----VLILDDIGAEQAT 229
>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 = 30.4 bits (67), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 13/24 (54%), Positives = 16/24 (66%)
Query: 155 RGYLLYGPPGCGKSSFITALAGEL 178
R LL GPPG GK++ A+A EL
Sbjct: 64 RAVLLAGPPGTGKTALALAIAQEL 87
>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 467
Score = 30.4 bits (67), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 19/33 (57%)
Query: 143 PAWYLDRGIPYRRGYLLYGPPGCGKSSFITALA 175
P + GI +G LLYGPPG GK+ A+A
Sbjct: 232 PERFATLGIDPPKGILLYGPPGTGKTLCARAVA 264
>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 = 30.4 bits (67), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 13/24 (54%), Positives = 16/24 (66%)
Query: 155 RGYLLYGPPGCGKSSFITALAGEL 178
R LL GPPG GK++ A+A EL
Sbjct: 78 RAVLLAGPPGTGKTALALAIAQEL 101
>pdb|1EDS|A Chain A, Solution Structure Of Intradiskal Loop 1 Of Bovine
Rhodopsin (Rhodopsin Residues 92-123)
Length = 31
Score = 30.0 bits (66), Expect = 1.1, Method: Composition-based stats.
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 156 GYLLYGPPGCGKSSFITALAGEL 178
GY ++GP GC F L GE+
Sbjct: 9 GYFVFGPTGCNLEGFFATLGGEI 31
>pdb|1CKE|A Chain A, Cmp Kinase From Escherichia Coli Free Enzyme Structure
Length = 227
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 161 GPPGCGKSSFITALAGELEFGICVLNLSERGLTDDRLNHLLSVAPQNSII-LLEDIDAAF 219
GP G GK + A+A L++ + R L L+H + VA +++++ L +D F
Sbjct: 12 GPSGAGKGTLCKAMAEALQWHLLDSGAIYRVLALAALHHHVDVASEDALVPLASHLDVRF 71
Query: 220 VT 221
V+
Sbjct: 72 VS 73
>pdb|1IN8|A Chain A, Thermotoga Maritima Ruvb T158v
Length = 334
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 158 LLYGPPGCGKSSFITALAGELEFGICV 184
LL GPPG GK++ +A EL+ I V
Sbjct: 55 LLAGPPGLGKTTLAHIIASELQTNIHV 81
>pdb|2FEM|A Chain A, Mutant R188m Of The Cytidine Monophosphate Kinase From E.
Coli
pdb|2FEO|A Chain A, Mutant R188m Of The Cytidine Monophosphate Kinase From E.
Coli Complexed With Dcmp
Length = 227
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 161 GPPGCGKSSFITALAGELEFGICVLNLSERGLTDDRLNHLLSVAPQNSII-LLEDIDAAF 219
GP G GK + A+A L++ + R L L+H + VA +++++ L +D F
Sbjct: 12 GPSGAGKGTLCKAMAEALQWHLLDSGAIYRVLALAALHHHVDVASEDALVPLASHLDVRF 71
Query: 220 VT 221
V+
Sbjct: 72 VS 73
>pdb|1IN4|A Chain A, Thermotoga Maritima Ruvb Holliday Junction Branch
Migration Motor
Length = 334
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 158 LLYGPPGCGKSSFITALAGELEFGICV 184
LL GPPG GK++ +A EL+ I V
Sbjct: 55 LLAGPPGLGKTTLAHIIASELQTNIHV 81
>pdb|1IN5|A Chain A, Thermogota Maritima Ruvb A156s Mutant
Length = 334
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 158 LLYGPPGCGKSSFITALAGELEFGICV 184
LL GPPG GK++ +A EL+ I V
Sbjct: 55 LLAGPPGLGKTTLAHIIASELQTNIHV 81
>pdb|2CMK|A Chain A, Cytidine Monophosphate Kinase In Complex With Cytidine-Di-
Phosphate
pdb|1KDO|A Chain A, Cytidine Monophosphate Kinase From E. Coli In Complex With
Cytidine Monophosphate
pdb|1KDO|B Chain B, Cytidine Monophosphate Kinase From E. Coli In Complex With
Cytidine Monophosphate
pdb|1KDP|A Chain A, Cytidine Monophosphate Kinase From E. Coli In Complex With
2'-Deoxy-Cytidine Monophosphate
pdb|1KDP|B Chain B, Cytidine Monophosphate Kinase From E. Coli In Complex With
2'-Deoxy-Cytidine Monophosphate
pdb|1KDR|A Chain A, Cytidine Monophosphate Kinase From E.Coli In Complex With
Ara-Cytidine Monophosphate
pdb|1KDR|B Chain B, Cytidine Monophosphate Kinase From E.Coli In Complex With
Ara-Cytidine Monophosphate
pdb|1KDT|A Chain A, Cytidine Monophosphate Kinase From E.Coli In Complex With
2',3'-Dideoxy-Cytidine Monophosphate
pdb|1KDT|B Chain B, Cytidine Monophosphate Kinase From E.Coli In Complex With
2',3'-Dideoxy-Cytidine Monophosphate
Length = 227
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 161 GPPGCGKSSFITALAGELEFGICVLNLSERGLTDDRLNHLLSVAPQNSII-LLEDIDAAF 219
GP G GK + A+A L++ + R L L+H + VA +++++ L +D F
Sbjct: 12 GPSGAGKGTLCKAMAEALQWHLLDSGAIYRVLALAALHHHVDVASEDALVPLASHLDVRF 71
Query: 220 VT 221
V+
Sbjct: 72 VS 73
>pdb|1IN7|A Chain A, Thermotoga Maritima Ruvb R170a
Length = 334
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 158 LLYGPPGCGKSSFITALAGELEFGICV 184
LL GPPG GK++ +A EL+ I V
Sbjct: 55 LLAGPPGLGKTTLAHIIASELQTNIHV 81
>pdb|1J7K|A Chain A, Thermotoga Maritima Ruvb P216g Mutant
Length = 334
Score = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 158 LLYGPPGCGKSSFITALAGELEFGICV 184
LL GPPG GK++ +A EL+ I V
Sbjct: 55 LLAGPPGLGKTTLAHIIASELQTNIHV 81
>pdb|4B3F|X Chain X, Crystal Structure Of 1ghmbp2 Helicase
Length = 646
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 50/100 (50%), Gaps = 15/100 (15%)
Query: 158 LLYGPPGCGKSSFITALAGE-LEFGICVLNLSERGLTDDRLNHLLSVAPQNSI------I 210
+++GPPG GK++ + + + ++ G+ VL + + D L L++ Q +
Sbjct: 209 IIHGPPGTGKTTTVVEIILQAVKQGLKVLCCAPSNIAVDNLVERLALCKQRILRLGHPAR 268
Query: 211 LLEDIDA----AFVTREESSQGL----EDIDAAFVTREES 242
LLE I A + R +S+Q + +DID FV +++
Sbjct: 269 LLESIQQHSLDAVLARSDSAQIVADIRKDIDQVFVKNKKT 308
>pdb|4B3G|A Chain A, Crystal Structure Of Ighmbp2 Helicase In Complex With Rna
pdb|4B3G|B Chain B, Crystal Structure Of Ighmbp2 Helicase In Complex With Rna
Length = 646
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 50/100 (50%), Gaps = 15/100 (15%)
Query: 158 LLYGPPGCGKSSFITALAGE-LEFGICVLNLSERGLTDDRLNHLLSVAPQNSI------I 210
+++GPPG GK++ + + + ++ G+ VL + + D L L++ Q +
Sbjct: 209 IIHGPPGTGKTTTVVEIILQAVKQGLKVLCCAPSNIAVDNLVERLALCKQRILRLGHPAR 268
Query: 211 LLEDIDA----AFVTREESSQGL----EDIDAAFVTREES 242
LLE I A + R +S+Q + +DID FV +++
Sbjct: 269 LLESIQQHSLDAVLARSDSAQIVADIRKDIDQVFVKNKKT 308
>pdb|1UM8|A Chain A, Crystal Structure Of Helicobacter Pylori Clpx
Length = 376
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 23/97 (23%), Positives = 43/97 (44%), Gaps = 20/97 (20%)
Query: 154 RRGYLLYGPPGCGKSSFITALAGELEFGICV---LNLSERGLTDDRLNHLLS-------- 202
+ LL GP G GK+ LA L+ I + +L+E G + + ++L+
Sbjct: 72 KSNILLIGPTGSGKTLMAQTLAKHLDIPIAISDATSLTEAGYVGEDVENILTRLLQASDW 131
Query: 203 --VAPQNSIILLEDIDAA-------FVTREESSQGLE 230
Q I+ +++ID +TR+ S +G++
Sbjct: 132 NVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQ 168
>pdb|2BMO|A Chain A, The Crystal Structure Of Nitrobenzene Dioxygenase
pdb|2BMQ|A Chain A, The Crystal Structure Of Nitrobenzene Dioxygenase In
Complex With Nitrobenzene
pdb|2BMR|A Chain A, The Crystal Structure Of Nitrobenzene Dioxygenase In
Complex With 3-Nitrotoluene
Length = 447
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 139 FVADPAWYLDRGIPYRRGYLLYGPPG 164
++ D AWYL+ Y G L GPPG
Sbjct: 160 YLGDAAWYLEPTFKYSGGLELVGPPG 185
>pdb|2YV5|A Chain A, Crystal Structure Of Yjeq From Aquifex Aeolicus
Length = 302
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 135 DIKQFVADPAWYLDRGIPYRRGYL--LYGPPGCGKSSFITALAGE 177
D+ + A +D + Y G++ L GP G GKSS ++ L GE
Sbjct: 144 DVLKVSAKTGEGIDELVDYLEGFICILAGPSGVGKSSILSRLTGE 188
>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 = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 30/56 (53%), Gaps = 5/56 (8%)
Query: 154 RRGYLLYGPPGCGKSSFI-TALAGELEFGICVLNLSERGLTDDRLNHLLSVAPQNS 208
+RG +L GPPG GK+ + AL + + +N S+ T+ H+LS +++
Sbjct: 1048 KRGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKDTTTE----HILSALHRHT 1099
>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 = 29.3 bits (64), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 30/56 (53%), Gaps = 5/56 (8%)
Query: 154 RRGYLLYGPPGCGKSSFI-TALAGELEFGICVLNLSERGLTDDRLNHLLSVAPQNS 208
+RG +L GPPG GK+ + AL + + +N S+ T+ H+LS +++
Sbjct: 1267 KRGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKDTTTE----HILSALHRHT 1318
>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
Length = 312
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 158 LLYGPPGCGKSSFITALAGELEFGICV 184
LL+GPPG GK++ +A EL + V
Sbjct: 42 LLFGPPGLGKTTLAHVIAHELGVNLRV 68
>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii
Length = 318
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 158 LLYGPPGCGKSSFITALAGELEFGICV 184
LL+GPPG GK++ +A EL + V
Sbjct: 42 LLFGPPGLGKTTLAHVIAHELGVNLRV 68
>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 = 28.9 bits (63), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 158 LLYGPPGCGKSSFITALAGELEFGICV 184
LL+GPPG GK++ +A EL + V
Sbjct: 42 LLFGPPGLGKTTLAHVIAHELGVNLRV 68
>pdb|1NDO|A Chain A, Napthalene 1,2-Dioxygenase
pdb|1NDO|C Chain C, Napthalene 1,2-Dioxygenase
pdb|1NDO|E Chain E, Napthalene 1,2-Dioxygenase
pdb|1EG9|A Chain A, Naphthalene 1,2-Dioxygenase With Indole Bound In The
Active Site.
pdb|1O7M|A Chain A, Naphthalene 1,2-Dioxygenase, Binary Complex With Dioxygen
pdb|1O7N|A Chain A, Naphthalene 1,2-dioxygenase, Ternary Complex With Dioxygen
And Indole
pdb|1O7P|A Chain A, Naphthalene 1,2-Dioxygenase, Product Complex
pdb|1O7W|A Chain A, Naphthalene 1,2-Dioxygenase, Fully Reduced Form
pdb|1O7G|A Chain A, Naphthalene 1,2-Dioxygenase With Naphthalene Bound In The
Active Site.
pdb|1O7H|A Chain A, Naphthalene 1,2-Dioxygenase With Oxidized Rieske Iron
Sulphur Center Site.
pdb|1UUV|A Chain A, Naphthalene 1,2-Dioxygenase With Nitric Oxide And Indole
Bound In The Active Site.
pdb|1UUW|A Chain A, Naphthalene 1,2-dioxygenase With Nitric Oxide Bound In The
Active Site.
pdb|2HMK|A Chain A, Crystal Structure Of Naphthalene 1,2-Dioxygenase Bound To
Phenanthrene
pdb|2HMM|A Chain A, Crystal Structure Of Naphthalene 1,2-Dioxygenase Bound To
Anthracene
pdb|2HMO|A Chain A, Crystal Structure Of Naphthalene 1,2-Dioxygenase Bound To
3- Nitrotoluene
Length = 449
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 19/38 (50%)
Query: 127 GVADRILTDIKQFVADPAWYLDRGIPYRRGYLLYGPPG 164
G D+ + ++ D AWYL+ + G L GPPG
Sbjct: 150 GCFDQEAPPLMDYLGDAAWYLEPMFKHSGGLELVGPPG 187
>pdb|2HMJ|A Chain A, Crystal Structure Of The Naphthalene 1,2-Dioxygenase
Phe-352-Val Mutant.
pdb|2HML|A Chain A, Crystal Structure Of The Naphthalene 1,2-Dioxygenase F352v
Mutant Bound To Phenanthrene.
pdb|2HMN|A Chain A, Crystal Structure Of The Naphthalene 1,2-Dioxygenase F352v
Mutant Bound To Anthracene
Length = 449
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 19/38 (50%)
Query: 127 GVADRILTDIKQFVADPAWYLDRGIPYRRGYLLYGPPG 164
G D+ + ++ D AWYL+ + G L GPPG
Sbjct: 150 GCFDQEAPPLMDYLGDAAWYLEPMFKHSGGLELVGPPG 187
>pdb|4E22|A Chain A, Structure Of Cytidine Monophosphate Kinase From Yersinia
Pseudotuberculosis
Length = 252
Score = 27.7 bits (60), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 31/63 (49%), Gaps = 1/63 (1%)
Query: 161 GPPGCGKSSFITALAGELEFGICVLNLSERGLTDDRLNHLLSVAPQNSII-LLEDIDAAF 219
GP G GK + ALA L + + R L L+H + ++ + +++ L +D F
Sbjct: 34 GPSGAGKGTLCKALAESLNWRLLDSGAIYRVLALAALHHQVDISTEEALVPLAAHLDVRF 93
Query: 220 VTR 222
V++
Sbjct: 94 VSQ 96
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
0.320 0.139 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,242,016
Number of Sequences: 62578
Number of extensions: 226079
Number of successful extensions: 724
Number of sequences better than 100.0: 71
Number of HSP's better than 100.0 without gapping: 55
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 653
Number of HSP's gapped (non-prelim): 75
length of query: 244
length of database: 14,973,337
effective HSP length: 96
effective length of query: 148
effective length of database: 8,965,849
effective search space: 1326945652
effective search space used: 1326945652
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)