RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15622
(217 letters)
>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding,
hydrolase; 2.70A {Drosophila melanogaster}
Length = 297
Score = 159 bits (405), Expect = 2e-48
Identities = 38/135 (28%), Positives = 72/135 (53%), Gaps = 6/135 (4%)
Query: 82 GASNFPWNIDDAFLRRLEKRIYVPLPSSSGRQELLRLILRQVDLA-SDLDLELVSDQLEG 140
A+N P +D+A LRR KR+YV LP R+ LL +L++ L ++ +G
Sbjct: 164 AATNRPQELDEAALRRFTKRVYVSLPDEQTRELLLNRLLQKQGSPLDTEALRRLAKITDG 223
Query: 141 YSASDIVVVCRDAAFMAMRAAIRGKSVPQIQAIPMAQLKRPVTKADFEMAIAKCRKTVTA 200
YS SD+ + +DAA +R Q++ + ++ + R +T+ DF ++ + R++V
Sbjct: 224 YSGSDLTALAKDAALEPIRELNV----EQVKCLDISAM-RAITEQDFHSSLKRIRRSVAP 278
Query: 201 ADIRQFEEWNEKFGS 215
+ +E+W++ +G
Sbjct: 279 QSLNSYEKWSQDYGD 293
Score = 119 bits (300), Expect = 5e-33
Identities = 37/73 (50%), Positives = 50/73 (68%)
Query: 1 MKRLIKRDIIVERPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQHIRKPWKGVLMVGP 60
+ +LI +I+ V+W+DIA Q AK+ LQE VILP +P F +R P KG+L+ GP
Sbjct: 3 LVQLILDEIVEGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGP 62
Query: 61 PGTGKTMLAKAVA 73
PG GKT+LA+AVA
Sbjct: 63 PGNGKTLLARAVA 75
>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural
genomics consortium, ATP- hydrolase, magnesium,
metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo
sapiens}
Length = 357
Score = 160 bits (407), Expect = 3e-48
Identities = 44/136 (32%), Positives = 77/136 (56%), Gaps = 6/136 (4%)
Query: 82 GASNFPWNIDDAFLRRLEKRIYVPLPSSSGRQELLRLIL-RQVDLASDLDLELVSDQLEG 140
GA+N P ID+A RRL KR+Y+PLP +S R++++ ++ ++ S+ ++E + Q +
Sbjct: 226 GATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQCCLSEEEIEQIVQQSDA 285
Query: 141 YSASDIVVVCRDAAFMAMRAAIRGKSVPQIQAIPMAQLKRPVTKADFEMAIAKCRKTVTA 200
+S +D+ +CR+A+ +R+ I I Q+ RP+ DFE A R +V+
Sbjct: 286 FSGADMTQLCREASLGPIRSLQTA----DIATITPDQV-RPIAYIDFENAFRTVRPSVSP 340
Query: 201 ADIRQFEEWNEKFGSS 216
D+ +E WN+ FG
Sbjct: 341 KDLELYENWNKTFGCG 356
Score = 121 bits (304), Expect = 4e-33
Identities = 32/73 (43%), Positives = 45/73 (61%)
Query: 1 MKRLIKRDIIVERPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQHIRKPWKGVLMVGP 60
M LI +I+ P V W DIA AK ++E V+ P+ +P F +R P KG+L+ GP
Sbjct: 66 MIELIMNEIMDHGPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGP 125
Query: 61 PGTGKTMLAKAVA 73
PGTGKT++ K +A
Sbjct: 126 PGTGKTLIGKCIA 138
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo
sapiens}
Length = 389
Score = 159 bits (405), Expect = 1e-47
Identities = 39/136 (28%), Positives = 74/136 (54%), Gaps = 6/136 (4%)
Query: 82 GASNFPWNIDDAFLRRLEKRIYVPLPSSSGRQELLRLILRQVD-LASDLDLELVSDQLEG 140
GA+N P +D+A LRR KR+YV LP+ R LL+ +L + + +L ++ +G
Sbjct: 257 GATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGSPLTQKELAQLARMTDG 316
Query: 141 YSASDIVVVCRDAAFMAMRAAIRGKSVPQIQAIPMAQLKRPVTKADFEMAIAKCRKTVTA 200
YS SD+ + +DAA +R Q++ + +++ R + +DF ++ K +++V+
Sbjct: 317 YSGSDLTALAKDAALGPIRELKPE----QVKNMSASEM-RNIRLSDFTESLKKIKRSVSP 371
Query: 201 ADIRQFEEWNEKFGSS 216
+ + WN+ FG +
Sbjct: 372 QTLEAYIRWNKDFGDT 387
Score = 119 bits (301), Expect = 2e-32
Identities = 37/73 (50%), Positives = 48/73 (65%)
Query: 1 MKRLIKRDIIVERPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQHIRKPWKGVLMVGP 60
+ LI +I+ V++ DIA Q AK+ LQE VILP +P F +R P +G+L+ GP
Sbjct: 97 LANLIMNEIVDNGTAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGP 156
Query: 61 PGTGKTMLAKAVA 73
PG GKTMLAKAVA
Sbjct: 157 PGNGKTMLAKAVA 169
>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase,
ATP-binding cassette, ATP-binding, endosome, MEM
nucleotide-binding; 2.70A {Saccharomyces cerevisiae}
PDB: 3eih_A* 2rko_A 3mhv_C
Length = 322
Score = 153 bits (388), Expect = 1e-45
Identities = 45/162 (27%), Positives = 65/162 (40%), Gaps = 27/162 (16%)
Query: 82 GASNFPWNIDDAFLRRLEKRIYVPLPSSSGRQELLRLILRQV-DLASDLDLELVSDQLEG 140
GA+N PW +D A RR E+RIY+PLP + R + + + + + D + EG
Sbjct: 159 GATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEG 218
Query: 141 YSASDIVVVCRDAAFMAMRAAIRGKSVPQI-------------------------QAIPM 175
YS SDI VV +DA +R + I
Sbjct: 219 YSGSDIAVVVKDALMQPIRKIQSATHFKDVSTEDDETRKLTPCSPGDDGAIEMSWTDIEA 278
Query: 176 AQLK-RPVTKADFEMAIAKCRKTVTAADIRQFEEWNEKFGSS 216
+LK +T DF AI R TV D+ + E++ FG
Sbjct: 279 DELKEPDLTIKDFLKAIKSTRPTVNEDDLLKQEQFTRDFGQE 320
Score = 121 bits (306), Expect = 1e-33
Identities = 36/69 (52%), Positives = 49/69 (71%)
Query: 5 IKRDIIVERPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQHIRKPWKGVLMVGPPGTG 64
I+ E+P+V+W D+A AK+ L+EAVILP++ P F+ RKP G+L+ GPPGTG
Sbjct: 4 PFTAILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTG 63
Query: 65 KTMLAKAVA 73
K+ LAKAVA
Sbjct: 64 KSYLAKAVA 72
>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo
sapiens}
Length = 322
Score = 152 bits (387), Expect = 1e-45
Identities = 40/168 (23%), Positives = 71/168 (42%), Gaps = 33/168 (19%)
Query: 82 GASNFPWNIDDAFLRRLEKRIYVPLPSSSGRQELLRLILRQVDLA-SDLDLELVSDQLEG 140
GA+N PW +D A RR EKRIY+PLP R + +L L + ++ D + + +G
Sbjct: 154 GATNIPWVLDSAIRRRFEKRIYIPLPEPHARAAMFKLHLGTTQNSLTEADFRELGRKTDG 213
Query: 141 YSASDIVVVCRDAAFMAMRAAIRGKSVPQIQA---------------------------- 172
YS +DI ++ RDA +R +++
Sbjct: 214 YSGADISIIVRDALMQPVRKVQSATHFKKVRGPSRADPNHLVDDLLTPCSPGDPGAIEMT 273
Query: 173 ---IPMAQLK-RPVTKADFEMAIAKCRKTVTAADIRQFEEWNEKFGSS 216
+P +L V+ +D +++ + TV D+ + +++ E FG
Sbjct: 274 WMDVPGDKLLEPVVSMSDMLRSLSNTKPTVNEHDLLKLKKFTEDFGQE 321
Score = 119 bits (301), Expect = 6e-33
Identities = 40/78 (51%), Positives = 54/78 (69%), Gaps = 5/78 (6%)
Query: 9 IIVERPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQHIRKPWKGVLMVGPPGTGKTML 68
I++ERP+V+WSD+A AK+ L+EAVILP++ P F R PW+G+L+ GPPGTGK+ L
Sbjct: 2 IVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYL 61
Query: 69 AKAVAIVYNQVHCGASNF 86
AKAVA + S F
Sbjct: 62 AKAVA---TE--ANNSTF 74
>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta
domain, C-terminal helix, ATP-binding, E
nucleotide-binding; 2.90A {Saccharomyces cerevisiae}
PDB: 2qpa_A*
Length = 355
Score = 152 bits (386), Expect = 4e-45
Identities = 46/162 (28%), Positives = 65/162 (40%), Gaps = 27/162 (16%)
Query: 82 GASNFPWNIDDAFLRRLEKRIYVPLPSSSGRQELLRLILRQV-DLASDLDLELVSDQLEG 140
GA+N PW +D A RR E+RIY+PLP + R + + + + + D + EG
Sbjct: 192 GATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPSVLTKEDYRTLGAMTEG 251
Query: 141 YSASDIVVVCRDAAFMAMRAAI-------------------------RGKSVPQIQAIPM 175
YS SDI VV +DA +R G I
Sbjct: 252 YSGSDIAVVVKDALMQPIRKIQSATHFKDVSTEDDETRKLTPSSPGDDGAIEMSWTDIEA 311
Query: 176 AQLK-RPVTKADFEMAIAKCRKTVTAADIRQFEEWNEKFGSS 216
+LK +T DF AI R TV D+ + E++ FG
Sbjct: 312 DELKEPDLTIKDFLKAIKSTRPTVNEDDLLKQEQFTRDFGQE 353
Score = 109 bits (274), Expect = 8e-29
Identities = 36/73 (49%), Positives = 52/73 (71%)
Query: 1 MKRLIKRDIIVERPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQHIRKPWKGVLMVGP 60
++ + I+ E+P+V+W D+A AK+ L+EAVILP++ P F+ RKP G+L+ GP
Sbjct: 33 LRGALSSAILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGP 92
Query: 61 PGTGKTMLAKAVA 73
PGTGK+ LAKAVA
Sbjct: 93 PGTGKSYLAKAVA 105
>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA
ATPase, ATP-binding, coiled coil, membrane,
nucleotide-binding, phosphorylation; HET: ATP; 3.00A
{Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A
2jq9_A 2k3w_A 1yxr_A
Length = 444
Score = 150 bits (379), Expect = 2e-43
Identities = 41/168 (24%), Positives = 72/168 (42%), Gaps = 33/168 (19%)
Query: 82 GASNFPWNIDDAFLRRLEKRIYVPLPSSSGRQELLRLILRQVDLA-SDLDLELVSDQLEG 140
GA+N PW +D A RR EKRIY+PLP + R + RL L + ++ D + + + +G
Sbjct: 276 GATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQNSLTEADFQELGRKTDG 335
Query: 141 YSASDIVVVCRDAAFMAMRAAIRGKSVPQIQA---------------------------- 172
YS +DI ++ RDA +R +++
Sbjct: 336 YSGADISIIVRDALMQPVRKVQSATHFKKVRGPSRADPNCIVNDLLTPCSPGDPGAIEMT 395
Query: 173 ---IPMAQLK-RPVTKADFEMAIAKCRKTVTAADIRQFEEWNEKFGSS 216
+P +L V+ D +++ + TV D+ + +++ E FG
Sbjct: 396 WMDVPGDKLLEPVVSMWDMLRSLSSTKPTVNEQDLLKLKKFTEDFGQE 443
Score = 112 bits (281), Expect = 2e-29
Identities = 40/86 (46%), Positives = 57/86 (66%), Gaps = 5/86 (5%)
Query: 1 MKRLIKRDIIVERPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQHIRKPWKGVLMVGP 60
++ ++ I++ERP+V+WSD+A AK+ L+EAVILP++ P F R PW+G+L+ GP
Sbjct: 116 LQNQLQGAIVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGP 175
Query: 61 PGTGKTMLAKAVAIVYNQVHCGASNF 86
PGTGK+ LAKAVA S F
Sbjct: 176 PGTGKSYLAKAVA-----TEANNSTF 196
>1ypw_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD,
CDC48; HET: ADP ANP; 3.50A {Mus musculus} PDB: 1oz4_A*
1yq0_A* 1yqi_A* 1r7r_A* 3cf2_A* 3cf1_A* 3cf3_A*
Length = 806
Score = 123 bits (310), Expect = 1e-32
Identities = 44/146 (30%), Positives = 76/146 (52%), Gaps = 10/146 (6%)
Query: 82 GASNFPWNIDDAFLR--RLEKRIYVPLPSSSGRQELLRLILRQVDLASDLDLELVSDQLE 139
GA+N P ID A LR RL++ IY+PLP R +L+ LR+ +A D+DLE ++
Sbjct: 621 GATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTN 680
Query: 140 GYSASDIVVVCRDAAFMAMRAAIRG--------KSVPQIQAIPMAQLKRPVTKADFEMAI 191
G+S +D+ +C+ A +A+R +I ++ P + + + FE A+
Sbjct: 681 GFSGADLTEICQRACKLAIRESIESEIRRERERQTNPSAMEVEEDDPVPEIRRDHFEEAM 740
Query: 192 AKCRKTVTAADIRQFEEWNEKFGSSV 217
R++V+ DIR++E + + S
Sbjct: 741 RFARRSVSDNDIRKYEMFAQTLQQSR 766
Score = 89.5 bits (222), Expect = 5e-21
Identities = 34/69 (49%), Positives = 40/69 (57%), Gaps = 1/69 (1%)
Query: 6 KRDIIVERPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQHI-RKPWKGVLMVGPPGTG 64
R+ +VE P V W DI K+ LQE V P+E P F P KGVL GPPG G
Sbjct: 464 LRETVVEVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCG 523
Query: 65 KTMLAKAVA 73
KT+LAKA+A
Sbjct: 524 KTLLAKAIA 532
Score = 87.5 bits (217), Expect = 3e-20
Identities = 32/118 (27%), Positives = 62/118 (52%), Gaps = 2/118 (1%)
Query: 82 GASNFPWNIDDAFLR--RLEKRIYVPLPSSSGRQELLRLILRQVDLASDLDLELVSDQLE 139
A+N P +ID A R R ++ + + +P ++GR E+L++ + + LA D+DLE V+++
Sbjct: 345 AATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETH 404
Query: 140 GYSASDIVVVCRDAAFMAMRAAIRGKSVPQIQAIPMAQLKRPVTKADFEMAIAKCRKT 197
G+ +D+ +C +AA A+R + + VT DF A+++ +
Sbjct: 405 GHVGADLAALCSEAALQAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWALSQSNPS 462
Score = 75.6 bits (186), Expect = 3e-16
Identities = 28/73 (38%), Positives = 44/73 (60%), Gaps = 1/73 (1%)
Query: 2 KRLIKRDIIVERPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQHI-RKPWKGVLMVGP 60
+ + + D +V + D+ K ++E V LPL P+ F+ I KP +G+L+ GP
Sbjct: 187 EPIKREDEEESLNEVGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGP 246
Query: 61 PGTGKTMLAKAVA 73
PGTGKT++A+AVA
Sbjct: 247 PGTGKTLIARAVA 259
>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD,
CDC48, ATP-binding, lipid-binding, nucle binding,
nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus
musculus}
Length = 301
Score = 118 bits (297), Expect = 2e-32
Identities = 43/142 (30%), Positives = 75/142 (52%), Gaps = 10/142 (7%)
Query: 82 GASNFPWNIDDAFLR--RLEKRIYVPLPSSSGRQELLRLILRQVDLASDLDLELVSDQLE 139
GA+N P ID A LR RL++ IY+PLP R +L+ LR+ +A D+DLE ++
Sbjct: 159 GATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTN 218
Query: 140 GYSASDIVVVCRDAAFMAMRAAIR--------GKSVPQIQAIPMAQLKRPVTKADFEMAI 191
G+S +D+ +C+ A +A+R +I ++ P + + + FE A+
Sbjct: 219 GFSGADLTEICQRACKLAIRESIESEIRRERERQTNPSAMEVEEDDPVPEIRRDHFEEAM 278
Query: 192 AKCRKTVTAADIRQFEEWNEKF 213
R++V+ DIR++E + +
Sbjct: 279 RFARRSVSDNDIRKYEMFAQTL 300
Score = 94.6 bits (236), Expect = 1e-23
Identities = 33/70 (47%), Positives = 40/70 (57%), Gaps = 3/70 (4%)
Query: 6 KRDIIVERPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQH--IRKPWKGVLMVGPPGT 63
R+ +VE P V W DI K+ LQE V P+E P F + KGVL GPPG
Sbjct: 2 LRETVVEVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPS-KGVLFYGPPGC 60
Query: 64 GKTMLAKAVA 73
GKT+LAKA+A
Sbjct: 61 GKTLLAKAIA 70
>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A
{Homo sapiens}
Length = 274
Score = 96.5 bits (241), Expect = 2e-24
Identities = 35/128 (27%), Positives = 63/128 (49%), Gaps = 13/128 (10%)
Query: 82 GASNFPWNIDDAFLR--RLEKRIYVPLPSSSGRQELLRLILRQVD---LASDLDLELVSD 136
A+N P ID A LR RL+K ++V LP + R +L+ I + L +D++LE ++
Sbjct: 151 AATNRPDIIDPAILRPGRLDKTLFVGLPPPADRLAILKTITKNGTKPPLDADVNLEAIAG 210
Query: 137 QL--EGYSASDIVVVCRDAAFMAMRAAIRGKSVPQIQAIPMAQLKRPVTKADFEMAIAKC 194
L + Y+ +D+ + R+A+ A+R + + + V+ FE A K
Sbjct: 211 DLRCDCYTGADLSALVREASICALRQEMARQKSGNEKGELK------VSHKHFEEAFKKV 264
Query: 195 RKTVTAAD 202
R +++ D
Sbjct: 265 RSSISKKD 272
Score = 88.8 bits (221), Expect = 1e-21
Identities = 31/78 (39%), Positives = 44/78 (56%), Gaps = 9/78 (11%)
Query: 11 VERPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQH--IRKPWKGVLMVGPPGTGKTML 68
+ P+V W+DI ++ L A++ P+ P F+ + P GVL+ GPPG GKT+L
Sbjct: 2 MTVPNVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTP-AGVLLAGPPGCGKTLL 60
Query: 69 AKAVAIVYNQVHCGASNF 86
AKAVA N+ G NF
Sbjct: 61 AKAVA---NE--SGL-NF 72
>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding,
nucleotide-binding, HY; HET: ADP; 3.11A
{Methanocaldococcus jannaschii}
Length = 285
Score = 83.5 bits (207), Expect = 1e-19
Identities = 32/65 (49%), Positives = 46/65 (70%), Gaps = 1/65 (1%)
Query: 10 IVERPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQHIR-KPWKGVLMVGPPGTGKTML 68
+ ERP+V++ DI K + ++E V LPL+ P F+ + +P KG+L+ GPPGTGKT+L
Sbjct: 8 VDERPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLL 67
Query: 69 AKAVA 73
AKAVA
Sbjct: 68 AKAVA 72
Score = 73.5 bits (181), Expect = 6e-16
Identities = 35/114 (30%), Positives = 57/114 (50%), Gaps = 19/114 (16%)
Query: 82 GASNFPWNIDDAFLR--RLEKRIYVPLPSSSGRQELLRLILRQVDLASDLDLELVSDQLE 139
GA+N P +D A LR R ++ I VP P GR E+L++ R+++LA D++LE ++ E
Sbjct: 161 GATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAEDVNLEEIAKMTE 220
Query: 140 GYSASDIVVVCRDAAFMAMRAAIRGKSVPQIQAIPMAQLKRPVTKADFEMAIAK 193
G +++ +C +A A+R + VT DF A+ K
Sbjct: 221 GCVGAELKAICTEAGMNAIREL-----------------RDYVTMDDFRKAVEK 257
>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein;
HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A*
1e32_A* 1s3s_A* 2pjh_B
Length = 489
Score = 81.8 bits (202), Expect = 2e-18
Identities = 32/116 (27%), Positives = 61/116 (52%), Gaps = 2/116 (1%)
Query: 82 GASNFPWNIDDAFLR--RLEKRIYVPLPSSSGRQELLRLILRQVDLASDLDLELVSDQLE 139
A+N P +ID A R R ++ + + +P ++GR E+L++ + + LA D+DLE V+++
Sbjct: 345 AATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETH 404
Query: 140 GYSASDIVVVCRDAAFMAMRAAIRGKSVPQIQAIPMAQLKRPVTKADFEMAIAKCR 195
G+ +D+ +C +AA A+R + + VT DF A+++
Sbjct: 405 GHVGADLAALCSEAALQAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWALSQSN 460
Score = 78.3 bits (193), Expect = 4e-17
Identities = 29/69 (42%), Positives = 42/69 (60%), Gaps = 1/69 (1%)
Query: 6 KRDIIVERPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQHIR-KPWKGVLMVGPPGTG 64
+ D +V + DI K ++E V LPL P+ F+ I KP +G+L+ GPPGTG
Sbjct: 191 REDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTG 250
Query: 65 KTMLAKAVA 73
KT++A+AVA
Sbjct: 251 KTLIARAVA 259
Score = 29.4 bits (66), Expect = 1.1
Identities = 8/16 (50%), Positives = 10/16 (62%)
Query: 6 KRDIIVERPDVQWSDI 21
R+ +VE P V W DI
Sbjct: 464 LRETVVEVPQVTWEDI 479
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 67.6 bits (164), Expect = 2e-13
Identities = 50/306 (16%), Positives = 88/306 (28%), Gaps = 113/306 (36%)
Query: 6 KRDIIVERPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQHIR------KPWKGVLMVG 59
+ +E+ D ++D NQV AK + + + +R +P K VL+ G
Sbjct: 108 MTRMYIEQRDRLYND--NQVFAK--------YNVSRLQPYLKLRQALLELRPAKNVLIDG 157
Query: 60 PPGTGKTMLAKAVAIVYNQVHCGASNFP----W------NIDDAFLRRLEKRIY------ 103
G+GKT +A V + Y +V C W N + L L+K +Y
Sbjct: 158 VLGSGKTWVALDVCLSY-KVQC---KMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNW 213
Query: 104 ---------VPLPSSSGRQELLR-----------LILRQV---DLASDLDLE---L---- 133
+ L S + EL R L+L V + +L L
Sbjct: 214 TSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTR 273
Query: 134 ---VSDQLEGYSASDIVVVCRDAAF-----MAMRAAIRGKSV----PQIQAI-PM----- 175
V+D L + + I + ++ ++ P
Sbjct: 274 FKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSII 333
Query: 176 -AQLK---------RPVTKADFEMAIAKCRKTVTAADIRQ-------FEE---------- 208
++ + V I + A+ R+ F
Sbjct: 334 AESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLS 393
Query: 209 --WNEK 212
W +
Sbjct: 394 LIWFDV 399
Score = 28.7 bits (63), Expect = 1.8
Identities = 20/152 (13%), Positives = 45/152 (29%), Gaps = 27/152 (17%)
Query: 89 NIDDAFLRRLEKRIY---VPLPSSSGRQELLRLILRQVDLASDLDLELVSDQLE---GYS 142
++ D L K + + L L ++ + V + L +
Sbjct: 37 DVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLL--SKQEEMVQKFVEEVLRINYKFL 94
Query: 143 ASDIVVVCRDAA-----FMAMRAAIRG-------KSVPQIQAIPMAQLKRPVTKADFEMA 190
S I R + ++ R + +V ++Q P +L++ + +
Sbjct: 95 MSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQ--PYLKLRQALLELRPAKN 152
Query: 191 I-----AKCRKTVTAADIRQFEEWNEKFGSSV 217
+ KT A D+ + K +
Sbjct: 153 VLIDGVLGSGKTWVALDVCLSYKVQCKMDFKI 184
>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast
structural genomics consortium (NESG), target HR3102A,
PSI-2; NMR {Homo sapiens}
Length = 86
Score = 61.8 bits (151), Expect = 3e-13
Identities = 22/92 (23%), Positives = 45/92 (48%), Gaps = 17/92 (18%)
Query: 102 IYVPLPSSSGRQELLRLILRQVDLASDLDLELVSDQLEGYSASDIVVVCRDAAFMAMRAA 161
+ P+ R ++L++ R+++L ++L +++ + G S +++ VC +A A+R
Sbjct: 6 HHHSHPNEEARLDILKIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRER 65
Query: 162 IRGKSVPQIQAIPMAQLKRPVTKADFEMAIAK 193
+ VT+ DFEMA+AK
Sbjct: 66 -----------------RVHVTQEDFEMAVAK 80
>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A
{Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB:
2cea_A* 3kds_E*
Length = 476
Score = 66.4 bits (163), Expect = 4e-13
Identities = 32/75 (42%), Positives = 43/75 (57%), Gaps = 7/75 (9%)
Query: 1 MKRLIKRDIIVERPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQHI--RKPWKGVLMV 58
M + K V + D+ +A + L+E V L+ PS F I R P KG+L+V
Sbjct: 1 MATMYKPS---GNKRVTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIGARMP-KGILLV 55
Query: 59 GPPGTGKTMLAKAVA 73
GPPGTGKT+LA+AVA
Sbjct: 56 GPPGTGKTLLARAVA 70
Score = 51.8 bits (125), Expect = 4e-08
Identities = 33/113 (29%), Positives = 56/113 (49%), Gaps = 19/113 (16%)
Query: 83 ASNFPWNIDDAFLR--RLEKRIYVPLPSSSGRQELLRLILRQVDLASDLDLELVSDQLEG 140
A+N P +D A LR R +K+I V P GR+++L + R LA D++LE+++ + G
Sbjct: 160 ATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDVNLEIIAKRTPG 219
Query: 141 YSASDIVVVCRDAAFMAMRAAIRGKSVPQIQAIPMAQLKRPVTKADFEMAIAK 193
+ +D+ + +AA +A R + +T DFE AI +
Sbjct: 220 FVGADLENLVNEAALLAAREG-----------------RDKITMKDFEEAIDR 255
>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET:
ADP; 3.90A {Thermus thermophilus}
Length = 499
Score = 66.5 bits (163), Expect = 5e-13
Identities = 33/64 (51%), Positives = 42/64 (65%), Gaps = 4/64 (6%)
Query: 12 ERPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQHI--RKPWKGVLMVGPPGTGKTMLA 69
E P V + D+A +AK+ L+E V L+ PS F + R P KGVL+VGPPG GKT LA
Sbjct: 24 EAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIP-KGVLLVGPPGVGKTHLA 81
Query: 70 KAVA 73
+AVA
Sbjct: 82 RAVA 85
Score = 52.6 bits (127), Expect = 2e-08
Identities = 32/113 (28%), Positives = 55/113 (48%), Gaps = 19/113 (16%)
Query: 83 ASNFPWNIDDAFLR--RLEKRIYVPLPSSSGRQELLRLILRQVDLASDLDLELVSDQLEG 140
A+N P +D A LR R +++I + P GR+++LR+ R LA D+DL L++ + G
Sbjct: 175 ATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPG 234
Query: 141 YSASDIVVVCRDAAFMAMRAAIRGKSVPQIQAIPMAQLKRPVTKADFEMAIAK 193
+ +D+ + +AA +A R +R +T D E A +
Sbjct: 235 FVGADLENLLNEAALLAAREG-----------------RRKITMKDLEEAADR 270
>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
3.20A {Thermus thermophilus} SCOP: c.37.1.20
Length = 278
Score = 65.1 bits (159), Expect = 6e-13
Identities = 33/67 (49%), Positives = 44/67 (65%), Gaps = 4/67 (5%)
Query: 9 IIVERPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQHI--RKPWKGVLMVGPPGTGKT 66
++ E P V + D+A +AK+ L+E V L+ PS F + R P KGVL+VGPPG GKT
Sbjct: 30 VLTEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIP-KGVLLVGPPGVGKT 87
Query: 67 MLAKAVA 73
LA+AVA
Sbjct: 88 HLARAVA 94
Score = 58.5 bits (142), Expect = 1e-10
Identities = 32/112 (28%), Positives = 55/112 (49%), Gaps = 19/112 (16%)
Query: 83 ASNFPWNIDDAFLR--RLEKRIYVPLPSSSGRQELLRLILRQVDLASDLDLELVSDQLEG 140
A+N P +D A LR R +++I + P GR+++LR+ R LA D+DL L++ + G
Sbjct: 184 ATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPG 243
Query: 141 YSASDIVVVCRDAAFMAMRAAIRGKSVPQIQAIPMAQLKRPVTKADFEMAIA 192
+ +D+ + +AA +A R +R +T D E A +
Sbjct: 244 FVGADLENLLNEAALLAAREG-----------------RRKITMKDLEEAAS 278
>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding,
cell CELL division, hydrolase, membrane, metal-binding;
3.30A {Helicobacter pylori} PDB: 2r65_A*
Length = 268
Score = 64.6 bits (158), Expect = 9e-13
Identities = 31/64 (48%), Positives = 46/64 (71%), Gaps = 4/64 (6%)
Query: 12 ERPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQHI--RKPWKGVLMVGPPGTGKTMLA 69
E+P+V++ D+A +AK+ + E V L+ P + ++ + P KGVL+VGPPGTGKT+LA
Sbjct: 4 EKPNVRFKDMAGNEEAKEEVVEIVDF-LKYPERYANLGAKIP-KGVLLVGPPGTGKTLLA 61
Query: 70 KAVA 73
KAVA
Sbjct: 62 KAVA 65
Score = 58.0 bits (141), Expect = 2e-10
Identities = 27/113 (23%), Positives = 57/113 (50%), Gaps = 19/113 (16%)
Query: 83 ASNFPWNIDDAFLR--RLEKRIYVPLPSSSGRQELLRLILRQVDLASDLDLELVSDQLEG 140
A+N P +D A +R R ++++ V P +GR E+L++ ++ V LA+D++L+ V+ G
Sbjct: 157 ATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGVKLANDVNLQEVAKLTAG 216
Query: 141 YSASDIVVVCRDAAFMAMRAAIRGKSVPQIQAIPMAQLKRPVTKADFEMAIAK 193
+ +D+ + +AA +A R ++ V + + A+ +
Sbjct: 217 LAGADLANIINEAALLAGRNN-----------------QKEVRQQHLKEAVER 252
>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB:
1iy0_A* 1iy1_A*
Length = 254
Score = 63.9 bits (156), Expect = 1e-12
Identities = 33/64 (51%), Positives = 42/64 (65%), Gaps = 4/64 (6%)
Query: 12 ERPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQHI--RKPWKGVLMVGPPGTGKTMLA 69
E P V + D+A +AK+ L+E V L+ PS F + R P KGVL+VGPPG GKT LA
Sbjct: 9 EAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIP-KGVLLVGPPGVGKTHLA 66
Query: 70 KAVA 73
+AVA
Sbjct: 67 RAVA 70
Score = 58.1 bits (141), Expect = 2e-10
Identities = 32/112 (28%), Positives = 55/112 (49%), Gaps = 19/112 (16%)
Query: 83 ASNFPWNIDDAFLR--RLEKRIYVPLPSSSGRQELLRLILRQVDLASDLDLELVSDQLEG 140
A+N P +D A LR R +++I + P GR+++LR+ R LA D+DL L++ + G
Sbjct: 160 ATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPG 219
Query: 141 YSASDIVVVCRDAAFMAMRAAIRGKSVPQIQAIPMAQLKRPVTKADFEMAIA 192
+ +D+ + +AA +A R +R +T D E A +
Sbjct: 220 FVGADLENLLNEAALLAAREG-----------------RRKITMKDLEEAAS 254
>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A
{Escherichia coli} SCOP: c.37.1.20
Length = 257
Score = 63.9 bits (156), Expect = 2e-12
Identities = 31/64 (48%), Positives = 44/64 (68%), Gaps = 4/64 (6%)
Query: 12 ERPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQHI--RKPWKGVLMVGPPGTGKTMLA 69
++ ++D+A +AK+ + E V L +PS FQ + + P KGVLMVGPPGTGKT+LA
Sbjct: 5 DQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIP-KGVLMVGPPGTGKTLLA 62
Query: 70 KAVA 73
KA+A
Sbjct: 63 KAIA 66
Score = 58.5 bits (142), Expect = 1e-10
Identities = 34/113 (30%), Positives = 58/113 (51%), Gaps = 19/113 (16%)
Query: 83 ASNFPWNIDDAFLR--RLEKRIYVPLPSSSGRQELLRLILRQVDLASDLDLELVSDQLEG 140
A+N P +D A LR R ++++ V LP GR+++L++ +R+V LA D+D +++ G
Sbjct: 156 ATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPG 215
Query: 141 YSASDIVVVCRDAAFMAMRAAIRGKSVPQIQAIPMAQLKRPVTKADFEMAIAK 193
+S +D+ + +AA A R KR V+ +FE A K
Sbjct: 216 FSGADLANLVNEAALFAARGN-----------------KRVVSMVEFEKAKDK 251
>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain,
ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus}
SCOP: c.37.1.20 PDB: 1nsf_A*
Length = 272
Score = 61.3 bits (149), Expect = 1e-11
Identities = 19/76 (25%), Positives = 29/76 (38%), Gaps = 10/76 (13%)
Query: 12 ERPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQHIRKPWKGVLMVGPPGTGKTMLAKA 71
+ + I + + L +++ R P VL+ GPP +GKT LA
Sbjct: 26 DYASYIMNGIIKWGDPVTRVLDDGELLVQQTKNSD--RTPLVSVLLEGPPHSGKTALAAK 83
Query: 72 VAIVYNQVHCGASNFP 87
+A SNFP
Sbjct: 84 IA--------EESNFP 91
>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics,
structural G consortium, SGC, ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo
sapiens}
Length = 262
Score = 60.7 bits (148), Expect = 2e-11
Identities = 27/60 (45%), Positives = 38/60 (63%), Gaps = 4/60 (6%)
Query: 16 VQWSDIANQVKAKKLLQEAVILPLEKPSYFQHI--RKPWKGVLMVGPPGTGKTMLAKAVA 73
V + D+A +AK ++E V L+ P F + + P KG L++GPPG GKT+LAKAVA
Sbjct: 3 VSFKDVAGMHEAKLEVREFVDY-LKSPERFLQLGAKVP-KGALLLGPPGCGKTLLAKAVA 60
Score = 57.2 bits (139), Expect = 3e-10
Identities = 25/115 (21%), Positives = 51/115 (44%), Gaps = 21/115 (18%)
Query: 83 ASNFPWNIDDAFLR--RLEKRIYVPLPSSSGRQELLRLILRQVDLASDLDL--ELVSDQL 138
++N +D A +R RL++ +++ LP+ R+E+ L+ + L + +++
Sbjct: 151 STNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAELT 210
Query: 139 EGYSASDIVVVCRDAAFMAMRAAIRGKSVPQIQAIPMAQLKRPVTKADFEMAIAK 193
G+S +DI +C +AA A R + V +FE A+ +
Sbjct: 211 PGFSGADIANICNEAALHAAR-----------------EGHTSVHTLNFEYAVER 248
>3kw6_A 26S protease regulatory subunit 8; structural genomics, PSI-2,
protein structure initiative, northeast structural
genomics consortium, NESG; 2.10A {Homo sapiens}
Length = 78
Score = 55.2 bits (134), Expect = 8e-11
Identities = 23/89 (25%), Positives = 45/89 (50%), Gaps = 17/89 (19%)
Query: 105 PLPSSSGRQELLRLILRQVDLASDLDLELVSDQLEGYSASDIVVVCRDAAFMAMRAAIRG 164
P P+ R ++L++ R+++L ++L +++ + G S +++ VC +A A+R
Sbjct: 1 PPPNEEARLDILKIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRER--- 57
Query: 165 KSVPQIQAIPMAQLKRPVTKADFEMAIAK 193
+ VT+ DFEMA+AK
Sbjct: 58 --------------RVHVTQEDFEMAVAK 72
>3aji_B S6C, proteasome (prosome, macropain) 26S subunit, ATPA; gankyrin,
S6 ATPase, P-benzoyl-L-phenylalanine, PBPA, amber
suppression; HET: PBF; 2.05A {Mus musculus} PDB: 2dwz_B*
2dvw_B*
Length = 83
Score = 50.0 bits (120), Expect = 1e-08
Identities = 17/86 (19%), Positives = 36/86 (41%), Gaps = 17/86 (19%)
Query: 111 GRQELLRLILRQVDLASDLDLELVSDQLEGYSASDIVVVCRDAAFMAMRAAIRGKSVPQI 170
++ + I +++L+ ++DLE + + S +DI +C+++ +A+R
Sbjct: 5 QKRLIFSTITSKMNLSEEVDLEDYVARPDKISGADINSICQESGMLAVREN--------- 55
Query: 171 QAIPMAQLKRPVTKADFEMAIAKCRK 196
+ V DFE A K
Sbjct: 56 --------RYIVLAKDFEKAYKTVIK 73
>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic;
photosynthesis, rubisco activase, AAA+ protein; 2.95A
{Nicotiana tabacum} PDB: 3zw6_A
Length = 293
Score = 53.3 bits (128), Expect = 1e-08
Identities = 9/47 (19%), Positives = 19/47 (40%), Gaps = 1/47 (2%)
Query: 27 AKKLLQEAVILPLEKPSYFQHIRKPWKGVLMVGPPGTGKTMLAKAVA 73
A + + V+ + +I+ P + + G G GK+ + V
Sbjct: 12 APAFMDKLVVHITKNFLKLPNIKVP-LILGIWGGKGQGKSFQCELVF 57
Score = 52.1 bits (125), Expect = 2e-08
Identities = 19/109 (17%), Positives = 32/109 (29%), Gaps = 8/109 (7%)
Query: 82 GASNFPWNIDDAFLR--RLEKRIYVPLPSSSGRQELLRLILRQVDLASDLDLELVSDQLE 139
N + +R R+EK + P R + I R ++ E V ++
Sbjct: 160 VTGNDFSTLYAPLIRDGRMEKFYWAPTRE--DRIGVCTGIFR----TDNVPAEDVVKIVD 213
Query: 140 GYSASDIVVVCRDAAFMAMRAAIRGKSVPQIQAIPMAQLKRPVTKADFE 188
+ I A + + S I+ I L FE
Sbjct: 214 NFPGQSIDFFGALRARVYDDEVRKWVSGTGIEKIGDKLLNSFDGPPTFE 262
>2dzn_B 26S protease regulatory subunit 6B homolog; ankyrin repeats,
A-helical domain, structural genomics, NPPSFA; 2.20A
{Saccharomyces cerevisiae} PDB: 2dzo_B
Length = 82
Score = 47.7 bits (114), Expect = 5e-08
Identities = 15/82 (18%), Positives = 33/82 (40%), Gaps = 17/82 (20%)
Query: 112 RQELLRLILRQVDLASDLDLELVSDQLEGYSASDIVVVCRDAAFMAMRAAIRGKSVPQIQ 171
R+ + I ++ LA + DL+ + + + S + I + ++A A+R
Sbjct: 3 RRLIFGTIASKMSLAPEADLDSLIIRNDSLSGAVIAAIMQEAGLRAVRKN---------- 52
Query: 172 AIPMAQLKRPVTKADFEMAIAK 193
+ + ++D E A A
Sbjct: 53 -------RYVILQSDLEEAYAT 67
>3vlf_B 26S protease regulatory subunit 7 homolog; heat repeat, chaperone,
chaperone-protein binding complex; HET: DNA; 3.80A
{Saccharomyces cerevisiae} PDB: 4a3v_B*
Length = 88
Score = 46.4 bits (111), Expect = 2e-07
Identities = 17/83 (20%), Positives = 34/83 (40%), Gaps = 17/83 (20%)
Query: 111 GRQELLRLILRQVDLASDLDLELVSDQLEGYSASDIVVVCRDAAFMAMRAAIRGKSVPQI 170
GR + R+ + + + + EL+S + +++ VC +A A+RA
Sbjct: 5 GRANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRAR--------- 55
Query: 171 QAIPMAQLKRPVTKADFEMAIAK 193
++ T+ DF A+ K
Sbjct: 56 --------RKVATEKDFLKAVDK 70
>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding,
chromatin regulator, growth regulation, hydrolase,
nuclear protein, DNA recombination; HET: ADP; 2.2A
{Homo sapiens} PDB: 2xsz_A*
Length = 456
Score = 42.7 bits (100), Expect = 4e-05
Identities = 20/62 (32%), Positives = 27/62 (43%), Gaps = 8/62 (12%)
Query: 12 ERPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQHIRKPWKGVLMVGPPGTGKTMLAKA 71
S + Q A++ V L K + + VL+ GPPGTGKT LA A
Sbjct: 31 LAKQA-ASGLVGQENAREACGVIVELIKSK-------KMAGRAVLLAGPPGTGKTALALA 82
Query: 72 VA 73
+A
Sbjct: 83 IA 84
>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop,
rossman fold, AAA+, photosynthesis, metal transport;
2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB:
2x31_G
Length = 350
Score = 42.1 bits (99), Expect = 7e-05
Identities = 16/55 (29%), Positives = 21/55 (38%), Gaps = 12/55 (21%)
Query: 19 SDIANQVKAKKLLQEAVILPLEKPSYFQHIRKPWKGVLMVGPPGTGKTMLAKAVA 73
S I Q K L + P GVL+ G GTGK+ +A+A
Sbjct: 24 SAIVGQEDMKLALLLTAVDPG------IG------GVLVFGDRGTGKSTAVRALA 66
>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 516
Score = 41.0 bits (96), Expect = 2e-04
Identities = 11/60 (18%), Positives = 20/60 (33%), Gaps = 5/60 (8%)
Query: 19 SDIANQVKAKKLLQEAV-----ILPLEKPSYFQHIRKPWKGVLMVGPPGTGKTMLAKAVA 73
+ + L+ + + ++ ++ GPPG GKT A VA
Sbjct: 39 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVA 98
>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor,
microtubles, motor protein; HET: ADP SPM; 2.81A
{Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C*
Length = 3245
Score = 40.7 bits (95), Expect = 3e-04
Identities = 13/54 (24%), Positives = 23/54 (42%), Gaps = 5/54 (9%)
Query: 53 KGVLMVGPPGTGKTMLAKAVAIVYNQVHCGASNF-----PWNIDDAFLRRLEKR 101
+ +++ GPPG+GKTM + + + NF P + F E +
Sbjct: 1305 RPLILCGPPGSGKTMTLTSTLRAFPDFEVVSLNFSSATTPELLLKTFDHHCEYK 1358
Score = 28.7 bits (64), Expect = 2.0
Identities = 11/22 (50%), Positives = 14/22 (63%), Gaps = 4/22 (18%)
Query: 54 GVLMVGPPGTGKT----MLAKA 71
GV+MVGP G GKT + +A
Sbjct: 908 GVMMVGPSGGGKTTSWEVYLEA 929
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 39.3 bits (92), Expect = 6e-04
Identities = 17/63 (26%), Positives = 31/63 (49%), Gaps = 14/63 (22%)
Query: 11 VERPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQHIRKPWKGVLMVGPPGTGKTMLAK 70
+E P+ + Q A ++++ A +H+ L++G PGTGK+ML +
Sbjct: 33 IEVPEKLIDQVIGQEHAVEVIKTAANQK-------RHV-------LLIGEPGTGKSMLGQ 78
Query: 71 AVA 73
A+A
Sbjct: 79 AMA 81
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 39.6 bits (92), Expect = 6e-04
Identities = 42/227 (18%), Positives = 70/227 (30%), Gaps = 77/227 (33%)
Query: 19 SDIANQVKAKKLLQEAVILPLEKPSYFQ---HIRKPWKGVLMVGPPGTGKTMLAKAV--- 72
+ VK K+L++ +Y ++P + L +AV
Sbjct: 111 ENDTTLVKTKELIK----------NYITARIMAKRP--------FDKKSNSALFRAVGEG 152
Query: 73 -AIVYN----QVHCGASNFPWNIDDAF--LRRLEKRIYVPLPSSSGRQELLRLILRQVDL 125
A + Q G N DD F LR L + Y L + LI
Sbjct: 153 NAQLVAIFGGQ---G------NTDDYFEELRDLYQ-TYHVL--------VGDLI----KF 190
Query: 126 ASDLDLELVSDQLEG---YSAS-DIVVVCR------DAAFMAMRAAIRGKSVPQIQAIPM 175
+++ EL+ L+ ++ +I+ D ++ I S P I I +
Sbjct: 191 SAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLL-SIPI---SCPLIGVIQL 246
Query: 176 AQL--------KRPVTKADFEMAIAKCRKT-VTAADIRQFEEWNEKF 213
A P + + VTA I + + W E F
Sbjct: 247 AHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSW-ESF 292
Score = 34.3 bits (78), Expect = 0.031
Identities = 44/226 (19%), Positives = 70/226 (30%), Gaps = 76/226 (33%)
Query: 18 WSD-IANQVKAKKLL-------QEA---VILPLEKPSYFQHIRKPWKGVLMVGP-PGTGK 65
W + KA +L EA LP PS + + +GV P P
Sbjct: 289 WESFFVSVRKAITVLFFIGVRCYEAYPNTSLP---PSILEDSLENNEGV----PSP---- 337
Query: 66 TMLA-KAVAIVYNQVHCGASNFPWNIDDAFLRRLEKRIYVPL---PSS---SG-RQEL-- 115
ML+ + Q + +N + L K++ + L + SG Q L
Sbjct: 338 -MLSISNLTQEQVQDYVNKTN-------SHLPA-GKQVEISLVNGAKNLVVSGPPQSLYG 388
Query: 116 LRLILRQVDLASDLDLELVSDQLE-GYSASDIVVVCRDAAFMA---------MRAA---I 162
L L LR+ S LD Q +S + R F+ + A I
Sbjct: 389 LNLTLRKAKAPSGLD------QSRIPFSERKLKFSNR---FLPVASPFHSHLLVPASDLI 439
Query: 163 RGKSVPQIQAIPMAQLKRPVTKADFEMAIAKCRKTVTAADIRQFEE 208
V + ++ PV ++ T +D+R
Sbjct: 440 NKDLVKNNVSFNAKDIQIPV----YD--------TFDGSDLRVLSG 473
Score = 33.5 bits (76), Expect = 0.051
Identities = 33/207 (15%), Positives = 64/207 (30%), Gaps = 66/207 (31%)
Query: 24 QVKAKKLLQEAVILPLEKPSY-FQHIRKPWKGVLMVGPPGTGKT---MLAKAVAIV---- 75
++K +K+ +E + SY F+ KG+L T T + A
Sbjct: 1700 KLKTEKIFKE---INEHSTSYTFRS---E-KGLLSA----TQFTQPALTLMEKAAFEDLK 1748
Query: 76 ------------------YNQVHCGASNFPWNIDDA----FLR--------------RLE 99
Y + A I+ F R R
Sbjct: 1749 SKGLIPADATFAGHSLGEYAALASLADVMS--IESLVEVVFYRGMTMQVAVPRDELGRSN 1806
Query: 100 KRIYVPLPSS---SGRQELLRLILRQVDLASDLDLELVSDQLEGYSASDIVVVCRDAAFM 156
+ P S QE L+ ++ +V + +E+V+ +E V D
Sbjct: 1807 YGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVEN----QQYVAAGDLR-- 1860
Query: 157 AMRAAIRGKSVPQIQAIPMAQLKRPVT 183
A+ + ++Q I + +L++ ++
Sbjct: 1861 ALDTVTNVLNFIKLQKIDIIELQKSLS 1887
>3ec2_A DNA replication protein DNAC; helicase loader, replication
initiation factor, ATP-binding, nucleotide-binding;
HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*
Length = 180
Score = 37.7 bits (88), Expect = 0.001
Identities = 12/22 (54%), Positives = 13/22 (59%)
Query: 53 KGVLMVGPPGTGKTMLAKAVAI 74
KG+ VG PG GKT LA A
Sbjct: 39 KGLTFVGSPGVGKTHLAVATLK 60
>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman
fold, hydro; HET: ADP; 2.91A {Escherichia coli}
Length = 500
Score = 38.2 bits (89), Expect = 0.001
Identities = 7/19 (36%), Positives = 14/19 (73%)
Query: 55 VLMVGPPGTGKTMLAKAVA 73
V ++GPPG K+++A+ +
Sbjct: 44 VFLLGPPGIAKSLIARRLK 62
>2w58_A DNAI, primosome component (helicase loader); ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.50A
{Geobacillus kaustophilus HTA426}
Length = 202
Score = 37.4 bits (87), Expect = 0.002
Identities = 19/79 (24%), Positives = 34/79 (43%), Gaps = 15/79 (18%)
Query: 1 MKRLIKRDIIVERP------DVQWSDIANQVKAKKLLQEAVILPLEKPSYFQHIRKPWKG 54
+ LI+ + DV +D ++KA + + V + ++ +K KG
Sbjct: 6 QESLIQSMFMPREILRASLSDVDLND-DGRIKAIRFAERFV-------AEYEPGKKM-KG 56
Query: 55 VLMVGPPGTGKTMLAKAVA 73
+ + G G GKT L A+A
Sbjct: 57 LYLHGSFGVGKTYLLAAIA 75
>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural
genomics, PSI, protein struc initiative; 3.20A
{Agrobacterium tumefaciens str} SCOP: c.37.1.25
Length = 191
Score = 35.8 bits (82), Expect = 0.004
Identities = 28/163 (17%), Positives = 55/163 (33%), Gaps = 34/163 (20%)
Query: 55 VLMVGPPGTGKTMLAKAVA--IVYNQVHCGASNFPWNIDDAFLRRLEKRIYVPLPSSSGR 112
+L+ G PG+GK+ +A+A+A +VH + D ++ P S +
Sbjct: 12 LLLSGHPGSGKSTIAEALANLPGVPKVHFHS--------DDLWGYIKHGRIDPWLPQSHQ 63
Query: 113 QELLRLILRQVDLASDLDLELVSDQLEGYSASDIVVVCRDAAFMAMRAAIRGKSVPQIQA 172
Q + +++ +D Y+ V+ A + P
Sbjct: 64 QNRMI-------------MQIAADVAGRYAKEGYFVILDGVVRPDWLPAFTALARP---- 106
Query: 173 IPMAQLKRPVTKADFEMAIAKC--RKTVTAADIRQFEEWNEKF 213
L V + AI +C R + +D + + +F
Sbjct: 107 -----LHYIVLRTTAAEAIERCLDRGGDSLSDPLVVADLHSQF 144
>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase;
HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP:
c.37.1.20 PDB: 1s9h_A
Length = 267
Score = 36.1 bits (83), Expect = 0.005
Identities = 18/59 (30%), Positives = 26/59 (44%), Gaps = 11/59 (18%)
Query: 42 PSYFQHIRKPWKG--------VLMVGPPGTGKTMLAKAVA---IVYNQVHCGASNFPWN 89
P Y + W + + GP TGKT +A+A+A Y V+ NFP+N
Sbjct: 86 PQYAASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTVPFYGCVNWTNENFPFN 144
>2qgz_A Helicase loader, putative primosome component; structural genomics,
PSI-2, protein structure initiative; 2.40A
{Streptococcus pyogenes serotype M3}
Length = 308
Score = 36.0 bits (83), Expect = 0.006
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 53 KGVLMVGPPGTGKTMLAKAVA 73
KG+ + G G GK+ L A+A
Sbjct: 153 KGLYLYGDMGIGKSYLLAAMA 173
>2chg_A Replication factor C small subunit; DNA-binding protein, DNA
replication, clamp loader, AAA+ ATPase, ATP-binding,
nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus
fulgidus}
Length = 226
Score = 34.9 bits (81), Expect = 0.011
Identities = 20/65 (30%), Positives = 28/65 (43%), Gaps = 15/65 (23%)
Query: 11 VE--RPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQHIRKPWKGVLMVGPPGTGKTML 68
VE RP ++ Q + + L+ V + H+ L GPPGTGKT
Sbjct: 8 VEKYRPRT-LDEVVGQDEVIQRLKGYV-----ERKNIPHL-------LFSGPPGTGKTAT 54
Query: 69 AKAVA 73
A A+A
Sbjct: 55 AIALA 59
>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase,
nucleotide-binding, Pro serine protease, stress
response; HET: ADP; 3.40A {Bacillus subtilis} PDB:
1x37_A
Length = 543
Score = 34.8 bits (81), Expect = 0.015
Identities = 11/16 (68%), Positives = 13/16 (81%)
Query: 58 VGPPGTGKTMLAKAVA 73
GPPG GKT LAK++A
Sbjct: 114 AGPPGVGKTSLAKSIA 129
>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer,
structural genomics; HET: ADP; 2.00A {Pyrococcus
horikoshii}
Length = 247
Score = 33.9 bits (78), Expect = 0.023
Identities = 20/110 (18%), Positives = 42/110 (38%), Gaps = 17/110 (15%)
Query: 55 VLMVGPPGTGKTMLAKAVA---------IVY-------NQVHCGASNFPWNIDDAFLRRL 98
VL+ G PGTGKT+ ++ +Y QV + F W++ + +
Sbjct: 26 VLLSGGPGTGKTIFSQQFLWNGLKMGEPGIYVALEEHPVQVRQNMAQFGWDVKPYEEKGM 85
Query: 99 EKRIYVPLPSSSGRQELLRLILRQVDLASDLDLELVSDQLEGYSASDIVV 148
+ +E + I+ + + +E++ + +A +VV
Sbjct: 86 FAMVDAFTAGIGKSKEYEKYIVHDLTDIREF-IEVLRQAIRDINAKRVVV 134
>2chq_A Replication factor C small subunit; DNA-binding protein, DNA
replication, clamp loader, AAA+ ATP ATP-binding,
nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus
fulgidus} PDB: 2chv_A
Length = 319
Score = 33.8 bits (78), Expect = 0.031
Identities = 16/55 (29%), Positives = 24/55 (43%), Gaps = 12/55 (21%)
Query: 19 SDIANQVKAKKLLQEAVILPLEKPSYFQHIRKPWKGVLMVGPPGTGKTMLAKAVA 73
++ Q + + L+ V + H+ L GPPGTGKT A A+A
Sbjct: 17 DEVVGQDEVIQRLKGYV-----ERKNIPHL-------LFSGPPGTGKTATAIALA 59
>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP;
2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB:
3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A*
3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*
Length = 525
Score = 33.7 bits (77), Expect = 0.037
Identities = 21/123 (17%), Positives = 42/123 (34%), Gaps = 19/123 (15%)
Query: 55 VLMVGPPGTGKTMLAKAVA---------IVY-------NQVHCGASNFPWNIDDAFLRRL 98
+L G GTGKT+L + Q+ A ++ + ++ + L
Sbjct: 284 ILATGATGTGKTLLVSRFVENACANKERAILFAYEESRAQLLRNAYSWGMDFEEMERQNL 343
Query: 99 EKRIYVPLPSSSGRQELLRLILRQVDLASDLDLELVSDQLEGYSASDIVVVCRDAAFMAM 158
K + P S+G ++ L++I +++ + D L + R
Sbjct: 344 LKIVCAY-PESAGLEDHLQIIKSEIN-DFKPAR-IAIDSLSALARGVSNNAFRQFVIGVT 400
Query: 159 RAA 161
A
Sbjct: 401 GYA 403
Score = 30.3 bits (68), Expect = 0.57
Identities = 20/112 (17%), Positives = 39/112 (34%), Gaps = 26/112 (23%)
Query: 55 VLMVGPPGTGKT-----MLAKAVA-----IVY-------NQVHCGASNFPWNIDDAFLRR 97
L+ G GTGKT L + V+ + A +F W++ +
Sbjct: 42 TLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKNARSFGWDLAK-LVDE 100
Query: 98 LEKRIYVPLPSSSGRQELLRLILRQVDLASDLDLELVSDQLEGYSASDIVVV 149
+ I P G++ + L + +E ++ ++ Y A V +
Sbjct: 101 GKLFILDASPDPEGQEVVGGFDLSAL-------IERINYAIQKYRA-RRVSI 144
>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP,
replication; HET: ADP; 2.80A {Pyrococcus furiosus}
SCOP: a.80.1.1 c.37.1.20
Length = 327
Score = 33.5 bits (77), Expect = 0.040
Identities = 19/55 (34%), Positives = 22/55 (40%), Gaps = 12/55 (21%)
Query: 19 SDIANQVKAKKLLQEAVILPLEKPSYFQHIRKPWKGVLMVGPPGTGKTMLAKAVA 73
DI Q K L+ V K H+ L GPPG GKT A A+A
Sbjct: 25 DDIVGQEHIVKRLKHYV-----KTGSMPHL-------LFAGPPGVGKTTAALALA 67
>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain
cytoplasmic; motor protein, AAA+ protein, ASCE protein,
P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma
japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A
Length = 2695
Score = 33.7 bits (77), Expect = 0.041
Identities = 9/31 (29%), Positives = 15/31 (48%), Gaps = 4/31 (12%)
Query: 54 GVLMVGPPGTGKT----MLAKAVAIVYNQVH 80
+++VG G GKT + A+AI +
Sbjct: 925 ALILVGKAGCGKTATWKTVIDAMAIFDGHAN 955
Score = 32.1 bits (73), Expect = 0.14
Identities = 14/54 (25%), Positives = 22/54 (40%), Gaps = 5/54 (9%)
Query: 53 KGVLMVGPPGTGKTMLAKAVAIVYNQVHCGASNF-----PWNIDDAFLRRLEKR 101
+G+++ GPPG+GKTM+ + NF +I A R
Sbjct: 1268 RGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKDTTTEHILSALHRHTNYV 1321
Score = 27.5 bits (61), Expect = 4.5
Identities = 9/26 (34%), Positives = 13/26 (50%), Gaps = 7/26 (26%)
Query: 59 GPPGTGKT----MLAKAVA---IVYN 77
GP GTGKT + + +V+N
Sbjct: 652 GPAGTGKTETVKAFGQNLGRVVVVFN 677
Score = 27.1 bits (60), Expect = 5.1
Identities = 8/26 (30%), Positives = 17/26 (65%)
Query: 48 IRKPWKGVLMVGPPGTGKTMLAKAVA 73
+++ ++++G TGKT+L + VA
Sbjct: 1605 LKQVQGHMMLIGASRTGKTILTRFVA 1630
>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate
hydrolases fold, S genomics, joint center for
structural genomics, JCSG; HET: MSE; 1.70A
{Chloroflexus aurantiacus}
Length = 193
Score = 33.0 bits (75), Expect = 0.041
Identities = 9/19 (47%), Positives = 15/19 (78%)
Query: 55 VLMVGPPGTGKTMLAKAVA 73
+++ G P TGKT L++A+A
Sbjct: 8 IIVTGHPATGKTTLSQALA 26
>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding
loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori}
SCOP: c.37.1.20
Length = 376
Score = 33.0 bits (76), Expect = 0.052
Identities = 17/68 (25%), Positives = 30/68 (44%), Gaps = 18/68 (26%)
Query: 24 QVKAKKLLQEAV------ILPLEKPSYFQHIRKPWKG------------VLMVGPPGTGK 65
Q +AKK+ AV + EK + + +L++GP G+GK
Sbjct: 26 QEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGK 85
Query: 66 TMLAKAVA 73
T++A+ +A
Sbjct: 86 TLMAQTLA 93
>3pvs_A Replication-associated recombination protein A; maintenance of
genome stability Pro recombination; 2.50A {Escherichia
coli}
Length = 447
Score = 33.3 bits (77), Expect = 0.055
Identities = 11/15 (73%), Positives = 13/15 (86%)
Query: 59 GPPGTGKTMLAKAVA 73
GPPGTGKT LA+ +A
Sbjct: 57 GPPGTGKTTLAEVIA 71
>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+
molecular machine, hexamer, asymmetric,, ATP-BIN
chaperone, metal-binding; HET: ADP; 3.25A {Escherichia
coli} PDB: 3hte_A
Length = 363
Score = 32.9 bits (76), Expect = 0.065
Identities = 10/19 (52%), Positives = 17/19 (89%)
Query: 55 VLMVGPPGTGKTMLAKAVA 73
+L++GP G+GKT+LA+ +A
Sbjct: 54 ILLIGPTGSGKTLLAETLA 72
>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3;
winged-helix domain, helix-turn-helix, AAA+ ATPase
domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A
{Sulfolobus solfataricus}
Length = 384
Score = 32.8 bits (74), Expect = 0.067
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 55 VLMVGPPGTGKTMLAKAVA 73
L +G GTGKT ++K +
Sbjct: 48 NLFLGLTGTGKTFVSKYIF 66
>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein,
calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides}
PDB: 3syk_A 3zuh_A*
Length = 309
Score = 32.8 bits (74), Expect = 0.074
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 50 KPWKGVLMVGPPGTGKTMLAKAVA 73
P + G PGTGKT +A +A
Sbjct: 65 TPTLHMSFTGNPGTGKTTVALKMA 88
>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1;
winged-helix domain, helix-turn-helix, AAA+ ATPase
domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A
{Sulfolobus solfataricus}
Length = 386
Score = 32.3 bits (73), Expect = 0.089
Identities = 8/18 (44%), Positives = 11/18 (61%)
Query: 55 VLMVGPPGTGKTMLAKAV 72
+ + G GTGKT + K V
Sbjct: 48 IFIYGLTGTGKTAVVKFV 65
>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR;
HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB:
1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*
Length = 262
Score = 32.4 bits (73), Expect = 0.096
Identities = 20/121 (16%), Positives = 41/121 (33%), Gaps = 17/121 (14%)
Query: 39 LEKPSYFQHIRKPWKGVLMVGPPGTGKTMLAKAVA--------IVYNQVHCGASNFPW-- 88
+ + H V+ VG G+GKT L + Y + G P+
Sbjct: 1 MRGSHHHHHHGMASMIVVFVGTAGSGKTTLTGEFGRYLEDNYKVAYVNLDTGVKELPYEP 60
Query: 89 NIDDAFLRRLEKRIYVPLPSSSGRQELLRLILRQVDLASDLDLELVSDQLEGYSASDIVV 148
+ID +E+ + + E ++ + + E ++ L +D V+
Sbjct: 61 SIDVREFVTVEEIMREGYGPNGAIVESYDRLMEKFN-------EYLNKILRLEKENDYVL 113
Query: 149 V 149
+
Sbjct: 114 I 114
>1y63_A LMAJ004144AAA protein; structural genomics, protein structure
initiative, PSI, SGPP structural genomics of pathogenic
protozoa consortium; HET: ADP; 1.70A {Leishmania major}
SCOP: c.37.1.1
Length = 184
Score = 31.6 bits (71), Expect = 0.10
Identities = 10/19 (52%), Positives = 15/19 (78%)
Query: 55 VLMVGPPGTGKTMLAKAVA 73
+L+ G PGTGKT +A+ +A
Sbjct: 13 ILITGTPGTGKTSMAEMIA 31
>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide,
hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP:
a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*
Length = 324
Score = 31.8 bits (73), Expect = 0.12
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 55 VLMVGPPGTGKTMLAKAVA 73
+L+ GPPG GKT LA +A
Sbjct: 41 LLLFGPPGLGKTTLAHVIA 59
>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase,
winged-helix domain, ATP hydrolysis, walker A, walker
B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga
maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A*
1in8_A* 1in7_A* 1j7k_A*
Length = 334
Score = 31.8 bits (73), Expect = 0.12
Identities = 12/19 (63%), Positives = 14/19 (73%)
Query: 55 VLMVGPPGTGKTMLAKAVA 73
VL+ GPPG GKT LA +A
Sbjct: 54 VLLAGPPGLGKTTLAHIIA 72
>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein
transport, biosynthetic protein; HET: GNP; 3.00A
{Bacillus subtilis} PDB: 2px3_A* 3syn_A*
Length = 296
Score = 32.0 bits (73), Expect = 0.13
Identities = 14/74 (18%), Positives = 22/74 (29%), Gaps = 10/74 (13%)
Query: 2 KRLIKRDIIVE---------RPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQHIRKPW 52
K L + I + + LQE + L +Q
Sbjct: 47 KLLQETGIKESTKTNTLKKLLRFSVEAGGLTEENVVGKLQEILCDMLPSADKWQEPIHS- 105
Query: 53 KGVLMVGPPGTGKT 66
K +++ G G GKT
Sbjct: 106 KYIVLFGSTGAGKT 119
>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A
{Enterobacteria phage T4} SCOP: c.37.1.1
Length = 181
Score = 31.3 bits (71), Expect = 0.14
Identities = 7/17 (41%), Positives = 12/17 (70%)
Query: 55 VLMVGPPGTGKTMLAKA 71
+L +G PG+GK+ A+
Sbjct: 5 ILTIGCPGSGKSTWARE 21
>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable
holliday junction DNA helicase; HET: ADP; 2.69A
{Campylobacter jejuni subsp}
Length = 338
Score = 31.8 bits (73), Expect = 0.14
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 55 VLMVGPPGTGKTMLAKAVA 73
+L GP G GKT LA ++
Sbjct: 58 ILFSGPAGLGKTTLANIIS 76
>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop,
transferase; HET: ADP; 2.33A {Enterobacteria phage T4}
SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A*
2ia5_A
Length = 301
Score = 31.6 bits (71), Expect = 0.15
Identities = 7/17 (41%), Positives = 12/17 (70%)
Query: 55 VLMVGPPGTGKTMLAKA 71
+L +G PG+GK+ A+
Sbjct: 5 ILTIGCPGSGKSTWARE 21
>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins
(A/B), protein binding, transferase, phosphotransferase;
HET: ADP; 1.76A {Homo sapiens} PDB: 3iik_A 3iil_A*
3iim_A* 1rkb_A
Length = 180
Score = 31.1 bits (70), Expect = 0.16
Identities = 23/132 (17%), Positives = 38/132 (28%), Gaps = 10/132 (7%)
Query: 42 PSYFQHIRKPWKGVLMVGPPGTGKTMLAKAVAIVYNQVHCGASNFPWNIDDAFLRRLEKR 101
P +L+ G PG GKT L K +A + N+ D
Sbjct: 2 PLGSPEFMLL-PNILLTGTPGVGKTTLGKELASKSGLKY-------INVGDLAREEQLYD 53
Query: 102 IYVP-LPSSSGRQELLRLILRQVDLASDLDLELVSDQLEGYSASDIVVVCR-DAAFMAMR 159
Y ++ + L + ++ IV V R D + R
Sbjct: 54 GYDEEYDCPILDEDRVVDELDNQMREGGVIVDYHGCDFFPERWFHIVFVLRTDTNVLYER 113
Query: 160 AAIRGKSVPQIQ 171
RG + ++
Sbjct: 114 LETRGYNEKKLT 125
>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM:
PF02562, ST genomics, PSI-2, protein structure
initiative; 2.35A {Corynebacterium glutamicum atcc
13032}
Length = 208
Score = 31.0 bits (71), Expect = 0.17
Identities = 10/17 (58%), Positives = 13/17 (76%)
Query: 58 VGPPGTGKTMLAKAVAI 74
+GP G+GKT LA A A+
Sbjct: 28 LGPAGSGKTYLAMAKAV 44
>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP
binding motif, ATP- binding, nucleotide-binding,
transferase; HET: ADP; 1.79A {Methanocaldococcus
jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A*
3adb_A*
Length = 260
Score = 31.4 bits (71), Expect = 0.17
Identities = 7/19 (36%), Positives = 13/19 (68%)
Query: 55 VLMVGPPGTGKTMLAKAVA 73
+++ G PG GK+ +K +A
Sbjct: 7 IILTGLPGVGKSTFSKNLA 25
>2r44_A Uncharacterized protein; putative ATPase, structural genomics,
joint center for struc genomics, JCSG; HET: MSE PG4;
2.00A {Cytophaga hutchinsonii atcc 33406}
Length = 331
Score = 31.4 bits (72), Expect = 0.20
Identities = 7/19 (36%), Positives = 11/19 (57%)
Query: 55 VLMVGPPGTGKTMLAKAVA 73
+L+ G PG KT+ +A
Sbjct: 49 ILLEGVPGLAKTLSVNTLA 67
>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA
replication initation factor, cell cycle control
factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP:
a.4.5.11 c.37.1.20
Length = 389
Score = 31.3 bits (70), Expect = 0.22
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 55 VLMVGPPGTGKTMLAKAV 72
++G PGTGKT+ + +
Sbjct: 47 ATLLGRPGTGKTVTLRKL 64
>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein
struct initiative, northeast structural genomics
consortium, NESG, function; 2.40A {Bacillus halodurans}
SCOP: c.37.1.25
Length = 189
Score = 30.7 bits (69), Expect = 0.25
Identities = 7/26 (26%), Positives = 12/26 (46%)
Query: 55 VLMVGPPGTGKTMLAKAVAIVYNQVH 80
++ GP G GK+ K +A +
Sbjct: 5 YIITGPAGVGKSTTCKRLAAQLDNSA 30
>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus
abyssi}
Length = 350
Score = 30.8 bits (69), Expect = 0.26
Identities = 15/129 (11%), Positives = 37/129 (28%), Gaps = 14/129 (10%)
Query: 38 PLEKPSYF-------QHIRKPWKG---VLMVGPPGTGKTMLAKAVA----IVYNQVHCGA 83
P + + + + + L++G GK+ L +A +
Sbjct: 7 PKTRREDIFDREEESRKLEESLENYPLTLLLGIRRVGKSSLLRAFLNERPGILIDCRELY 66
Query: 84 SNFPWNIDDAFLRRLEKRIYVPLPSSSGRQELLRLILRQVDLASDLDLELVSDQLEGYSA 143
+ + ++ L+ I S + L L ++ E+ + +
Sbjct: 67 AERGHITREELIKELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEE 126
Query: 144 SDIVVVCRD 152
+V D
Sbjct: 127 LGEFIVAFD 135
>2ehv_A Hypothetical protein PH0186; KAIC, RECA ATPase, unknown function;
HET: ADP; 2.07A {Pyrococcus horikoshii} PDB: 2zts_A*
Length = 251
Score = 30.6 bits (69), Expect = 0.27
Identities = 17/111 (15%), Positives = 36/111 (32%), Gaps = 19/111 (17%)
Query: 55 VLMVGPPGTGKTMLAKAVAI----------VY-------NQVHCGASNFPWNIDDAFLRR 97
VL+ G GTGKT A V+ + ++F W+ +
Sbjct: 33 VLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVTLEERARDLRREMASFGWDFEKYEKEG 92
Query: 98 LEKRIYVPLPSSSGRQELLRLILRQVDLASDLDLELVSDQLEGYSASDIVV 148
+ E ++ + ++ D L + ++ +A +V+
Sbjct: 93 KIAIVDGVSSVVGLPSEEKFVLEDRFNV--DNFLRYIYRVVKAINAKRLVI 141
>3ice_A Transcription termination factor RHO; transcription, ATPase,
hexamer, helicase, RNA, RECA, OB fold ATP-binding,
hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli
k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A
Length = 422
Score = 31.0 bits (71), Expect = 0.29
Identities = 13/24 (54%), Positives = 16/24 (66%), Gaps = 2/24 (8%)
Query: 56 LMVGPPGTGKTMLAKAVA--IVYN 77
L+V PP GKTML + +A I YN
Sbjct: 178 LIVAPPKAGKTMLLQNIAQSIAYN 201
>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus
P2}
Length = 235
Score = 30.4 bits (69), Expect = 0.32
Identities = 7/15 (46%), Positives = 11/15 (73%)
Query: 55 VLMVGPPGTGKTMLA 69
+ + G PGTGKT+ +
Sbjct: 26 IALTGEPGTGKTIFS 40
>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA
capture mechanism, ATP-binding, hydrolase,
nucleotide-binding, RN binding; 2.35A {Thermotoga
maritima}
Length = 427
Score = 30.7 bits (70), Expect = 0.35
Identities = 10/24 (41%), Positives = 14/24 (58%), Gaps = 2/24 (8%)
Query: 56 LMVGPPGTGKTMLAKAVA--IVYN 77
++V PP GKT + K +A I N
Sbjct: 179 MIVAPPKAGKTTILKEIANGIAEN 202
>1nlf_A Regulatory protein REPA; replicative DNA helicase structural
changes, replication; 1.95A {Escherichia coli} SCOP:
c.37.1.11 PDB: 1g8y_A 1olo_A
Length = 279
Score = 30.5 bits (68), Expect = 0.39
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 55 VLMVGPPGTGKTMLAKAVAI 74
+V P G GK+MLA +A
Sbjct: 33 GALVSPGGAGKSMLALQLAA 52
>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 354
Score = 29.8 bits (67), Expect = 0.57
Identities = 17/109 (15%), Positives = 37/109 (33%), Gaps = 18/109 (16%)
Query: 19 SDIANQVKAKKLLQEAVILPLEKPSYFQHIRKPWKGVLMVGPPGTGKTMLAKAVAIVYNQ 78
+ +++ + L+ ++P H+ L+ GP GTGK A+
Sbjct: 14 NALSHNEELTNFLKSLS----DQPRDLPHL-------LLYGPNGTGKKTRCMALL---ES 59
Query: 79 VHCGASNFPWNIDDAFLRRLEKRIYVPLPSSSGRQEL----LRLILRQV 123
+ F+ +++ + + SS E+ + R V
Sbjct: 60 IFGPGVYRLKIDVRQFVTASNRKLELNVVSSPYHLEITPSDMGNNDRIV 108
>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 340
Score = 29.7 bits (67), Expect = 0.61
Identities = 14/55 (25%), Positives = 22/55 (40%), Gaps = 12/55 (21%)
Query: 19 SDIANQVKAKKLLQEAVILPLEKPSYFQHIRKPWKGVLMVGPPGTGKTMLAKAVA 73
++ Q + +++ V H+ L GPPGTGKT A+A
Sbjct: 25 DEVYGQNEVITTVRKFV-----DEGKLPHL-------LFYGPPGTGKTSTIVALA 67
>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA
translocation, nucleotide-binding, DNA-binding; 3.00A
{Bovine papillomavirus type 1} PDB: 2gxa_A*
Length = 305
Score = 29.9 bits (67), Expect = 0.62
Identities = 17/80 (21%), Positives = 26/80 (32%), Gaps = 17/80 (21%)
Query: 1 MKRLIKRDIIVERPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQHIRKPW-------K 53
M IK + + W I Q + F + K W
Sbjct: 78 MPAYIKARCKLATGEGSWKSILTFFN----YQN------IELITFINALKLWLKGIPKKN 127
Query: 54 GVLMVGPPGTGKTMLAKAVA 73
+ +GPP TGK+ML ++
Sbjct: 128 CLAFIGPPNTGKSMLCNSLI 147
>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA
degradation, allosteric REGU; HET: ADP 1PE; 2.40A
{Saccharomyces cerevisiae}
Length = 802
Score = 29.9 bits (67), Expect = 0.74
Identities = 18/76 (23%), Positives = 31/76 (40%), Gaps = 7/76 (9%)
Query: 55 VLMVGPPGTGKTMLAKAVAIVYNQVHCGASNF----PWNI-DDAFLRRLEKRIYVPLPSS 109
L+ GPPGTGKT+ + IVY+ P N+ D +L + +
Sbjct: 378 SLIQGPPGTGKTV--TSATIVYHLSKIHKDRILVCAPSNVAVDHLAAKLRDLGLKVVRLT 435
Query: 110 SGRQELLRLILRQVDL 125
+ +E + + + L
Sbjct: 436 AKSREDVESSVSNLAL 451
>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase,
antibiotic resistance, phosphorylation, mononucleoti
binding fold; HET: ATP; 2.50A {Streptomyces venezuelae}
SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A*
1qhy_A*
Length = 178
Score = 29.0 bits (64), Expect = 0.76
Identities = 3/19 (15%), Positives = 10/19 (52%)
Query: 55 VLMVGPPGTGKTMLAKAVA 73
+++ G GK+ + + +
Sbjct: 6 IILNGGSSAGKSGIVRCLQ 24
>1kht_A Adenylate kinase; phosphotransferase, signaling protein,
transferase; HET: AMP; 2.50A {Methanococcus voltae}
SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A
Length = 192
Score = 29.3 bits (65), Expect = 0.83
Identities = 10/72 (13%), Positives = 22/72 (30%), Gaps = 7/72 (9%)
Query: 51 PWKGVLMVGPPGTGKTMLAKAVAIVYNQVHCGASNFPWNIDDAFLRRLEKRIYVPLPSSS 110
K V++ G PG G T ++ + + ++ V S
Sbjct: 2 KNKVVVVTGVPGVGSTTSSQLAMDNLRKEGVNYKMV--SFGSVMFEVAKEENLV-----S 54
Query: 111 GRQELLRLILRQ 122
R ++ ++
Sbjct: 55 DRDQMRKMDPET 66
>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A
{Sulfolobus acidocaldarius} SCOP: c.37.1.1
Length = 194
Score = 28.9 bits (64), Expect = 0.84
Identities = 15/96 (15%), Positives = 32/96 (33%), Gaps = 7/96 (7%)
Query: 53 KGVLMVGPPGTGKTMLAKAVAIVYNQVHCGASNFPWNIDDAFLRRLEKRIYVPLPSSSGR 112
K ++ G PG GK+ + V + + N D L K Y R
Sbjct: 2 KIGIVTGIPGVGKSTVLAKVKEILDNQGINNKII--NYGDFMLATALKLGYA-----KDR 54
Query: 113 QELLRLILRQVDLASDLDLELVSDQLEGYSASDIVV 148
E+ +L + + + ++++ + +
Sbjct: 55 DEMRKLSVEKQKKLQIDAAKGIAEEARAGGEGYLFI 90
>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding
mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli}
SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*
Length = 758
Score = 29.5 bits (67), Expect = 0.90
Identities = 7/18 (38%), Positives = 10/18 (55%)
Query: 56 LMVGPPGTGKTMLAKAVA 73
L GP G GKT + ++
Sbjct: 492 LFAGPTGVGKTEVTVQLS 509
Score = 26.4 bits (59), Expect = 7.8
Identities = 12/26 (46%), Positives = 15/26 (57%), Gaps = 2/26 (7%)
Query: 56 LMVGPPGTGKTMLAK--AVAIVYNQV 79
L+VG G GKT +A+ A IV V
Sbjct: 211 LLVGESGVGKTAIAEGLAWRIVQGDV 236
>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB,
proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR
binding; 6.93A {Bacillus subtilis}
Length = 758
Score = 29.5 bits (67), Expect = 0.94
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 56 LMVGPPGTGKTMLAKAVA 73
+ +GP G GKT LA+A+A
Sbjct: 525 IFLGPTGVGKTELARALA 542
>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus
thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*
Length = 311
Score = 29.1 bits (66), Expect = 0.98
Identities = 11/18 (61%), Positives = 13/18 (72%)
Query: 56 LMVGPPGTGKTMLAKAVA 73
L +GP G GKT LAK +A
Sbjct: 51 LFLGPTGVGKTELAKTLA 68
>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 323
Score = 28.9 bits (65), Expect = 1.1
Identities = 20/76 (26%), Positives = 29/76 (38%), Gaps = 16/76 (21%)
Query: 1 MKRLIKRDII-VE--RPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQHIRKPWKGVLM 57
M + + + VE RP V SDI + LQ+ K H +++
Sbjct: 1 MSKTLSLQLPWVEKYRPQV-LSDIVGNKETIDRLQQIA-----KDGNMPH-------MII 47
Query: 58 VGPPGTGKTMLAKAVA 73
G PG GKT +A
Sbjct: 48 SGMPGIGKTTSVHCLA 63
>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta
protein., structural genomics, PSI-2, protein structure
initiative; HET: G3D; 2.20A {Bacillus subtilis} PDB:
2axp_A*
Length = 173
Score = 28.5 bits (64), Expect = 1.1
Identities = 5/19 (26%), Positives = 10/19 (52%), Gaps = 1/19 (5%)
Query: 55 VLMVGPPGTGKTMLAKAVA 73
+L GP K+ +A ++
Sbjct: 5 ILE-GPDCCFKSTVAAKLS 22
>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial
conjugation, F1-ATPase-like quaternary structure, ring
helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB:
1e9s_A 1gki_A* 1gl7_A* 1gl6_A*
Length = 437
Score = 28.7 bits (64), Expect = 1.3
Identities = 7/40 (17%), Positives = 17/40 (42%), Gaps = 2/40 (5%)
Query: 27 AKKLLQEAVILPLEKPSYFQHIRKPWKGVLMVGPPGTGKT 66
+ ++A + + + + +L+ G GTGK+
Sbjct: 30 KRMTREKAKQVTVAGVPMPRDAEP--RHLLVNGATGTGKS 67
>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3
(6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...;
bifunctional enzyme, EDTA complex; HET: F6P EDT ADP;
2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B*
3qpu_A* 3qpv_A* 3qpw_A*
Length = 520
Score = 28.9 bits (64), Expect = 1.5
Identities = 8/19 (42%), Positives = 13/19 (68%)
Query: 55 VLMVGPPGTGKTMLAKAVA 73
++MVG P GKT ++K +
Sbjct: 38 IVMVGLPARGKTYISKKLT 56
>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292;
mixed alpha-beta protein, rossman fold, signaling
protein, transferase; 1.40A {Aquifex aeolicus} SCOP:
c.37.1.11
Length = 178
Score = 28.4 bits (63), Expect = 1.5
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 55 VLMVGPPGTGKTMLAKAVA 73
+++ G PG GKT L K +
Sbjct: 3 IIITGEPGVGKTTLVKKIV 21
>3op7_A Aminotransferase class I and II; PLP-dependent transferase,
structural genomics, joint center structural genomics,
JCSG; HET: LLP UNL; 1.70A {Streptococcus suis 89} PDB:
3p6k_A*
Length = 375
Score = 28.7 bits (65), Expect = 1.5
Identities = 8/80 (10%), Positives = 18/80 (22%), Gaps = 22/80 (27%)
Query: 85 NFPWNIDDAFLRRLEKRI--YVPLPSSSGRQELLRLILRQVDLASDLDLELVSDQLEGYS 142
+ F ++L+ Y G + + S G
Sbjct: 39 ALSGTNPEDFYKKLQGTKLNYGW---IEGSPAFKKSV---------------SQLYTGVK 80
Query: 143 ASDIVVVC--RDAAFMAMRA 160
I+ A + + +
Sbjct: 81 PEQILQTNGATGANLLVLYS 100
>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function;
HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*
Length = 359
Score = 28.5 bits (63), Expect = 1.5
Identities = 5/19 (26%), Positives = 7/19 (36%)
Query: 55 VLMVGPPGTGKTMLAKAVA 73
+V GT + AV
Sbjct: 122 TAVVARGGTANAIRIAAVD 140
Score = 27.0 bits (59), Expect = 5.2
Identities = 8/19 (42%), Positives = 15/19 (78%)
Query: 55 VLMVGPPGTGKTMLAKAVA 73
V++VG PG+GK+ +A+ +
Sbjct: 27 VILVGSPGSGKSTIAEELC 45
>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian
virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A
2h1l_A
Length = 377
Score = 28.5 bits (63), Expect = 1.6
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 53 KGVLMVGPPGTGKTMLAKAVA 73
+ L GP +GKT LA A+
Sbjct: 170 RYWLFKGPIDSGKTTLAAALL 190
>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P;
hydrolase, type IV secretion, conjugation; 2.35A
{Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A
Length = 392
Score = 28.4 bits (63), Expect = 1.6
Identities = 16/89 (17%), Positives = 33/89 (37%), Gaps = 8/89 (8%)
Query: 55 VLMVGPPGTGKTMLAKAVAIVYNQVHCGASNFPWNIDD----AFLRRLEKRIYVPLPSSS 110
++ PG GK+ AK ++ + G + ID + R +++
Sbjct: 38 WTILAKPGAGKSFTAK--MLLLREYMQG--SRVIIIDPEREYKEMCRKLGGVWINCTGGE 93
Query: 111 GRQELLRLILRQVDLASDLDLELVSDQLE 139
G+ L++ LR V+ + + S
Sbjct: 94 GKINPLQVRLRPVEEEDEENAVFQSPLAL 122
>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella
burnetii}
Length = 181
Score = 28.1 bits (62), Expect = 1.6
Identities = 7/17 (41%), Positives = 10/17 (58%)
Query: 53 KGVLMVGPPGTGKTMLA 69
GVL+ G GK+ L+
Sbjct: 17 MGVLITGEANIGKSELS 33
>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone,
hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus
influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*
Length = 310
Score = 28.4 bits (64), Expect = 1.6
Identities = 11/21 (52%), Positives = 16/21 (76%)
Query: 53 KGVLMVGPPGTGKTMLAKAVA 73
K +LM+GP G GKT +A+ +A
Sbjct: 51 KNILMIGPTGVGKTEIARRLA 71
>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR
complex, HMR, HML, TELO AAA+ domain, structural,
nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}
Length = 318
Score = 28.3 bits (62), Expect = 1.8
Identities = 3/18 (16%), Positives = 5/18 (27%)
Query: 55 VLMVGPPGTGKTMLAKAV 72
+ + K L V
Sbjct: 48 FYITNADDSTKFQLVNDV 65
>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann,
hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11
Length = 189
Score = 28.1 bits (62), Expect = 1.8
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 53 KGVLMVGPPGTGKTMLAKAVA 73
+ V + GPPG GKT L +
Sbjct: 2 RHVFLTGPPGVGKTTLIHKAS 22
>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A
{Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20
c.37.1.20
Length = 854
Score = 28.7 bits (65), Expect = 1.9
Identities = 11/18 (61%), Positives = 13/18 (72%)
Query: 56 LMVGPPGTGKTMLAKAVA 73
L +GP G GKT LAK +A
Sbjct: 592 LFLGPTGVGKTELAKTLA 609
>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding,
carbohydrate metabolism, magnesium, metal-binding,
multifunctional enzyme; 2.60A {Lactobacillus casei}
PDB: 1jb1_A 1kkl_A 1kkm_A*
Length = 205
Score = 27.7 bits (61), Expect = 2.3
Identities = 8/17 (47%), Positives = 10/17 (58%)
Query: 53 KGVLMVGPPGTGKTMLA 69
GVL+ G G GK+ A
Sbjct: 35 LGVLITGDSGVGKSETA 51
>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A
{Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB:
1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*
Length = 334
Score = 28.1 bits (63), Expect = 2.4
Identities = 6/18 (33%), Positives = 9/18 (50%)
Query: 56 LMVGPPGTGKTMLAKAVA 73
L+ PG G L A++
Sbjct: 28 LIQALPGMGDDALIYALS 45
>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 353
Score = 27.9 bits (62), Expect = 2.5
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 55 VLMVGPPGTGKTMLAKAVA 73
+L GPPGTGKT A+
Sbjct: 61 MLFYGPPGTGKTSTILALT 79
>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural
genomics, center for structural genomics; 2.80A
{Escherichia coli}
Length = 145
Score = 27.1 bits (61), Expect = 2.8
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 55 VLMVGPPGTGKTMLAKAV 72
V + G PGTG+ A+ +
Sbjct: 27 VWLYGAPGTGRMTGARYL 44
>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase
(phospho), phosphatase, hydrolase (phosp glycolysis,
bifunctional enzyme; HET: AGS; 2.00A {Rattus
norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A*
2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A
Length = 469
Score = 28.0 bits (62), Expect = 2.9
Identities = 8/19 (42%), Positives = 13/19 (68%)
Query: 55 VLMVGPPGTGKTMLAKAVA 73
++MVG P GKT ++K +
Sbjct: 42 IVMVGLPARGKTYISKKLT 60
>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+
protein; 2.10A {Human papillomavirus type 18} SCOP:
c.37.1.20
Length = 212
Score = 27.5 bits (61), Expect = 2.9
Identities = 15/79 (18%), Positives = 24/79 (30%), Gaps = 17/79 (21%)
Query: 1 MKRLIKRDIIVERPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQHIRKPW-KGV---- 55
M + I+ W I + L+ I + F K + KG
Sbjct: 10 MSQWIRFRCSKIDEGGDWRPIV------QFLRYQQIEFIT----FLGALKSFLKGTPKKN 59
Query: 56 --LMVGPPGTGKTMLAKAV 72
+ GP TGK+ +
Sbjct: 60 CLVFCGPANTGKSYFGMSF 78
>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain,
PIN-tower interface, coupling hydrolysis to DNA
unwinding, ssDNA; 3.30A {Enterobacteria phage T4}
Length = 459
Score = 27.7 bits (61), Expect = 3.1
Identities = 10/33 (30%), Positives = 14/33 (42%)
Query: 48 IRKPWKGVLMVGPPGTGKTMLAKAVAIVYNQVH 80
I++ V + GP GTG T L K +
Sbjct: 41 IKEKKHHVTINGPAGTGATTLTKFIIEALISTG 73
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 26.8 bits (58), Expect = 3.6
Identities = 4/18 (22%), Positives = 9/18 (50%), Gaps = 4/18 (22%)
Query: 95 LRRLEKRI--YVP--LPS 108
L++L+ + Y P+
Sbjct: 22 LKKLQASLKLYADDSAPA 39
>2po1_B Probable exosome complex exonuclease 2; RNAse PH,
hydrolase/hydrolase/RNA complex; 1.94A {Pyrococcus
abyssi} PDB: 2po0_B* 2pnz_B 2po2_B*
Length = 277
Score = 27.4 bits (61), Expect = 3.6
Identities = 16/68 (23%), Positives = 29/68 (42%), Gaps = 10/68 (14%)
Query: 113 QELLRLILRQVDLASDLDLELVSDQLEGYSASDIVVVC---------RDAAFMAMRAAIR 163
EL R+I R + + L+LE + + G + + DA +A AA+
Sbjct: 107 IELARVIDRGIRESKALNLEKMVI-VPGKIVRVVFIDVHVLDHDGNLMDAIGIAAIAALL 165
Query: 164 GKSVPQIQ 171
VP+++
Sbjct: 166 NARVPKVR 173
>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI,
protein structure initiative; 2.05A {Escherichia coli}
SCOP: c.37.1.2
Length = 173
Score = 27.1 bits (61), Expect = 3.7
Identities = 7/24 (29%), Positives = 14/24 (58%)
Query: 50 KPWKGVLMVGPPGTGKTMLAKAVA 73
+ + +VGP G GK+ + + +A
Sbjct: 2 AEKRNIFLVGPMGAGKSTIGRQLA 25
>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase,
HEL helix motif, transcription regulator; 3.20A
{Streptococcus pneumoniae}
Length = 253
Score = 27.2 bits (59), Expect = 3.7
Identities = 6/20 (30%), Positives = 10/20 (50%)
Query: 53 KGVLMVGPPGTGKTMLAKAV 72
+L+ G G GKT + +
Sbjct: 33 IAILLGGQSGAGKTTIHRIK 52
>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET:
ATP; NMR {Saccharomyces cerevisiae}
Length = 608
Score = 27.3 bits (61), Expect = 4.0
Identities = 7/19 (36%), Positives = 11/19 (57%)
Query: 55 VLMVGPPGTGKTMLAKAVA 73
+ +VG G GK+ K +A
Sbjct: 106 LGLVGTNGIGKSTALKILA 124
>3aty_A Tcoye, prostaglandin F2A synthase; alpha/beta barrel,
oxidoreductase, flavin mononucleotide; HET: FMN; 1.70A
{Trypanosoma cruzi} PDB: 3atz_A*
Length = 379
Score = 27.5 bits (62), Expect = 4.0
Identities = 6/55 (10%), Positives = 18/55 (32%), Gaps = 4/55 (7%)
Query: 8 DIIVERPDVQWSDIANQVKAKKL----LQEAVILPLEKPSYFQHIRKPWKGVLMV 58
+I P+ + +++ L ++ + +R + GV +
Sbjct: 258 GMIDSNPEALTKHLCKKIEPLSLAYLHYLRGDMVNQQIGDVVAWVRGSYSGVKIS 312
>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and
beta protein; HET: GSP; 1.90A {Methanocaldococcus
jannaschii} PDB: 2hf8_A*
Length = 226
Score = 27.2 bits (61), Expect = 4.0
Identities = 8/19 (42%), Positives = 11/19 (57%), Gaps = 3/19 (15%)
Query: 53 KGVLMV---GPPGTGKTML 68
GV+ G G+GKT+L
Sbjct: 36 HGVVAFDFMGAIGSGKTLL 54
>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding
protein; 2.30A {Archaeoglobus fulgidus}
Length = 221
Score = 27.2 bits (61), Expect = 4.1
Identities = 8/19 (42%), Positives = 11/19 (57%), Gaps = 3/19 (15%)
Query: 53 KGVLMV---GPPGTGKTML 68
G + V G G+GKT+L
Sbjct: 28 SGTVAVNIMGAIGSGKTLL 46
>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur
cluster, adenosine diphosphate, nucleotide-binding; HET:
ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*
Length = 607
Score = 27.3 bits (61), Expect = 4.2
Identities = 11/19 (57%), Positives = 13/19 (68%)
Query: 55 VLMVGPPGTGKTMLAKAVA 73
V +VGP GTGKT K +A
Sbjct: 120 VGIVGPNGTGKTTAVKILA 138
Score = 26.5 bits (59), Expect = 8.5
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 57 MVGPPGTGKTMLAKAVA 73
+VGP G GKT K +A
Sbjct: 387 IVGPNGIGKTTFVKMLA 403
>3zvl_A Bifunctional polynucleotide phosphatase/kinase;
hydrolase-transferase complex, base excision repair,
BER, non-homologous END-joining, NHEJ; 1.65A {Mus
musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B*
3u7h_B* 3u7g_A*
Length = 416
Score = 27.2 bits (59), Expect = 4.3
Identities = 12/44 (27%), Positives = 18/44 (40%)
Query: 38 PLEKPSYFQHIRKPWKGVLMVGPPGTGKTMLAKAVAIVYNQVHC 81
PL P + + V+ VG PG GK+ + + VH
Sbjct: 244 PLYLPESSSLLSPNPEVVVAVGFPGAGKSTFIQEHLVSAGYVHV 287
>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA
replication, MCM complex, AAA+ Pro ATP-binding,
DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}
Length = 595
Score = 27.2 bits (61), Expect = 4.5
Identities = 6/19 (31%), Positives = 14/19 (73%)
Query: 55 VLMVGPPGTGKTMLAKAVA 73
+L++G PGT K+ + + ++
Sbjct: 330 ILIIGDPGTAKSQMLQFIS 348
>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid
biosynthesis, P-loop kinase, metal- binding, shikimate
pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis}
SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A*
2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A*
1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A*
3baf_A*
Length = 184
Score = 26.8 bits (60), Expect = 4.6
Identities = 7/19 (36%), Positives = 14/19 (73%)
Query: 55 VLMVGPPGTGKTMLAKAVA 73
++VG PG+GK+ + + +A
Sbjct: 5 AVLVGLPGSGKSTIGRRLA 23
>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme
function initiative, EFI, STRU genomics, transferase;
1.60A {Janibacter SP}
Length = 200
Score = 27.0 bits (59), Expect = 4.7
Identities = 10/24 (41%), Positives = 17/24 (70%)
Query: 50 KPWKGVLMVGPPGTGKTMLAKAVA 73
+P + V+++G G+GKT +A VA
Sbjct: 27 EPTRHVVVMGVSGSGKTTIAHGVA 50
>2qpt_A EH domain-containing protein-2; protein-nucleotide complex,
membrane protein, endocytosis; HET: ANP; 3.10A {Mus
musculus}
Length = 550
Score = 27.1 bits (59), Expect = 4.7
Identities = 15/48 (31%), Positives = 20/48 (41%), Gaps = 10/48 (20%)
Query: 28 KKLLQEAVILPLEKPSYFQHIRKPWKG---------VLMVGPPGTGKT 66
K+L + +LPLE+ F P VL+ G TGKT
Sbjct: 33 KELYRTK-LLPLEEHYRFGSFHSPALEDADFDGKPMVLVAGQYSTGKT 79
>3t61_A Gluconokinase; PSI-biology, structural genomics, protein
structure initiati YORK structural genomics research
consortium, nysgrc; 2.20A {Sinorhizobium meliloti}
Length = 202
Score = 26.6 bits (58), Expect = 5.1
Identities = 6/19 (31%), Positives = 15/19 (78%)
Query: 55 VLMVGPPGTGKTMLAKAVA 73
++++G G+GK+ + +A+A
Sbjct: 21 IVVMGVSGSGKSSVGEAIA 39
>3drf_A Oligopeptide-binding protein OPPA; oligo-peptide binding,
voluminous binding cavity, venus FLY- trap, peptide
binding protein; 1.30A {Lactococcus lactis} PDB: 3drg_A
3drh_A 3dri_A 3drj_A 3drk_A 3fto_A 3rya_A 3ryb_A
Length = 590
Score = 27.1 bits (60), Expect = 5.4
Identities = 7/21 (33%), Positives = 10/21 (47%)
Query: 14 PDVQWSDIANQVKAKKLLQEA 34
V+ + + KA KLL E
Sbjct: 371 SSVKGYEKQDLDKANKLLDED 391
>1nrj_B SR-beta, signal recognition particle receptor beta subunit;
transmembrane, endoplasmic reticulum, GTP-binding; HET:
GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8
Length = 218
Score = 26.6 bits (59), Expect = 5.4
Identities = 6/14 (42%), Positives = 10/14 (71%)
Query: 55 VLMVGPPGTGKTML 68
+++ GP +GKT L
Sbjct: 15 IIIAGPQNSGKTSL 28
>2ged_A SR-beta, signal recognition particle receptor beta subunit;
protein transport, G protein, proline isomerization,
circular permutation; 2.20A {Saccharomyces cerevisiae}
Length = 193
Score = 26.6 bits (59), Expect = 6.0
Identities = 6/14 (42%), Positives = 10/14 (71%)
Query: 55 VLMVGPPGTGKTML 68
+++ GP +GKT L
Sbjct: 51 IIIAGPQNSGKTSL 64
>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus,
hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A
Length = 677
Score = 26.8 bits (58), Expect = 6.0
Identities = 7/17 (41%), Positives = 9/17 (52%)
Query: 53 KGVLMVGPPGTGKTMLA 69
K + GP +GKT A
Sbjct: 156 KIIFHSGPTNSGKTYHA 172
>2v1u_A Cell division control protein 6 homolog; DNA replication,
nucleotide-binding, replication, archaea; HET: ADP;
3.10A {Aeropyrum pernix}
Length = 387
Score = 26.7 bits (58), Expect = 6.1
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 55 VLMVGPPGTGKTMLAKAV 72
L+ G GTGKT +A+ V
Sbjct: 47 ALLYGLTGTGKTAVARLV 64
>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase,
translation; HET: ADP; 2.05A {Sulfolobus solfataricus}
Length = 538
Score = 26.9 bits (60), Expect = 6.1
Identities = 7/19 (36%), Positives = 12/19 (63%)
Query: 55 VLMVGPPGTGKTMLAKAVA 73
+ ++G G GKT + K +A
Sbjct: 28 LGVLGKNGVGKTTVLKILA 46
>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system
kinase, STRU genomics, joint center for structural
genomics, JCSG; 1.95A {Silicibacter SP}
Length = 208
Score = 26.6 bits (59), Expect = 6.2
Identities = 7/22 (31%), Positives = 12/22 (54%)
Query: 59 GPPGTGKTMLAKAVAIVYNQVH 80
G PG+GK+ L+ +A +
Sbjct: 29 GAPGSGKSTLSNPLAAALSAQG 50
>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway,
P-loop protein, transferase; 1.8A {Erwinia
chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*
Length = 173
Score = 26.4 bits (59), Expect = 6.4
Identities = 7/19 (36%), Positives = 11/19 (57%)
Query: 55 VLMVGPPGTGKTMLAKAVA 73
+ MVG G G T + + +A
Sbjct: 5 IFMVGARGCGMTTVGRELA 23
>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP:
a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*
Length = 549
Score = 26.9 bits (59), Expect = 6.7
Identities = 5/15 (33%), Positives = 9/15 (60%)
Query: 58 VGPPGTGKTMLAKAV 72
G G+GK+++A
Sbjct: 158 HGRAGSGKSVIASQA 172
>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis,
hydrolyase/translation complex; HET: ADP; 1.90A
{Pyrococcus furiosus}
Length = 538
Score = 26.9 bits (60), Expect = 6.7
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 57 MVGPPGTGKTMLAKAVA 73
+VGP G GKT K +A
Sbjct: 317 IVGPNGIGKTTFVKMLA 333
>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein,
ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus
radiodurans} PDB: 3gp8_A 3gpl_A*
Length = 574
Score = 26.6 bits (59), Expect = 6.7
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 55 VLMVGPPGTGKTMLAKAVAIVYNQVH 80
V++ G PGTGK+ KAVA + +
Sbjct: 207 VVLTGGPGTGKSTTTKAVADLAESLG 232
>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A
{Coxiella burnetii}
Length = 185
Score = 26.4 bits (59), Expect = 6.8
Identities = 7/25 (28%), Positives = 13/25 (52%)
Query: 49 RKPWKGVLMVGPPGTGKTMLAKAVA 73
+K + ++G G GKT + +A
Sbjct: 2 KKNLTNIYLIGLMGAGKTSVGSQLA 26
>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family;
helicase, MCM homolog, DNA replication, ATP-binding,
DNA-binding; 1.90A {Methanopyrus kandleri AV19}
Length = 506
Score = 26.7 bits (59), Expect = 6.8
Identities = 5/19 (26%), Positives = 8/19 (42%)
Query: 55 VLMVGPPGTGKTMLAKAVA 73
VL+ G P +L +
Sbjct: 242 VLLAGYPVVCSEILHHVLD 260
>1jfi_A Transcription regulator NC2 alpha chain; histone, H2A/H2B,
tata-DNA, transcription initiation, NC2, negative
cofactor, structural genomics, PSI; 2.62A {Homo sapiens}
SCOP: a.22.1.3
Length = 98
Score = 25.6 bits (56), Expect = 7.0
Identities = 9/50 (18%), Positives = 21/50 (42%)
Query: 164 GKSVPQIQAIPMAQLKRPVTKADFEMAIAKCRKTVTAADIRQFEEWNEKF 213
+VP I + + + K ++ ++ KT+T + ++Q E
Sbjct: 31 AAAVPVIISRALELFLESLLKKACQVTQSRNAKTMTTSHLKQCIELEGDP 80
>2fh5_B SR-beta, signal recognition particle receptor beta subunit;
endomembrane targeting, GTPase, GAP, longin domain,
SEDL, transport protein; HET: GTP; 2.45A {Mus musculus}
SCOP: c.37.1.8 PDB: 2go5_2
Length = 214
Score = 26.2 bits (58), Expect = 7.6
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 55 VLMVGPPGTGKTML 68
VL VG +GKT+L
Sbjct: 10 VLFVGLCDSGKTLL 23
>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis,
nucleotide binding binding, cytoplasm,
nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium
tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A*
2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A*
2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A*
3avo_A* 3avq_A*
Length = 312
Score = 26.4 bits (58), Expect = 7.7
Identities = 13/58 (22%), Positives = 24/58 (41%), Gaps = 1/58 (1%)
Query: 21 IANQVKAKKLLQEAVILPLEKPSYFQHIRKPWKGVLMVGPPGTGKTMLAKAVAIVYNQ 78
I QV A++ L A L +P P+ + + G GK+ A+ + + +
Sbjct: 60 IHLQVAARQRLFAATAEFLGEPQQNPDRPVPF-IIGVAGSVAVGKSTTARVLQALLAR 116
>3co5_A Putative two-component system transcriptional RES regulator;
structural genomics, APC89341.1; 2.40A {Neisseria
gonorrhoeae}
Length = 143
Score = 25.6 bits (57), Expect = 7.9
Identities = 4/18 (22%), Positives = 8/18 (44%)
Query: 55 VLMVGPPGTGKTMLAKAV 72
V + G G+ +A+
Sbjct: 30 VFLTGEAGSPFETVARYF 47
>2r2a_A Uncharacterized protein; zonular occludens toxin, structural
genomics, APC84050.2, PS protein structure initiative;
HET: MSE; 1.82A {Neisseria meningitidis MC58}
Length = 199
Score = 26.2 bits (57), Expect = 8.1
Identities = 10/22 (45%), Positives = 15/22 (68%), Gaps = 2/22 (9%)
Query: 56 LMVGPPGTGKTMLAKAVAIVYN 77
L+ G PG+GKT K V+++ N
Sbjct: 9 LITGTPGSGKT--LKMVSMMAN 28
>3es5_A Putative capsid protein; partitivirus, RNA virus, double stranded
RNA virus, dsRNA virus, "T=2" capsid, icosahedral virus;
3.30A {Penicillium stoloniferum virus F}
Length = 420
Score = 26.5 bits (57), Expect = 8.2
Identities = 13/64 (20%), Positives = 26/64 (40%), Gaps = 5/64 (7%)
Query: 7 RDIIVERPDVQWSDIANQVKAKKLLQEAVILPLEKPSYFQHIRKPWKGVLMVGPPGTGKT 66
R ++ D+ ++D A ++ A + E ++ Y + + + VGPP G T
Sbjct: 297 RSDLLTTLDLLYADGAYEISALRDQFELLMA-----RYTTDFKWRVESIFKVGPPPAGTT 351
Query: 67 MLAK 70
Sbjct: 352 GYGA 355
>2fna_A Conserved hypothetical protein; structural genomics, joint center
for structural genomics, J protein structure initiative,
PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus}
SCOP: a.4.5.11 c.37.1.20
Length = 357
Score = 26.2 bits (57), Expect = 8.5
Identities = 16/109 (14%), Positives = 33/109 (30%), Gaps = 13/109 (11%)
Query: 38 PLEKPSYF-------QHIRKPW-KGVLMVGPPGTGKTMLAKAVA-----IVYNQVHCGAS 84
P + F + ++ L++G TGK+ + K
Sbjct: 8 PKDNRKDFFDREKEIEKLKGLRAPITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFE 67
Query: 85 NFPWNIDDAFLRRLEKRIYVPLPSSSGRQELLRLILRQVDLASDLDLEL 133
+ FL L+K I + + L+ I V + +++
Sbjct: 68 ERNYISYKDFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNW 116
>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex,
transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}
Length = 460
Score = 26.3 bits (57), Expect = 8.6
Identities = 8/16 (50%), Positives = 12/16 (75%)
Query: 55 VLMVGPPGTGKTMLAK 70
V++VG TGKT L++
Sbjct: 141 VVIVGGSQTGKTSLSR 156
>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase;
HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*
Length = 368
Score = 26.4 bits (58), Expect = 8.9
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 55 VLMVGPPGTGKTMLAKAVAIVYN 77
VL+ G PGTGKT +A +A
Sbjct: 73 VLIAGQPGTGKTAIAMGMAQALG 95
>2eyu_A Twitching motility protein PILT; pilus retraction motor,
C-terminal domain PILT, protein transport; 1.87A
{Aquifex aeolicus}
Length = 261
Score = 26.0 bits (58), Expect = 9.3
Identities = 12/39 (30%), Positives = 18/39 (46%), Gaps = 5/39 (12%)
Query: 36 ILPLEK---PSYFQHIRKPWKG-VLMVGPPGTGK-TMLA 69
I +K P + G +L+ GP G+GK T +A
Sbjct: 5 IPEFKKLGLPDKVLELCHRKMGLILVTGPTGSGKSTTIA 43
>3m7n_G Probable exosome complex exonuclease 2; exosome, RNA, exonuclease,
hydrolase, nuclease, hydrolase-RN; 2.40A {Archaeoglobus
fulgidus} PDB: 2ba1_H 2ba0_I 3m85_G
Length = 259
Score = 26.2 bits (58), Expect = 9.4
Identities = 18/81 (22%), Positives = 29/81 (35%), Gaps = 10/81 (12%)
Query: 113 QELLRLILRQVDLASDLDLELVSDQLEGYSASDIVVVC---------RDAAFMAMRAAIR 163
EL R++ R + + +DL + EG + V DA+ +A AA+
Sbjct: 103 IELARVVDRGIRESEAVDLSKLVI-EEGEKVWIVFVDIHALDDDGNLLDASALAAIAALM 161
Query: 164 GKSVPQIQAIPMAQLKRPVTK 184
VP + PV
Sbjct: 162 NTKVPAERFDLGEDYLLPVRD 182
>2fn0_A Salicylate synthetase, IRP9; salicylate synthase, siderophore,
transcription; 1.85A {Yersinia enterocolitica} SCOP:
d.161.1.1 PDB: 2fn1_A*
Length = 437
Score = 26.1 bits (58), Expect = 9.7
Identities = 14/127 (11%), Positives = 34/127 (26%), Gaps = 11/127 (8%)
Query: 87 PWNIDDAFLRRLEKRIYVPLPSSSGRQ------ELLRLILRQVDLASDL-DLEL-VSDQL 138
W +D + +R R A + L L V +
Sbjct: 73 KWAVDS--IADCARRFMAHPQVKGRRVYGQVGFNFAAHARGIAFNAGEWPLLTLTVPREE 130
Query: 139 EGYSASDIVVVCRDAAFMAMRAAIRGKSVPQIQAIPMAQLKRPVTKADFEMAIAKCRKTV 198
+ ++ V A ++ Q P+A + + ++ +A+ +
Sbjct: 131 LIFEKGNVTVYADSADGCRRLCEWVKEASTTTQNAPLA-VDTALNGEAYKQQVARAVAEI 189
Query: 199 TAADIRQ 205
+ +
Sbjct: 190 RRGEYVK 196
>3log_A Isochorismate synthase/isochorismate-pyruvate LYA; salicylate,
anthranilate, isochor synthase, isochorismate lyase, ION
transport; 1.73A {Mycobacterium tuberculosis} PDB:
2i6y_A 2g5f_A
Length = 451
Score = 26.2 bits (58), Expect = 10.0
Identities = 8/76 (10%), Positives = 19/76 (25%), Gaps = 8/76 (10%)
Query: 130 DLELVSDQLEGYSASDIVVVCRDAAFMAMRAAIRGKSVPQIQAIPMAQLKRPVTKADFEM 189
++ + E + DA A R + + + + F
Sbjct: 140 RTRIMVSEKE--------IRLFDAGIRHREAIDRLLATGVREVPQSRSVDVSDDPSGFRR 191
Query: 190 AIAKCRKTVTAADIRQ 205
+A + A +
Sbjct: 192 RVAVAVDEIAAGRYHK 207
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.322 0.135 0.398
Gapped
Lambda K H
0.267 0.0797 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,555,347
Number of extensions: 219638
Number of successful extensions: 1070
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1030
Number of HSP's successfully gapped: 244
Length of query: 217
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 127
Effective length of database: 4,188,903
Effective search space: 531990681
Effective search space used: 531990681
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (24.8 bits)