RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11253
(515 letters)
>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding,
nucleotide-binding, HY; HET: ADP; 3.11A
{Methanocaldococcus jannaschii}
Length = 285
Score = 163 bits (415), Expect = 7e-47
Identities = 47/82 (57%), Positives = 65/82 (79%)
Query: 80 VYNMSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGT 139
M ++ ++ Y IGGL +Q++E+REV+ELPL +PELF++VGI PPKG LLYGPPGT
Sbjct: 3 AKAMEVDERPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGT 62
Query: 140 GKTLLARAVASQLDANFLKVVS 161
GKTLLA+AVA++ +A F++VV
Sbjct: 63 GKTLLAKAVATETNATFIRVVG 84
Score = 152 bits (385), Expect = 2e-42
Identities = 37/71 (52%), Positives = 51/71 (71%)
Query: 445 AIVDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELL 504
+V K+IGE A L++++F A++ P IIF+DEIDAI +R T DRE+QRTLM+LL
Sbjct: 86 ELVKKFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLL 145
Query: 505 NQMDGFDSLGQ 515
+MDGFD+ G
Sbjct: 146 AEMDGFDARGD 156
>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 = 132 bits (334), Expect = 9e-34
Identities = 49/167 (29%), Positives = 79/167 (47%), Gaps = 10/167 (5%)
Query: 1 MTTPVVDEVRHKTLQDYRKKLTEHAEVEGRLRETTNGPRYVV---GCRRQLDKAKLKSGT 57
P+ D V T + L + R G ++V + +
Sbjct: 115 HVLPIDDTVEGITGNLFEVYLKPYFLEAYRP--IRKGDIFLVHGGMRAVEFKVVETDPSP 172
Query: 58 RVALDMTTLTIMRYLPREVDPLVYNMSHEDPGDITYSAIGGLSEQIRELREVIELPLLNP 117
+ T+ + E +P+ E ++ Y IGG +Q+ +++E++ELPL +P
Sbjct: 173 YCIVAPDTV-----IHCEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHP 227
Query: 118 ELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSRTI 164
LF+ +G+ PP+G LLYGPPGTGKTL+ARAVA++ A F + I
Sbjct: 228 ALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEI 274
Score = 90.6 bits (225), Expect = 1e-19
Identities = 33/92 (35%), Positives = 49/92 (53%), Gaps = 5/92 (5%)
Query: 426 TILFHEIPHEIGDFAILIHA--IVDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGG 483
T++ + +E G F LI+ I+ K GES +R+ F A + P IIF+DE+DAI
Sbjct: 252 TLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAP 311
Query: 484 RRFSEGTSADREIQRTLMELLNQMDGFDSLGQ 515
+R E T + E +R + +LL MDG
Sbjct: 312 KR--EKTHGEVE-RRIVSQLLTLMDGLKQRAH 340
>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A
{Homo sapiens}
Length = 274
Score = 117 bits (296), Expect = 4e-30
Identities = 32/70 (45%), Positives = 46/70 (65%)
Query: 90 DITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVA 149
++T++ IG L + EL I P+ NP+ F+ +G+ P G LL GPPG GKTLLA+AVA
Sbjct: 6 NVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVA 65
Query: 150 SQLDANFLKV 159
++ NF+ V
Sbjct: 66 NESGLNFISV 75
Score = 80.7 bits (200), Expect = 4e-17
Identities = 27/70 (38%), Positives = 44/70 (62%), Gaps = 3/70 (4%)
Query: 446 IVDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLN 505
+++ Y+GES R +R++F A++ PC+IF DE+DA+ RR T A R + +LL
Sbjct: 80 LLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGA---SVRVVNQLLT 136
Query: 506 QMDGFDSLGQ 515
+MDG ++ Q
Sbjct: 137 EMDGLEARQQ 146
>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 = 6e-30
Identities = 34/70 (48%), Positives = 52/70 (74%)
Query: 90 DITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVA 149
+T+ IGGL + REL+E+++ P+ +P+ F + G+TP KG L YGPPG GKTLLA+A+A
Sbjct: 11 QVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIA 70
Query: 150 SQLDANFLKV 159
++ ANF+ +
Sbjct: 71 NECQANFISI 80
Score = 81.5 bits (202), Expect = 3e-17
Identities = 21/70 (30%), Positives = 36/70 (51%)
Query: 446 IVDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLN 505
++ + GES +RE+F+ AR PC++F DE+D+I R R + ++L
Sbjct: 85 LLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILT 144
Query: 506 QMDGFDSLGQ 515
+MDG +
Sbjct: 145 EMDGMSTKKN 154
>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 = 116 bits (291), Expect = 1e-27
Identities = 43/120 (35%), Positives = 72/120 (60%), Gaps = 4/120 (3%)
Query: 44 CRRQLDKAKLKSGTRVALDMTTLTI----MRYLPREVDPLVYNMSHEDPGDITYSAIGGL 99
R+++D L+ T A M +L + R+ + +P + + +T+ IGGL
Sbjct: 423 IRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGGL 482
Query: 100 SEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKV 159
+ REL+E+++ P+ +P+ F + G+TP KG L YGPPG GKTLLA+A+A++ ANF+ +
Sbjct: 483 EDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISI 542
Score = 114 bits (288), Expect = 4e-27
Identities = 38/85 (44%), Positives = 59/85 (69%)
Query: 75 EVDPLVYNMSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLY 134
E +P+ E ++ Y +GG +Q+ +++E++ELPL +P LF+ +G+ PP+G LLY
Sbjct: 185 EGEPIKREDEEESLNEVGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLY 244
Query: 135 GPPGTGKTLLARAVASQLDANFLKV 159
GPPGTGKTL+ARAVA++ A F +
Sbjct: 245 GPPGTGKTLIARAVANETGAFFFLI 269
Score = 85.6 bits (212), Expect = 1e-17
Identities = 21/70 (30%), Positives = 36/70 (51%)
Query: 446 IVDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLN 505
++ + GES +RE+F+ AR PC++F DE+D+I R R + ++L
Sbjct: 547 LLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILT 606
Query: 506 QMDGFDSLGQ 515
+MDG +
Sbjct: 607 EMDGMSTKKN 616
Score = 69.8 bits (171), Expect = 9e-13
Identities = 33/92 (35%), Positives = 49/92 (53%), Gaps = 5/92 (5%)
Query: 426 TILFHEIPHEIGDFAILIHA--IVDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGG 483
T++ + +E G F LI+ I+ K GES +R+ F A + P IIF+DE+DAI
Sbjct: 252 TLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAP 311
Query: 484 RRFSEGTSADREIQRTLMELLNQMDGFDSLGQ 515
+R E T + E +R + +LL MDG
Sbjct: 312 KR--EKTHGEVE-RRIVSQLLTLMDGLKQRAH 340
Score = 37.9 bits (88), Expect = 0.008
Identities = 5/51 (9%), Positives = 13/51 (25%)
Query: 91 ITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGK 141
++ + I + L++ + G P +G
Sbjct: 747 VSDNDIRKYEMFAQTLQQSRGFGSFRFPSGNQGGAGPSQGSGGGTGGSVYT 797
>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding,
hydrolase; 2.70A {Drosophila melanogaster}
Length = 297
Score = 103 bits (260), Expect = 6e-25
Identities = 32/79 (40%), Positives = 48/79 (60%), Gaps = 2/79 (2%)
Query: 86 EDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLA 145
+ ++ I G + L+E++ LP + PELF + P KG LL+GPPG GKTLLA
Sbjct: 14 GGA-KVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLR-APAKGLLLFGPPGNGKTLLA 71
Query: 146 RAVASQLDANFLKVVSRTI 164
RAVA++ A FL + + ++
Sbjct: 72 RAVATECSATFLNISAASL 90
Score = 83.1 bits (206), Expect = 7e-18
Identities = 26/74 (35%), Positives = 38/74 (51%), Gaps = 3/74 (4%)
Query: 439 FAILIHAIVDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQR 498
I ++ KY+G+ +L+R +F AR QP IIF+DE+D++ R S A R R
Sbjct: 83 LNISAASLTSKYVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASR---R 139
Query: 499 TLMELLNQMDGFDS 512
E L + DG
Sbjct: 140 LKTEFLVEFDGLPG 153
>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 = 102 bits (256), Expect = 1e-24
Identities = 23/87 (26%), Positives = 40/87 (45%), Gaps = 4/87 (4%)
Query: 75 EVDPLVYNMSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLY 134
++ P + + ED + I + + + + EL + + R TP LL
Sbjct: 15 DIKP-AFGTNQEDYASYIMNGIIKWGDPVTRVLDDGELLVQQTKNSDR---TPLVSVLLE 70
Query: 135 GPPGTGKTLLARAVASQLDANFLKVVS 161
GPP +GKT LA +A + + F+K+ S
Sbjct: 71 GPPHSGKTALAAKIAEESNFPFIKICS 97
Score = 62.5 bits (152), Expect = 5e-11
Identities = 10/71 (14%), Positives = 26/71 (36%), Gaps = 5/71 (7%)
Query: 446 IVDKYIGES-ARLIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELL 504
+ + + + ++++F+ A Q + +D+I+ + R L LL
Sbjct: 100 KMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYV----PIGPRFSNLVLQALL 155
Query: 505 NQMDGFDSLGQ 515
+ G+
Sbjct: 156 VLLKKAPPQGR 166
>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 = 103 bits (258), Expect = 2e-24
Identities = 29/92 (31%), Positives = 54/92 (58%), Gaps = 2/92 (2%)
Query: 73 PREVDPLVYNMSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCL 132
P+ ++ ++ + P + + I G+ ++E++ P+L P++F + PPKG L
Sbjct: 64 PKMIELIMNEIMDHGP-PVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLR-GPPKGIL 121
Query: 133 LYGPPGTGKTLLARAVASQLDANFLKVVSRTI 164
L+GPPGTGKTL+ + +ASQ A F + + ++
Sbjct: 122 LFGPPGTGKTLIGKCIASQSGATFFSISASSL 153
Score = 81.3 bits (201), Expect = 6e-17
Identities = 25/77 (32%), Positives = 43/77 (55%), Gaps = 3/77 (3%)
Query: 439 FAILIHAIVDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQR 498
F+I ++ K++GE +++R +F AR QP +IF+DEID++ +R + R R
Sbjct: 146 FSISASSLTSKWVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSR---R 202
Query: 499 TLMELLNQMDGFDSLGQ 515
E L Q+DG + +
Sbjct: 203 IKTEFLVQLDGATTSSE 219
>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic;
photosynthesis, rubisco activase, AAA+ protein; 2.95A
{Nicotiana tabacum} PDB: 3zw6_A
Length = 293
Score = 101 bits (254), Expect = 2e-24
Identities = 20/79 (25%), Positives = 38/79 (48%), Gaps = 11/79 (13%)
Query: 446 IVDKYIGESARLIREMFNYA----RDHQPCIIFMDEIDAIGGRR--FSEGTSADREIQRT 499
+ GE A+LIR+ + A R C +F++++DA GR ++ T ++ + T
Sbjct: 72 LESGNAGEPAKLIRQRYREAAEIIRKGNMCCLFINDLDAGAGRMGGTTQYTVNNQMVNAT 131
Query: 500 LMELLN-----QMDGFDSL 513
LM + + Q+ G +
Sbjct: 132 LMNIADNPTNVQLPGMYNK 150
Score = 93.3 bits (232), Expect = 2e-21
Identities = 10/66 (15%), Positives = 24/66 (36%), Gaps = 2/66 (3%)
Query: 96 IGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDAN 155
+ G + +++ N + I P ++G G GK+ V ++ N
Sbjct: 6 LDGFYIAPAFMDKLVVHITKN--FLKLPNIKVPLILGIWGGKGQGKSFQCELVFRKMGIN 63
Query: 156 FLKVVS 161
+ + +
Sbjct: 64 PIMMSA 69
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo
sapiens}
Length = 389
Score = 103 bits (258), Expect = 3e-24
Identities = 35/157 (22%), Positives = 65/157 (41%), Gaps = 4/157 (2%)
Query: 8 EVRHKTLQDYRKKLTEHAEVEGRLRETTNGPRYVVGCRRQLDKAKLKSGTRVALDMTTLT 67
+ L+ + V+ + R + + TR D+
Sbjct: 32 GLSGHHRAPSYSGLSMVSGVKQGSGPAPTTHKGTPKTNRTNKPSTPTTATRKKKDLKNF- 90
Query: 68 IMRYLPREVDPLVYNMSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITP 127
+ ++ + + + I G + L+E++ LP L PELF + P
Sbjct: 91 -RNVDSNLANLIMNEIVDNGT-AVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLR-AP 147
Query: 128 PKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSRTI 164
+G LL+GPPG GKT+LA+AVA++ +A F + + ++
Sbjct: 148 ARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASL 184
Score = 82.6 bits (204), Expect = 3e-17
Identities = 28/77 (36%), Positives = 41/77 (53%), Gaps = 3/77 (3%)
Query: 439 FAILIHAIVDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQR 498
F I ++ KY+GE +L+R +F AR+ QP IIF+D++D++ R A R R
Sbjct: 177 FNISAASLTSKYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASR---R 233
Query: 499 TLMELLNQMDGFDSLGQ 515
E L + DG S G
Sbjct: 234 LKTEFLIEFDGVQSAGD 250
>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 = 101 bits (253), Expect = 8e-24
Identities = 31/79 (39%), Positives = 46/79 (58%), Gaps = 2/79 (2%)
Query: 86 EDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLA 145
E P ++ + + GL L+E + LP+ P LF+ P G LLYGPPGTGK+ LA
Sbjct: 11 EKP-NVKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLA 68
Query: 146 RAVASQLDANFLKVVSRTI 164
+AVA++ ++ F V S +
Sbjct: 69 KAVATEANSTFFSVSSSDL 87
Score = 82.4 bits (204), Expect = 2e-17
Identities = 28/74 (37%), Positives = 48/74 (64%), Gaps = 3/74 (4%)
Query: 439 FAILIHAIVDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQR 498
F++ +V K++GES +L++++F AR+++P IIF+D++DA+ G R + A R R
Sbjct: 80 FSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASR---R 136
Query: 499 TLMELLNQMDGFDS 512
ELL QM+G +
Sbjct: 137 IKTELLVQMNGVGN 150
>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo
sapiens}
Length = 322
Score = 95.9 bits (239), Expect = 5e-22
Identities = 31/80 (38%), Positives = 48/80 (60%), Gaps = 3/80 (3%)
Query: 86 EDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLA 145
E P ++ +S + GL L+E + LP+ P LF TP +G LL+GPPGTGK+ LA
Sbjct: 5 ERP-NVKWSDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLA 62
Query: 146 RAVASQLD-ANFLKVVSRTI 164
+AVA++ + + F + S +
Sbjct: 63 KAVATEANNSTFFSISSSDL 82
Score = 82.8 bits (205), Expect = 1e-17
Identities = 29/74 (39%), Positives = 44/74 (59%), Gaps = 3/74 (4%)
Query: 439 FAILIHAIVDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQR 498
F+I +V K++GES +L++ +F AR+++P IIF+DEID++ G R + A R R
Sbjct: 75 FSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAAR---R 131
Query: 499 TLMELLNQMDGFDS 512
E L QM G
Sbjct: 132 IKTEFLVQMQGVGV 145
>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 = 87.6 bits (217), Expect = 6e-19
Identities = 31/79 (39%), Positives = 46/79 (58%), Gaps = 2/79 (2%)
Query: 86 EDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLA 145
E P ++ + + GL L+E + LP+ P LF+ P G LLYGPPGTGK+ LA
Sbjct: 44 EKP-NVKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLA 101
Query: 146 RAVASQLDANFLKVVSRTI 164
+AVA++ ++ F V S +
Sbjct: 102 KAVATEANSTFFSVSSSDL 120
Score = 82.6 bits (204), Expect = 2e-17
Identities = 28/74 (37%), Positives = 48/74 (64%), Gaps = 3/74 (4%)
Query: 439 FAILIHAIVDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQR 498
F++ +V K++GES +L++++F AR+++P IIF+D++DA+ G R + A R R
Sbjct: 113 FSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASR---R 169
Query: 499 TLMELLNQMDGFDS 512
ELL QM+G +
Sbjct: 170 IKTELLVQMNGVGN 183
>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 = 85.8 bits (212), Expect = 4e-18
Identities = 31/80 (38%), Positives = 48/80 (60%), Gaps = 3/80 (3%)
Query: 86 EDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLA 145
E P ++ +S + GL L+E + LP+ P LF TP +G LL+GPPGTGK+ LA
Sbjct: 127 ERP-NVKWSDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLA 184
Query: 146 RAVASQLD-ANFLKVVSRTI 164
+AVA++ + + F + S +
Sbjct: 185 KAVATEANNSTFFSISSSDL 204
Score = 82.7 bits (204), Expect = 4e-17
Identities = 29/74 (39%), Positives = 44/74 (59%), Gaps = 3/74 (4%)
Query: 439 FAILIHAIVDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQR 498
F+I +V K++GES +L++ +F AR+++P IIF+DEID++ G R + A R R
Sbjct: 197 FSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAAR---R 253
Query: 499 TLMELLNQMDGFDS 512
E L QM G
Sbjct: 254 IKTEFLVQMQGVGV 267
>2wg5_A General control protein GCN4, proteasome-activating nucleotidase;
transcription hydrolase complex, nucleotide-binding;
2.10A {Saccharomyces cerevisiae} PDB: 2wg6_A
Length = 109
Score = 78.4 bits (193), Expect = 8e-18
Identities = 24/88 (27%), Positives = 45/88 (51%), Gaps = 10/88 (11%)
Query: 10 RHKTLQDYRKKLTEHAEVEGRLRE----------TTNGPRYVVGCRRQLDKAKLKSGTRV 59
++ L++ +L + G + + ++ GP++VV + +++ +LK G RV
Sbjct: 22 KNYHLENEVARLRSPPLLVGVVSDILEDGRVVVKSSTGPKFVVNTSQYINEEELKPGARV 81
Query: 60 ALDMTTLTIMRYLPREVDPLVYNMSHED 87
AL+ TL I+ LP DP+VY E+
Sbjct: 82 ALNQQTLAIVNVLPTSKDPMVYGFEVEE 109
>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 = 81.6 bits (202), Expect = 1e-17
Identities = 30/67 (44%), Positives = 38/67 (56%), Gaps = 1/67 (1%)
Query: 83 MSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKT 142
+ +T+ + G E EL+E++E L NP F +G PKG LL GPPG GKT
Sbjct: 5 SVLTEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKT 63
Query: 143 LLARAVA 149
LARAVA
Sbjct: 64 HLARAVA 70
Score = 66.2 bits (162), Expect = 2e-12
Identities = 28/66 (42%), Positives = 45/66 (68%)
Query: 447 VDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQ 506
V+ ++G A +R++F A+ H PCI+F+DEIDA+G +R S + E ++TL +LL +
Sbjct: 86 VEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVE 145
Query: 507 MDGFDS 512
MDGF+
Sbjct: 146 MDGFEK 151
>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A
{Escherichia coli} SCOP: c.37.1.20
Length = 257
Score = 81.2 bits (201), Expect = 2e-17
Identities = 32/74 (43%), Positives = 44/74 (59%), Gaps = 1/74 (1%)
Query: 83 MSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKT 142
M ED T++ + G E E+ E++E L P FQ++G PKG L+ GPPGTGKT
Sbjct: 1 MLTEDQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKT 59
Query: 143 LLARAVASQLDANF 156
LLA+A+A + F
Sbjct: 60 LLAKAIAGEAKVPF 73
Score = 67.0 bits (164), Expect = 1e-12
Identities = 27/66 (40%), Positives = 43/66 (65%)
Query: 447 VDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQ 506
V+ ++G A +R+MF A+ PCIIF+DEIDA+G +R + E ++TL ++L +
Sbjct: 82 VEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVE 141
Query: 507 MDGFDS 512
MDGF+
Sbjct: 142 MDGFEG 147
>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 = 80.8 bits (200), Expect = 3e-17
Identities = 27/64 (42%), Positives = 39/64 (60%), Gaps = 1/64 (1%)
Query: 86 EDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLA 145
+ ++ + + G E E+ E+++ L PE + +G PKG LL GPPGTGKTLLA
Sbjct: 3 AEKPNVRFKDMAGNEEAKEEVVEIVDF-LKYPERYANLGAKIPKGVLLVGPPGTGKTLLA 61
Query: 146 RAVA 149
+AVA
Sbjct: 62 KAVA 65
Score = 69.6 bits (171), Expect = 2e-13
Identities = 29/69 (42%), Positives = 44/69 (63%), Gaps = 5/69 (7%)
Query: 447 VDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSA---DREIQRTLMEL 503
++ ++G A +R++F A+ P IIF+DEIDAIG R + G + +RE +TL +L
Sbjct: 81 IEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDERE--QTLNQL 138
Query: 504 LNQMDGFDS 512
L +MDGF S
Sbjct: 139 LAEMDGFGS 147
>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
3.20A {Thermus thermophilus} SCOP: c.37.1.20
Length = 278
Score = 79.7 bits (197), Expect = 9e-17
Identities = 30/65 (46%), Positives = 38/65 (58%), Gaps = 1/65 (1%)
Query: 85 HEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLL 144
+ +T+ + G E EL+E++E L NP F +G PKG LL GPPG GKT L
Sbjct: 31 LTEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHL 89
Query: 145 ARAVA 149
ARAVA
Sbjct: 90 ARAVA 94
Score = 66.2 bits (162), Expect = 3e-12
Identities = 28/66 (42%), Positives = 45/66 (68%)
Query: 447 VDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQ 506
V+ ++G A +R++F A+ H PCI+F+DEIDA+G +R S + E ++TL +LL +
Sbjct: 110 VEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVE 169
Query: 507 MDGFDS 512
MDGF+
Sbjct: 170 MDGFEK 175
>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 = 81.1 bits (201), Expect = 1e-16
Identities = 35/67 (52%), Positives = 42/67 (62%), Gaps = 1/67 (1%)
Query: 83 MSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKT 142
+T+ +GG E I EL+EV+E L +P F R+G PKG LL GPPGTGKT
Sbjct: 5 YKPSGNKRVTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGKT 63
Query: 143 LLARAVA 149
LLARAVA
Sbjct: 64 LLARAVA 70
Score = 61.0 bits (149), Expect = 4e-10
Identities = 32/68 (47%), Positives = 46/68 (67%), Gaps = 4/68 (5%)
Query: 447 VDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFS-EGTSAD-REIQRTLMELL 504
V+ ++G A +R++F A+ H PCI+F+DEIDA+G R + G D RE +TL +LL
Sbjct: 86 VELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDERE--QTLNQLL 143
Query: 505 NQMDGFDS 512
+MDGFDS
Sbjct: 144 VEMDGFDS 151
>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET:
ADP; 3.90A {Thermus thermophilus}
Length = 499
Score = 81.1 bits (201), Expect = 2e-16
Identities = 30/65 (46%), Positives = 38/65 (58%), Gaps = 1/65 (1%)
Query: 85 HEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLL 144
+ +T+ + G E EL+E++E L NP F +G PKG LL GPPG GKT L
Sbjct: 22 LTEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHL 80
Query: 145 ARAVA 149
ARAVA
Sbjct: 81 ARAVA 85
Score = 61.1 bits (149), Expect = 4e-10
Identities = 31/68 (45%), Positives = 46/68 (67%), Gaps = 4/68 (5%)
Query: 447 VDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFS-EGTSAD-REIQRTLMELL 504
V+ ++G A +R++F A+ H PCI+F+DEIDA+G +R S G D RE +TL +LL
Sbjct: 101 VEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDERE--QTLNQLL 158
Query: 505 NQMDGFDS 512
+MDGF+
Sbjct: 159 VEMDGFEK 166
>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 = 75.0 bits (185), Expect = 2e-15
Identities = 30/69 (43%), Positives = 45/69 (65%), Gaps = 1/69 (1%)
Query: 91 ITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVAS 150
+++ + G+ E E+RE ++ L +PE F ++G PKG LL GPPG GKTLLA+AVA+
Sbjct: 3 VSFKDVAGMHEAKLEVREFVDY-LKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVAT 61
Query: 151 QLDANFLKV 159
+ FL +
Sbjct: 62 EAQVPFLAM 70
Score = 68.8 bits (169), Expect = 3e-13
Identities = 25/67 (37%), Positives = 41/67 (61%), Gaps = 1/67 (1%)
Query: 447 VDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRR-FSEGTSADREIQRTLMELLN 505
V+ G A +R +F AR PCI+++DEIDA+G +R + ++ E ++TL +LL
Sbjct: 76 VEVIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLV 135
Query: 506 QMDGFDS 512
+MDG +
Sbjct: 136 EMDGMGT 142
>3h43_A Proteasome-activating nucleotidase; regulatory particle,
nucleosidase, ATP-binding, cytoplasm,
nucleotide-binding, hydrolase; 2.10A
{Methanocaldococcus jannaschii}
Length = 85
Score = 68.7 bits (168), Expect = 8e-15
Identities = 13/49 (26%), Positives = 24/49 (48%)
Query: 34 TTNGPRYVVGCRRQLDKAKLKSGTRVALDMTTLTIMRYLPREVDPLVYN 82
++ GP ++V ++ L G RV L+ TLT++ LP ++
Sbjct: 37 SSTGPSFLVNVSHFVNPDDLAPGKRVCLNQQTLTVVDVLPELEHHHHHH 85
>3m9b_A Proteasome-associated ATPase; coil COIL with 5 beta-strand barrel
inter domain, chaperone; 3.94A {Mycobacterium
tuberculosis} PDB: 3m9d_A
Length = 251
Score = 72.1 bits (176), Expect = 2e-14
Identities = 18/108 (16%), Positives = 33/108 (30%)
Query: 28 EGRLRETTNGPRYVVGCRRQLDKAKLKSGTRVALDMTTLTIMRYLPREVDPLVYNMSHED 87
+ + T+G + + C +D A LK G V L+ + V +
Sbjct: 110 DDTVDVFTSGRKMRLTCSPNIDAASLKKGQTVRLNEALTVVEAGTFEAVGEISTLREILA 169
Query: 88 PGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYG 135
G E++ L + + L L + + L G
Sbjct: 170 DGHRALVVGHADEERVVWLADPLIAEDLPDGLPEALNDDTRPRKLRPG 217
>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 = 66.0 bits (160), Expect = 2e-11
Identities = 91/638 (14%), Positives = 170/638 (26%), Gaps = 219/638 (34%)
Query: 4 PVVDEVRHKTLQDYRKKLTEHAEVEGRLRETT--NGPRYVVGCRR--------------- 46
VD K +QD K + E++ + +G +
Sbjct: 28 AFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVL 87
Query: 47 QLDKAKLKSGTRVALDMTTLTIMRYLPREVDPLVYNMSHE-DPGDITYSAIGGLSEQIRE 105
+++ L S + ++ Y+ + D L YN + +++ + +
Sbjct: 88 RINYKFLMSPIKTEQRQPSMMTRMYI-EQRDRL-YNDNQVFAKYNVSRL------QPYLK 139
Query: 106 LREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVAS----QLDANF----L 157
LR+ LL + P K L+ G G+GKT +A V Q +F L
Sbjct: 140 LRQA----LLE--------LRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWL 187
Query: 158 KV--VSRTIAIVLIFAVIFLHM-PNLCDSHGHSHHSHEHSHDHGKLPSFKYSKQANEPYH 214
+ + ++ + + + PN HS + H + + ++PY
Sbjct: 188 NLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHS---IQAELRRLLKSKPYE 244
Query: 215 Q------DVKHPITLQVWGEA-------LLSTILISLAPFL---ILFVVPLDTATGNENF 258
+V++ + W A LL+T + FL + L ++
Sbjct: 245 NCLLVLLNVQNA---KAW-NAFNLSCKILLTTRFKQVTDFLSAATTTHISL------DHH 294
Query: 259 LKVLLSFGSGGLLGDAFLHL----IPHA-----------IGASKEHSHSHS----HGGSH 299
L LL +L +P I S + H
Sbjct: 295 SMTLTPDEVKSLLLK-YLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCD 353
Query: 300 EHSHSIADLSV---------GLWVLFGIL--------AFLC--------------VEKFV 328
+ + I + S+ ++ + L V K
Sbjct: 354 KLTTII-ESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLH 412
Query: 329 RY--VKGG--------HGHS-------------HGKPIEKKKHTSSGEDSDLSDDEDDSD 365
+Y V+ H ++ + + DL D
Sbjct: 413 KYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLD-- 470
Query: 366 DVDY---------KKTKR----------------VKAKTSSQSNDDIAVAGYLNLAADFT 400
Y K + ++ K S A LN
Sbjct: 471 --QYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLK 528
Query: 401 HNFTDGLAIGASYLAGKHVGIVTTITILFHEIPHEIGDFAILIHAIVDKYIGESARLIRE 460
Y + + + + + I DF L + + L+R
Sbjct: 529 -----------FY--KPY---ICDNDPKYERLVNAILDF--LPKIEENLICSKYTDLLR- 569
Query: 461 MFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQR 498
I M E +AI F E A +++QR
Sbjct: 570 -----------IALMAEDEAI----FEE---AHKQVQR 589
>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 = 55.1 bits (132), Expect = 5e-08
Identities = 67/448 (14%), Positives = 129/448 (28%), Gaps = 158/448 (35%)
Query: 93 YSAIGGLSEQ------IRELREVIEL--PLLNP------ELFQRVGITPPKGCLLYGPPG 138
+ GG Q ELR++ + L+ E + T ++
Sbjct: 157 VAIFGG---QGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFT--- 210
Query: 139 TGKTLLA--RAVASQLDANFLKVVSRTIAIVLIFAVIFLHMPNLCDSHGHSHHSHEHSHD 196
G +L ++ D ++L +S I+ LI + H G +
Sbjct: 211 QGLNILEWLENPSNTPDKDYL--LSIPISCPLIGVIQLAHYVVTAKLLGFT--------- 259
Query: 197 HGKLPSFKYSKQANEPYHQDVKHPITLQVWGEALLSTILISLAPFLILFVVPLDTATGNE 256
G+L + + L++ + I+ D+ E
Sbjct: 260 PGEL----------------RSYLKGATGHSQGLVTAVAIAET----------DSW---E 290
Query: 257 NF-------LKVLLSFGSGGLLGDAF--LHLIPHAIGASKEHSHSH-SH-----GGSHEH 301
+F + VL G +A+ L P + S E++ S + E
Sbjct: 291 SFFVSVRKAITVLFFIGVRCY--EAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQ 348
Query: 302 SHSIAD-----------LSVGL------WVLFG---ILAFLCVEKFVRYVKGGHGHSHGK 341
+ + + L V+ G L L + +R K G +
Sbjct: 349 VQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLT--LRKAKAPSGLDQSR 406
Query: 342 -PIEKKK--------------HTSSGEDS-DLSDDEDDSDDVDYKKTKRVKAKTSSQSND 385
P ++K H+ + DL + + ++V +
Sbjct: 407 IPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNA-------------K 453
Query: 386 DIAVAGYLNLAADFTHNFTDG--LAIGASYLAGKHVGIVTTITI-----LFHEIPHEIGD 438
DI + Y + DG L + + ++ + V + + + + H I D
Sbjct: 454 DIQIPVY---------DTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATH-ILD 503
Query: 439 F--------AILIHAIVDKYIGESARLI 458
F +L H D G R+I
Sbjct: 504 FGPGGASGLGVLTHRNKD---GTGVRVI 528
Score = 54.3 bits (130), Expect = 9e-08
Identities = 46/303 (15%), Positives = 93/303 (30%), Gaps = 103/303 (33%)
Query: 29 GRLRETTNGPRYVVGCRRQLDKAKL--KSGTRVALDMTTLTIMRYL-----------PR- 74
G LR G G + L A ++ + + ++ + L P
Sbjct: 261 GELRSYLKG---ATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNT 317
Query: 75 EVDPLVYNMSHEDPGDITYS---AIGGLS-----EQIRELR------EVIELPLLN-PEL 119
+ P + S + + S +I L+ + + + + +E+ L+N +
Sbjct: 318 SLPPSILEDS-LENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKN 376
Query: 120 FQRVGIT-PPKGCLLYG----------PPGTGKTLLARAVASQLDANFLKVVSRTIAIVL 168
V ++ PP+ LYG P G ++ R S+ R +
Sbjct: 377 L--V-VSGPPQS--LYGLNLTLRKAKAPSGLDQS---RIPFSE----------RKLKFSN 418
Query: 169 IFAVIFLHMPNLCDSHGHSHHSHEHSHDHGKLPSFKYSKQANEPYHQDVKHPITLQVWGE 228
F + P HSH A++ ++D+ + +
Sbjct: 419 RFLPVAS--P-------------FHSH---------LLVPASDLINKDLV-KNNVSFNAK 453
Query: 229 AL------------LSTILISLAPFLI--LFVVPLD-TATGNENFLKVLLSFGSGGLLGD 273
+ L + S++ ++ + +P+ T +L FG GG G
Sbjct: 454 DIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILD-FGPGGASGL 512
Query: 274 AFL 276
L
Sbjct: 513 GVL 515
Score = 30.8 bits (69), Expect = 1.6
Identities = 23/158 (14%), Positives = 44/158 (27%), Gaps = 52/158 (32%)
Query: 45 RRQLDKAKLKSGTRVALDMTTLTIMRYLPREVDPLVYNMSHEDPGDITYSAIGGLSEQIR 104
+ ++A + + L I+ +P ++T G ++IR
Sbjct: 1643 QDVWNRADNH--FKDTYGFSILDIVI---------------NNPVNLTIHFGGEKGKRIR 1685
Query: 105 EL------REVIELPLLNPELFQRVGITPPKGCLLYGPPG----TGKT-----LLARAVA 149
E +++ L ++F+ + G T T L+ +A
Sbjct: 1686 ENYSAMIFETIVDGKLKTEKIFKEINEHSTS-YTFRSEKGLLSATQFTQPALTLMEKAAF 1744
Query: 150 SQLDANFLKVVSRTIAIVLIFAVIFLHMPNLCDSHGHS 187
L + L T A GHS
Sbjct: 1745 EDLKSKGLIPADATFA-------------------GHS 1763
Score = 28.5 bits (63), Expect = 6.5
Identities = 29/186 (15%), Positives = 48/186 (25%), Gaps = 80/186 (43%)
Query: 294 SHGGSHEHSHSIADLSVGLWVLFGILAFLCVEKFVRYVKGGHGHSHGKPIEKKKHTSSGE 353
SHG S EH + + + L E+F +P E
Sbjct: 12 SHG-SLEHVLLV---PTASFFIASQLQ----EQFN--------KILPEPTE--------- 46
Query: 354 DSDLSDDEDDSDDVDYKKTKRVKAKTSSQSNDDIAVAGYLNLAADFTHNFTDGLAIGASY 413
+ D++ + + L F + L +
Sbjct: 47 --GFAADDEPTTPAE--------------------------LVGKFLG-YVSSLVEPSK- 76
Query: 414 LAGKHVGIVTTITILFHEIPHEIGDFAIL----IHAIVDKYIGES-------ARLIREMF 462
G+ ++ F L IHA+ K + E+ LI+
Sbjct: 77 -VGQFDQVLNLCLTEFEN--------CYLEGNDIHALAAKLLQENDTTLVKTKELIK--- 124
Query: 463 NY--AR 466
NY AR
Sbjct: 125 NYITAR 130
>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 = 49.5 bits (118), Expect = 2e-06
Identities = 18/83 (21%), Positives = 34/83 (40%), Gaps = 7/83 (8%)
Query: 92 TYSAIGGLSEQIRELREVIE----LPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARA 147
+ G + +L+ + + + + G + +LYGPPG GKT A
Sbjct: 37 NLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHL 96
Query: 148 VASQLDANFLKV---VSRTIAIV 167
VA +L + L+ R+ ++
Sbjct: 97 VAQELGYDILEQNASDVRSKTLL 119
Score = 29.9 bits (67), Expect = 2.6
Identities = 8/68 (11%), Positives = 21/68 (30%), Gaps = 15/68 (22%)
Query: 446 IVDKYIGESAR-------LIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQR 498
+++ + + + + +I MDE+D + + DR
Sbjct: 118 LLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGM--------SGGDRGGVG 169
Query: 499 TLMELLNQ 506
L + +
Sbjct: 170 QLAQFCRK 177
>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein,
calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides}
PDB: 3syk_A 3zuh_A*
Length = 309
Score = 47.8 bits (113), Expect = 4e-06
Identities = 19/58 (32%), Positives = 25/58 (43%), Gaps = 4/58 (6%)
Query: 98 GLSEQIRELREVIELPLLNPELFQRVGITPPKG---CLLYGPPGTGKTLLARAVASQL 152
GL +RE L LL Q++G+ G PGTGKT +A +A L
Sbjct: 35 GLKPVKDRIRETAAL-LLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLL 91
>3pvs_A Replication-associated recombination protein A; maintenance of
genome stability Pro recombination; 2.50A {Escherichia
coli}
Length = 447
Score = 46.8 bits (112), Expect = 1e-05
Identities = 13/28 (46%), Positives = 20/28 (71%)
Query: 132 LLYGPPGTGKTLLARAVASQLDANFLKV 159
+L+GPPGTGKT LA +A +A+ ++
Sbjct: 54 ILWGPPGTGKTTLAEVIARYANADVERI 81
>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 = 44.4 bits (104), Expect = 6e-05
Identities = 15/123 (12%), Positives = 35/123 (28%), Gaps = 20/123 (16%)
Query: 101 EQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 160
+ +R+ I + E L G GTGKT +++ + ++ ++ V
Sbjct: 27 DILRDAAIAIR-YFVKNE--------VKFSNLFLGLTGTGKTFVSKYIFNE-----IEEV 72
Query: 161 SRTIAIVLIFAVIFLHMPNLCDSHG------HSHHSHEHSHDHGKLPSFKYSKQANEPYH 214
+ +++ + + + HG K N +
Sbjct: 73 KKEDEEYKDVKQAYVNCREVGGTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRN 132
Query: 215 QDV 217
Sbjct: 133 IRA 135
>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 = 44.4 bits (104), Expect = 6e-05
Identities = 19/99 (19%), Positives = 30/99 (30%), Gaps = 13/99 (13%)
Query: 101 EQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQL--DANFLK 158
+Q+++L ++ + G P L G PGTGKT+ R +
Sbjct: 24 QQLQQLDILLG------NWLRNPGHHYP-RATLLGRPGTGKTVTLRKLWELYKDKTTARF 76
Query: 159 VVSRTIAIVLIFAVIFLHMPNLCDSHGHSHHSHEHSHDH 197
V A+I + S S D
Sbjct: 77 VYINGFIYRNFTAII----GEIARSLNIPFPRRGLSRDE 111
>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 = 3e-04
Identities = 17/58 (29%), Positives = 24/58 (41%), Gaps = 8/58 (13%)
Query: 98 GLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDAN 155
G ++E + + LL GPPGTGKT LA A+A +L +
Sbjct: 41 GQENAREACGVIVE--------LIKSKKMAGRAVLLAGPPGTGKTALALAIAQELGSK 90
>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold,
hydro; HET: ADP; 2.91A {Escherichia coli}
Length = 500
Score = 42.4 bits (100), Expect = 3e-04
Identities = 10/30 (33%), Positives = 15/30 (50%), Gaps = 1/30 (3%)
Query: 131 CLLYGPPGTGKTLLARAVASQL-DANFLKV 159
L GPPG K+L+AR + +A +
Sbjct: 44 VFLLGPPGIAKSLIARRLKFAFQNARAFEY 73
>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 = 42.4 bits (99), Expect = 3e-04
Identities = 20/103 (19%), Positives = 35/103 (33%), Gaps = 18/103 (17%)
Query: 101 EQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 160
+QIR++ ++ + P +YG GTGKT + + V S+L FL
Sbjct: 27 DQIRKIASILAPLYREEK---------PNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKF 77
Query: 161 SRTIAI--------VLIFAVIFLHMPNLCDSHGHSHHSHEHSH 195
+ + I + A + + G S
Sbjct: 78 -KHVYINTRQIDTPYRVLADLLESLDVKVPFTGLSIAELYRRL 119
>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 = 41.1 bits (97), Expect = 4e-04
Identities = 13/21 (61%), Positives = 14/21 (66%)
Query: 132 LLYGPPGTGKTLLARAVASQL 152
L GPPGTGKT A A+A L
Sbjct: 42 LFSGPPGTGKTATAIALARDL 62
>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 = 40.3 bits (94), Expect = 5e-04
Identities = 13/34 (38%), Positives = 20/34 (58%)
Query: 124 GITPPKGCLLYGPPGTGKTLLARAVASQLDANFL 157
G+ P ++ G P TGKT L++A+A+ L L
Sbjct: 1 GMQTPALIIVTGHPATGKTTLSQALATGLRLPLL 34
>2qgz_A Helicase loader, putative primosome component; structural genomics,
PSI-2, protein structure initiative; 2.40A
{Streptococcus pyogenes serotype M3}
Length = 308
Score = 41.0 bits (96), Expect = 5e-04
Identities = 14/63 (22%), Positives = 23/63 (36%), Gaps = 12/63 (19%)
Query: 118 ELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSRTIAIVLIFAVIFLHM 177
+ ++ KG LYG G GK+ L A+A ++ + LH
Sbjct: 142 DFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMA------------HELSEKKGVSTTLLHF 189
Query: 178 PNL 180
P+
Sbjct: 190 PSF 192
>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 = 40.8 bits (96), Expect = 7e-04
Identities = 13/21 (61%), Positives = 14/21 (66%)
Query: 132 LLYGPPGTGKTLLARAVASQL 152
L GPPGTGKT A A+A L
Sbjct: 42 LFSGPPGTGKTATAIALARDL 62
>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable
holliday junction DNA helicase; HET: ADP; 2.69A
{Campylobacter jejuni subsp}
Length = 338
Score = 40.6 bits (96), Expect = 8e-04
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 131 CLLYGPPGTGKTLLARAVASQLDANF 156
L GP G GKT LA ++ ++ AN
Sbjct: 58 ILFSGPAGLGKTTLANIISYEMSANI 83
>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 = 40.6 bits (96), Expect = 9e-04
Identities = 14/26 (53%), Positives = 17/26 (65%)
Query: 131 CLLYGPPGTGKTLLARAVASQLDANF 156
LL+GPPG GKT LA +A +L N
Sbjct: 41 LLLFGPPGLGKTTLAHVIAHELGVNL 66
>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 = 40.6 bits (96), Expect = 0.001
Identities = 15/26 (57%), Positives = 17/26 (65%)
Query: 131 CLLYGPPGTGKTLLARAVASQLDANF 156
LL GPPG GKT LA +AS+L N
Sbjct: 54 VLLAGPPGLGKTTLAHIIASELQTNI 79
>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 = 40.4 bits (95), Expect = 0.001
Identities = 12/21 (57%), Positives = 14/21 (66%)
Query: 132 LLYGPPGTGKTLLARAVASQL 152
L GPPG GKT A A+A +L
Sbjct: 50 LFAGPPGVGKTTAALALAREL 70
>2w58_A DNAI, primosome component (helicase loader); ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.50A
{Geobacillus kaustophilus HTA426}
Length = 202
Score = 39.3 bits (92), Expect = 0.001
Identities = 14/56 (25%), Positives = 23/56 (41%), Gaps = 13/56 (23%)
Query: 125 ITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSRTIAIVLIFAVIFLHMPNL 180
KG L+G G GKT L A+A++L + + +++P L
Sbjct: 51 GKKMKGLYLHGSFGVGKTYLLAAIANELAKRN-------------VSSLIVYVPEL 93
>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 = 39.1 bits (92), Expect = 0.002
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 131 CLLYGPPGTGKTLLARAVASQLDANF 156
LL G PG KTL +A +D +F
Sbjct: 49 ILLEGVPGLAKTLSVNTLAKTMDLDF 74
>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 = 0.003
Identities = 13/54 (24%), Positives = 15/54 (27%), Gaps = 12/54 (22%)
Query: 127 PPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSRTIAIVLIFAVIFLHMPNL 180
KG G PG GKT LA A + F +L
Sbjct: 37 EGKGLTFVGSPGVGKTHLAVATLKAIYEKKGI------------RGYFFDTKDL 78
>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 = 38.2 bits (89), Expect = 0.005
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 130 GCLLYGPPGTGKTLLARAVASQL 152
G L++G GTGK+ RA+A+ L
Sbjct: 47 GVLVFGDRGTGKSTAVRALAALL 69
>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 = 37.6 bits (86), Expect = 0.008
Identities = 9/69 (13%), Positives = 19/69 (27%), Gaps = 9/69 (13%)
Query: 101 EQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 160
E + I L++ + K + + K L V +L + +
Sbjct: 27 EDFTRIFLPIYDSLMSSQ---------NKLFYITNADDSTKFQLVNDVMDELITSSARKE 77
Query: 161 SRTIAIVLI 169
+ I
Sbjct: 78 LPIFDYIHI 86
>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural
genomics, center for structural genomics; 2.80A
{Escherichia coli}
Length = 145
Score = 36.0 bits (84), Expect = 0.009
Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 11/51 (21%)
Query: 98 GLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAV 148
G SE I + R + Q++ T LYG PGTG+ AR +
Sbjct: 5 GRSEWINQYRRRL----------QQLSETDIA-VWLYGAPGTGRMTGARYL 44
>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 = 36.6 bits (84), Expect = 0.016
Identities = 13/35 (37%), Positives = 15/35 (42%), Gaps = 1/35 (2%)
Query: 126 TPPKGCLL-YGPPGTGKTLLARAVASQLDANFLKV 159
P K L GP +GKT LA A+ L V
Sbjct: 166 IPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNV 200
>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 = 36.3 bits (85), Expect = 0.023
Identities = 13/27 (48%), Positives = 19/27 (70%)
Query: 133 LYGPPGTGKTLLARAVASQLDANFLKV 159
L GPPG GKT LA+++A L F+++
Sbjct: 113 LAGPPGVGKTSLAKSIAKSLGRKFVRI 139
>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 = 35.1 bits (80), Expect = 0.026
Identities = 8/33 (24%), Positives = 15/33 (45%)
Query: 132 LLYGPPGTGKTLLARAVASQLDANFLKVVSRTI 164
+L G GK+ + R + S L +L ++
Sbjct: 7 ILNGGSSAGKSGIVRCLQSVLPEPWLAFGVDSL 39
>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 = 35.7 bits (83), Expect = 0.030
Identities = 13/25 (52%), Positives = 17/25 (68%)
Query: 132 LLYGPPGTGKTLLARAVASQLDANF 156
LL GP G+GKTL+A+ +A LD
Sbjct: 76 LLIGPTGSGKTLMAQTLAKHLDIPI 100
>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 = 35.6 bits (83), Expect = 0.034
Identities = 15/25 (60%), Positives = 17/25 (68%)
Query: 132 LLYGPPGTGKTLLARAVASQLDANF 156
LL GP G+GKTLLA +A LD F
Sbjct: 55 LLIGPTGSGKTLLAETLARLLDVPF 79
>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 = 35.3 bits (81), Expect = 0.043
Identities = 13/39 (33%), Positives = 19/39 (48%), Gaps = 1/39 (2%)
Query: 126 TPPKGCL-LYGPPGTGKTLLARAVASQLDANFLKVVSRT 163
P K CL GPP TGK++L ++ L + L +
Sbjct: 123 IPKKNCLAFIGPPNTGKSMLCNSLIHFLGGSVLSFANHK 161
>2v1u_A Cell division control protein 6 homolog; DNA replication,
nucleotide-binding, replication, archaea; HET: ADP;
3.10A {Aeropyrum pernix}
Length = 387
Score = 35.2 bits (80), Expect = 0.045
Identities = 21/52 (40%), Positives = 26/52 (50%), Gaps = 9/52 (17%)
Query: 101 EQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQL 152
++R L EV+ P L E P LLYG GTGKT +AR V +L
Sbjct: 26 AELRRLAEVLA-PALRGE--------KPSNALLYGLTGTGKTAVARLVLRRL 68
>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 = 34.2 bits (78), Expect = 0.046
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 132 LLYGPPGTGKTLLARAVASQLDANFLKV 159
LL G PG GKT L + +AS+ ++ V
Sbjct: 15 LLTGTPGVGKTTLGKELASKSGLKYINV 42
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 35.1 bits (81), Expect = 0.054
Identities = 13/37 (35%), Positives = 20/37 (54%)
Query: 122 RVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLK 158
+ + LL G PGTGK++L +A+A L L+
Sbjct: 54 KTAANQKRHVLLIGEPGTGKSMLGQAMAELLPTETLE 90
>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA
replication initiation, DNA BIND protein, AAA+ ATPase;
HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11
c.37.1.20 PDB: 1w5t_A*
Length = 412
Score = 34.9 bits (79), Expect = 0.061
Identities = 12/55 (21%), Positives = 20/55 (36%), Gaps = 10/55 (18%)
Query: 101 EQIRELREVIELPLLNPELFQRVGITPPKGCLLY---GPPGTGKTLLARAVASQL 152
+ L + LL+ G ++Y G G GKT LA+ ++
Sbjct: 29 GEAEALARIYLNRLLS-------GAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRV 76
>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 = 34.9 bits (81), Expect = 0.067
Identities = 16/57 (28%), Positives = 22/57 (38%), Gaps = 14/57 (24%)
Query: 122 RVGITPPK---GCLLY-GPPGTGKTLLARAVASQLDANFLKV----------VSRTI 164
R G+ G L+ GP G GKT + ++ L L+ VSR I
Sbjct: 478 RAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLI 534
>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure
initiati YORK structural genomics research consortium,
nysgrc; 2.20A {Sinorhizobium meliloti}
Length = 202
Score = 33.5 bits (76), Expect = 0.086
Identities = 8/31 (25%), Positives = 15/31 (48%)
Query: 127 PPKGCLLYGPPGTGKTLLARAVASQLDANFL 157
P ++ G G+GK+ + A+A F+
Sbjct: 17 FPGSIVVMGVSGSGKSSVGEAIAEACGYPFI 47
>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 = 33.5 bits (76), Expect = 0.088
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 132 LLYGPPGTGKTLLARAVASQLD 153
LL G PG+GK+ +A A+A+
Sbjct: 13 LLSGHPGSGKSTIAEALANLPG 34
>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 = 33.6 bits (77), Expect = 0.13
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 132 LLYGPPGTGKTLLARAVASQL 152
L YGPPGTGKT A+A ++
Sbjct: 50 LFYGPPGTGKTSTIVALAREI 70
>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 = 33.9 bits (77), Expect = 0.14
Identities = 8/43 (18%), Positives = 15/43 (34%)
Query: 118 ELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 160
+ + + GP GTG T L + + L + +
Sbjct: 35 NIVMKAIKEKKHHVTINGPAGTGATTLTKFIIEALISTGETGI 77
>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 = 33.5 bits (77), Expect = 0.15
Identities = 7/21 (33%), Positives = 10/21 (47%)
Query: 132 LLYGPPGTGKTLLARAVASQL 152
L+ PG G L A++ L
Sbjct: 28 LIQALPGMGDDALIYALSRYL 48
>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 = 33.3 bits (76), Expect = 0.16
Identities = 19/83 (22%), Positives = 29/83 (34%), Gaps = 29/83 (34%)
Query: 70 RYLPREVDPLVYNMSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPK 129
+Y P+ ++ L +N E L+ + + P P L
Sbjct: 7 KYRPKSLNALSHN-----------------EELTNFLKSLSDQPRDLPHL---------- 39
Query: 130 GCLLYGPPGTGKTLLARAVASQL 152
LLYGP GTGK A+ +
Sbjct: 40 --LLYGPNGTGKKTRCMALLESI 60
>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 = 33.0 bits (75), Expect = 0.17
Identities = 18/97 (18%), Positives = 36/97 (37%), Gaps = 11/97 (11%)
Query: 58 RVALDMTTLTIMRYLPREVDPLVYNMSHEDPGDITYSAIGG-LSEQIRELREVIELPLLN 116
+ ALD + + Y + + DI+ + I L + + +
Sbjct: 41 KAALDN----AGKIMSLTKTAPDYLVGQQPVEDISSNRIYKILELNGYDPQYA--ASVFL 94
Query: 117 PELFQRVGITPPKGCL-LYGPPGTGKTLLARAVASQL 152
++ + + L+GP TGKT +A A+A +
Sbjct: 95 GWATKKF---GKRNTIWLFGPATTGKTNIAEAIAHTV 128
>3co5_A Putative two-component system transcriptional RES regulator;
structural genomics, APC89341.1; 2.40A {Neisseria
gonorrhoeae}
Length = 143
Score = 32.2 bits (74), Expect = 0.18
Identities = 10/51 (19%), Positives = 15/51 (29%), Gaps = 11/51 (21%)
Query: 98 GLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAV 148
G S I+E+ +E L G G+ +AR
Sbjct: 8 GNSAAIQEMNREVE----------AAAKRTSP-VFLTGEAGSPFETVARYF 47
>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 = 32.4 bits (74), Expect = 0.18
Identities = 5/23 (21%), Positives = 11/23 (47%)
Query: 135 GPPGTGKTLLARAVASQLDANFL 157
GP K+ +A ++ +L +
Sbjct: 8 GPDCCFKSTVAAKLSKELKYPII 30
>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 = 33.2 bits (75), Expect = 0.19
Identities = 9/29 (31%), Positives = 15/29 (51%)
Query: 124 GITPPKGCLLYGPPGTGKTLLARAVASQL 152
+ L P G GK++LA +A+Q+
Sbjct: 26 NMVAGTVGALVSPGGAGKSMLALQLAAQI 54
>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 = 32.5 bits (74), Expect = 0.19
Identities = 10/28 (35%), Positives = 14/28 (50%), Gaps = 1/28 (3%)
Query: 126 TPPKGCLL-YGPPGTGKTLLARAVASQL 152
TP K CL+ GP TGK+ + +
Sbjct: 55 TPKKNCLVFCGPANTGKSYFGMSFIHFI 82
>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 = 33.3 bits (76), Expect = 0.21
Identities = 8/25 (32%), Positives = 13/25 (52%)
Query: 129 KGCLLYGPPGTGKTLLARAVASQLD 153
+ +L GPPG+GKT+ +
Sbjct: 1305 RPLILCGPPGSGKTMTLTSTLRAFP 1329
>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 = 33.0 bits (76), Expect = 0.22
Identities = 17/57 (29%), Positives = 26/57 (45%), Gaps = 5/57 (8%)
Query: 453 ESARLIR--EMFNYARDH--QPCIIFMDEIDAIGGRRFSEGTSADRE-IQRTLMELL 504
+ + + A D Q I+F+DEID I + G RE +QR L+ L+
Sbjct: 96 VDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLV 152
Score = 31.1 bits (71), Expect = 0.82
Identities = 16/33 (48%), Positives = 21/33 (63%)
Query: 127 PPKGCLLYGPPGTGKTLLARAVASQLDANFLKV 159
PK L+ GP G GKT +AR +A +A F+KV
Sbjct: 49 TPKNILMIGPTGVGKTEIARRLAKLANAPFIKV 81
>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 = 32.9 bits (75), Expect = 0.22
Identities = 12/21 (57%), Positives = 14/21 (66%)
Query: 132 LLYGPPGTGKTLLARAVASQL 152
L YGPPGTGKT A+ +L
Sbjct: 62 LFYGPPGTGKTSTILALTKEL 82
>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 = 32.9 bits (76), Expect = 0.24
Identities = 16/35 (45%), Positives = 21/35 (60%), Gaps = 4/35 (11%)
Query: 122 RVGITPPK---GCLLY-GPPGTGKTLLARAVASQL 152
R G+ PK G ++ GP G GKT LARA+A +
Sbjct: 511 RAGLKDPKRPIGSFIFLGPTGVGKTELARALAESI 545
>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A
{Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A
1ko5_A* 1ko8_A* 1kof_A*
Length = 175
Score = 31.9 bits (72), Expect = 0.25
Identities = 13/32 (40%), Positives = 17/32 (53%)
Query: 126 TPPKGCLLYGPPGTGKTLLARAVASQLDANFL 157
+L G G+GK+ +A VA QL A FL
Sbjct: 6 HDHHIYVLMGVSGSGKSAVASEVAHQLHAAFL 37
>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 = 32.2 bits (74), Expect = 0.26
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 5/45 (11%)
Query: 133 LYGPPGTGKTLLARAVASQLDANFL----KVVSRT-IAIVLIFAV 172
L G PG+GK+ + R +A L L + RT +I IFA
Sbjct: 7 LVGLPGSGKSTIGRRLAKALGVGLLDTDVAIEQRTGRSIADIFAT 51
>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer,
structural genomics; HET: ADP; 2.00A {Pyrococcus
horikoshii}
Length = 247
Score = 32.4 bits (74), Expect = 0.27
Identities = 11/37 (29%), Positives = 15/37 (40%)
Query: 124 GITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 160
GI LL G PGTGKT+ ++ +
Sbjct: 19 GIPERNVVLLSGGPGTGKTIFSQQFLWNGLKMGEPGI 55
>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp
loader, sliding clamp, primer-TEM DNA, DNA binding
protein-DNA complex; HET: DNA ADP 08T; 3.20A
{Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*
Length = 324
Score = 32.7 bits (75), Expect = 0.28
Identities = 11/27 (40%), Positives = 20/27 (74%), Gaps = 1/27 (3%)
Query: 132 LLYGP-PGTGKTLLARAVASQLDANFL 157
+L+ P PGTGKT +A+A+ ++A+ +
Sbjct: 51 ILHSPSPGTGKTTVAKALCHDVNADMM 77
>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 = 32.0 bits (73), Expect = 0.29
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 135 GPPGTGKTLLARAVASQLDANFLKVV 160
G PG+GK+ L+ +A+ L A L
Sbjct: 29 GAPGSGKSTLSNPLAAALSAQGLPAE 54
>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 = 32.6 bits (74), Expect = 0.29
Identities = 12/37 (32%), Positives = 14/37 (37%)
Query: 124 GITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 160
G L G GTGKTLL AN + +
Sbjct: 277 GFFKDSIILATGATGTGKTLLVSRFVENACANKERAI 313
Score = 32.6 bits (74), Expect = 0.36
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 124 GITPPKGCLLYGPPGTGKTLLA 145
G+ + L+ G GTGKTL +
Sbjct: 35 GLPIGRSTLVSGTSGTGKTLFS 56
>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 = 32.4 bits (74), Expect = 0.29
Identities = 8/21 (38%), Positives = 12/21 (57%)
Query: 132 LLYGPPGTGKTLLARAVASQL 152
++ G PG GKT +A +L
Sbjct: 46 IISGMPGIGKTTSVHCLAHEL 66
>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI,
protein structure initiative; 1.90A {Geobacillus
stearothermophilus} SCOP: c.37.1.6
Length = 201
Score = 31.9 bits (73), Expect = 0.30
Identities = 8/26 (30%), Positives = 12/26 (46%)
Query: 135 GPPGTGKTLLARAVASQLDANFLKVV 160
G +GKT LA ++ L + V
Sbjct: 29 GLSRSGKTTLANQLSQTLREQGISVC 54
>2ehv_A Hypothetical protein PH0186; KAIC, RECA ATPase, unknown function;
HET: ADP; 2.07A {Pyrococcus horikoshii} PDB: 2zts_A*
Length = 251
Score = 32.2 bits (73), Expect = 0.30
Identities = 10/22 (45%), Positives = 10/22 (45%)
Query: 124 GITPPKGCLLYGPPGTGKTLLA 145
G LL G GTGKT A
Sbjct: 26 GFPEGTTVLLTGGTGTGKTTFA 47
>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function
initiative, EFI, STRU genomics, transferase; 1.60A
{Janibacter SP}
Length = 200
Score = 32.0 bits (72), Expect = 0.32
Identities = 10/31 (32%), Positives = 16/31 (51%)
Query: 127 PPKGCLLYGPPGTGKTLLARAVASQLDANFL 157
P + ++ G G+GKT +A VA + F
Sbjct: 28 PTRHVVVMGVSGSGKTTIAHGVADETGLEFA 58
>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 = 0.33
Identities = 13/33 (39%), Positives = 20/33 (60%)
Query: 132 LLYGPPGTGKTLLARAVASQLDANFLKVVSRTI 164
L+ G PGTGKT +A +A++LD V + +
Sbjct: 14 LITGTPGTGKTSMAEMIAAELDGFQHLEVGKLV 46
>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 = 31.4 bits (72), Expect = 0.42
Identities = 11/47 (23%), Positives = 17/47 (36%), Gaps = 9/47 (19%)
Query: 133 LYGPPGTGKTLLARAVASQLDANFL-------KVVSRTIAIVLIFAV 172
+ G G G T + R +A L F+ T+A + A
Sbjct: 7 MVGARGCGMTTVGRELARALGYEFVDTDIFMQHTSGMTVA--DVVAA 51
>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}
Length = 235
Score = 31.5 bits (72), Expect = 0.49
Identities = 10/37 (27%), Positives = 16/37 (43%)
Query: 124 GITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 160
GI L G PGTGKT+ + ++ + +
Sbjct: 19 GIPQGFFIALTGEPGTGKTIFSLHFIAKGLRDGDPCI 55
>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay,
zinc-finger, ATP-binding, metal-BIN UPF2, UPF1,
helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A
2iyk_A
Length = 800
Score = 32.2 bits (73), Expect = 0.52
Identities = 23/124 (18%), Positives = 41/124 (33%), Gaps = 9/124 (7%)
Query: 99 LSEQIRELREVIELPLLNPELFQR---VGITPPKGCLLYGPPGTGKTL----LARAVASQ 151
+ Q+ + LP LN Q + L+ GPPGTGKT+ + +A Q
Sbjct: 341 IKCQLPKRFTAQGLPDLNHS--QVYAVKTVLQRPLSLIQGPPGTGKTVTSATIVYHLARQ 398
Query: 152 LDANFLKVVSRTIAIVLIFAVIFLHMPNLCDSHGHSHHSHEHSHDHGKLPSFKYSKQANE 211
+ L IA+ + I + S + + L + + +
Sbjct: 399 GNGPVLVCAPSNIAVDQLTEKIHQTGLKVVRLCAKSREAIDSPVSFLALHNQIRNMDSMP 458
Query: 212 PYHQ 215
+
Sbjct: 459 ELQK 462
>2wfw_A ARC; ATP-binding protein, proteasomal atpases, PAN, AAA,
ATP-binding, nucleotide-binding; 1.60A {Rhodococcus
erythropolis} PDB: 3fp9_A
Length = 153
Score = 30.8 bits (69), Expect = 0.53
Identities = 20/111 (18%), Positives = 30/111 (27%), Gaps = 4/111 (3%)
Query: 35 TNGPRYVVGCRRQLDKAKLKSGTRVALDMTTLTIMRYLPREVDPLVYNMSHEDPGDITYS 94
T+G + + C +D L G V L+ + +V + D G
Sbjct: 26 TSGRKMRLTCSPNIDTDTLALGQTVRLNEALTIVEAGTYEQVGEISTLREVLDDGLRALV 85
Query: 95 AIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLA 145
E+I L PL I G +LL
Sbjct: 86 VGHADEERIVWLAA----PLAAVFADPEADIIAYDADSPTRKLRPGDSLLV 132
>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A
{Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*
Length = 287
Score = 31.5 bits (70), Expect = 0.53
Identities = 12/32 (37%), Positives = 17/32 (53%)
Query: 128 PKGCLLYGPPGTGKTLLARAVASQLDANFLKV 159
P LL G PG+GKT L A+ + N + +
Sbjct: 33 PTAFLLGGQPGSGKTSLRSAIFEETQGNVIVI 64
>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A
{Coxiella burnetii}
Length = 185
Score = 31.0 bits (71), Expect = 0.58
Identities = 12/47 (25%), Positives = 15/47 (31%), Gaps = 9/47 (19%)
Query: 133 LYGPPGTGKTLLARAVASQLDANFL-------KVVSRTIAIVLIFAV 172
L G G GKT + +A K IA IF +
Sbjct: 10 LIGLMGAGKTSVGSQLAKLTKRILYDSDKEIEKRTGADIA--WIFEM 54
>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA
degradation, allosteric REGU; HET: ADP 1PE; 2.40A
{Saccharomyces cerevisiae}
Length = 802
Score = 31.8 bits (72), Expect = 0.65
Identities = 22/122 (18%), Positives = 37/122 (30%), Gaps = 13/122 (10%)
Query: 99 LSEQIRELREVIELPLLNPELFQRVGI-----TPPKGCLLYGPPGTGKTLLARAVASQLD 153
+ + + LN Q + P L+ GPPGTGKT+ + + L
Sbjct: 345 FDVPLPKEFSIPNFAQLNSS--QSNAVSHVLQRPL--SLIQGPPGTGKTVTSATIVYHLS 400
Query: 154 A----NFLKVVSRTIAIVLIFAVIFLHMPNLCDSHGHSHHSHEHSHDHGKLPSFKYSKQA 209
L +A+ + A + + S E S + L +
Sbjct: 401 KIHKDRILVCAPSNVAVDHLAAKLRDLGLKVVRLTAKSREDVESSVSNLALHNLVGRGAK 460
Query: 210 NE 211
E
Sbjct: 461 GE 462
>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 = 31.0 bits (70), Expect = 0.72
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 131 CLLYGPPGTGKTLLARAVASQLDANFLKVV 160
+L G PG GK+ ++ +A L N + V+
Sbjct: 7 IILTGLPGVGKSTFSKNLAKILSKNNIDVI 36
>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 = 30.6 bits (70), Expect = 0.75
Identities = 14/45 (31%), Positives = 23/45 (51%), Gaps = 5/45 (11%)
Query: 133 LYGPPGTGKTLLARAVASQLDANFL----KVVSRT-IAIVLIFAV 172
L GP G GK+ + R +A QL+ F ++ RT + +F +
Sbjct: 9 LVGPMGAGKSTIGRQLAQQLNMEFYDSDQEIEKRTGADVGWVFDL 53
>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A
{Campylobacter jejuni} SCOP: c.37.1.2
Length = 175
Score = 30.6 bits (70), Expect = 0.77
Identities = 13/25 (52%), Positives = 16/25 (64%)
Query: 133 LYGPPGTGKTLLARAVASQLDANFL 157
G G+GK+ LARA+A LD FL
Sbjct: 9 FIGFMGSGKSTLARALAKDLDLVFL 33
>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL
helix motif, transcription regulator; 3.20A
{Streptococcus pneumoniae}
Length = 253
Score = 31.0 bits (69), Expect = 0.79
Identities = 10/34 (29%), Positives = 14/34 (41%)
Query: 128 PKGCLLYGPPGTGKTLLARAVASQLDANFLKVVS 161
P LL G G GKT + R + N + +
Sbjct: 32 PIAILLGGQSGAGKTTIHRIKQKEFQGNIVIIDG 65
>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 = 0.83
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 132 LLYGPPGTGKTLLARAVASQLD 153
++ GP G GK+ + +A+QLD
Sbjct: 6 IITGPAGVGKSTTCKRLAAQLD 27
>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A
{Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A
3n2e_A*
Length = 168
Score = 30.2 bits (69), Expect = 0.84
Identities = 9/25 (36%), Positives = 13/25 (52%)
Query: 133 LYGPPGTGKTLLARAVASQLDANFL 157
L G G+GK+ LA+ + L L
Sbjct: 12 LIGFMGSGKSSLAQELGLALKLEVL 36
>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent
proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus
influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A*
1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E*
1ht1_E* 1ht2_E*
Length = 444
Score = 31.2 bits (71), Expect = 0.90
Identities = 16/32 (50%), Positives = 21/32 (65%)
Query: 128 PKGCLLYGPPGTGKTLLARAVASQLDANFLKV 159
PK L+ GP G GKT +AR +A +A F+KV
Sbjct: 50 PKNILMIGPTGVGKTEIARRLAKLANAPFIKV 81
>2kjq_A DNAA-related protein; solution structure, NESG, structural
genomics, PSI-2, protei structure initiative; NMR
{Neisseria meningitidis serogroup B}
Length = 149
Score = 29.9 bits (68), Expect = 0.96
Identities = 7/28 (25%), Positives = 12/28 (42%)
Query: 133 LYGPPGTGKTLLARAVASQLDANFLKVV 160
++G G GK+ L +A +Q
Sbjct: 41 VWGEEGAGKSHLLQAWVAQALEAGKNAA 68
>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase;
NMR {Homo sapiens} SCOP: c.37.1.11
Length = 189
Score = 30.1 bits (67), Expect = 1.1
Identities = 11/31 (35%), Positives = 16/31 (51%)
Query: 129 KGCLLYGPPGTGKTLLARAVASQLDANFLKV 159
+ L GPPG GKT L + L ++ + V
Sbjct: 2 RHVFLTGPPGVGKTTLIHKASEVLKSSGVPV 32
>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function;
HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*
Length = 359
Score = 30.4 bits (68), Expect = 1.4
Identities = 10/72 (13%), Positives = 21/72 (29%), Gaps = 7/72 (9%)
Query: 97 GGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANF 156
G + + ++ + GT + AV + ++ N
Sbjct: 95 GLFKDHVEDVNFQPVK-YSALTSNNEECTA------VVARGGTANAIRIAAVDNPVNVNK 147
Query: 157 LKVVSRTIAIVL 168
L S IA ++
Sbjct: 148 LAQDSINIAQIV 159
Score = 28.5 bits (63), Expect = 6.4
Identities = 12/59 (20%), Positives = 26/59 (44%), Gaps = 6/59 (10%)
Query: 104 RELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSR 162
+ +V++L L R+ +L G PG+GK+ +A + ++ + +S
Sbjct: 6 KLADDVLQL------LDNRIEDNYRVCVILVGSPGSGKSTIAEELCQIINEKYHTFLSE 58
>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 = 29.9 bits (68), Expect = 1.5
Identities = 16/30 (53%), Positives = 18/30 (60%), Gaps = 2/30 (6%)
Query: 135 GPPGTGKTLLARAVASQLDANFLKVVSRTI 164
GP G+GKT LA A A + A K VSR I
Sbjct: 29 GPAGSGKTYLAMAKA--VQALQSKQVSRII 56
>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation,
nucleotide metab transferase; HET: C5P; 1.50A {Thermus
thermophilus} PDB: 3akc_A* 3akd_A*
Length = 208
Score = 29.7 bits (68), Expect = 1.5
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 135 GPPGTGKTLLARAVASQLDANFL 157
GP +GK+ +AR VA+ L +L
Sbjct: 9 GPSASGKSSVARRVAAALGVPYL 31
>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop
kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex
aeolicus}
Length = 168
Score = 29.4 bits (67), Expect = 1.6
Identities = 6/25 (24%), Positives = 12/25 (48%)
Query: 133 LYGPPGTGKTLLARAVASQLDANFL 157
L G +GK+ + ++ L+ F
Sbjct: 5 LIGFMCSGKSTVGSLLSRSLNIPFY 29
>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for
structural genomics of infec diseases, csgid, putative
guanylate kinase; HET: MSE; 2.05A {Listeria
monocytogenes}
Length = 208
Score = 29.8 bits (68), Expect = 1.7
Identities = 13/37 (35%), Positives = 18/37 (48%), Gaps = 2/37 (5%)
Query: 129 KGCL--LYGPPGTGKTLLARAVASQLDANFLKVVSRT 163
+G L L GP G GK + AV + +F +S T
Sbjct: 7 RGLLIVLSGPSGVGKGTVREAVFKDPETSFDYSISMT 43
>3d31_C Sulfate/molybdate ABC transporter, permease protein; ATP-binding,
nucleotide-binding, membrane, transmembrane, transport
protein; 3.00A {Methanosarcina acetivorans} SCOP:
f.58.1.1
Length = 295
Score = 30.1 bits (68), Expect = 1.8
Identities = 15/80 (18%), Positives = 22/80 (27%), Gaps = 4/80 (5%)
Query: 185 GHSHHSHEHSHDHGKLPSFKYSKQANEPYHQDVKHPITLQVWGEALLSTILISLAPFLIL 244
GH HH H H H G+ F + K V+ LL L +
Sbjct: 2 GHHHHHHHHHHSSGENLYF--QGHMKAKNRKTRKFEPLTFVFSFLLLVLFLFIFLTLSNM 59
Query: 245 FVVPLDTATGNENFLKVLLS 264
+ +K +
Sbjct: 60 IFEQI--TEDFSGLVKAAGN 77
>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD,
hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A*
2gk7_A 2xzo_A* 2xzp_A
Length = 624
Score = 30.2 bits (68), Expect = 1.8
Identities = 22/124 (17%), Positives = 40/124 (32%), Gaps = 9/124 (7%)
Query: 99 LSEQIRELREVIELPLLNPELFQRVGIT---PPKGCLLYGPPGTGKTLLARAVASQL--- 152
+ Q+ + LP LN Q + L+ GPPGTGKT+ + + L
Sbjct: 165 IKCQLPKRFTAQGLPDLNHS--QVYAVKTVLQRPLSLIQGPPGTGKTVTSATIVYHLARQ 222
Query: 153 -DANFLKVVSRTIAIVLIFAVIFLHMPNLCDSHGHSHHSHEHSHDHGKLPSFKYSKQANE 211
+ L IA+ + I + S + + L + + +
Sbjct: 223 GNGPVLVCAPSNIAVDQLTEKIHQTGLKVVRLCAKSREAIDSPVSFLALHNQIRNMDSMP 282
Query: 212 PYHQ 215
+
Sbjct: 283 ELQK 286
>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 = 29.6 bits (66), Expect = 1.9
Identities = 8/21 (38%), Positives = 13/21 (61%)
Query: 132 LLYGPPGTGKTLLARAVASQL 152
++ G PG GKT L + + +L
Sbjct: 4 IITGEPGVGKTTLVKKIVERL 24
>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics
center for infectious disease, ssgcid, ADP, DCMP, D
transferase; 2.00A {Mycobacterium smegmatis} PDB: 3r8c_A
4die_A*
Length = 233
Score = 29.7 bits (68), Expect = 2.0
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 135 GPPGTGKTLLARAVASQLDANFL 157
GP GTGK+ ++R +A L A +L
Sbjct: 16 GPAGTGKSSVSRGLARALGARYL 38
>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase;
1.90A {Tomato mosaic virus}
Length = 446
Score = 29.8 bits (66), Expect = 2.1
Identities = 11/59 (18%), Positives = 23/59 (38%), Gaps = 8/59 (13%)
Query: 103 IRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVS 161
+ +LR + L + L+ G PG GKT + + S+++ ++
Sbjct: 141 MAKLRTLRRLLKDGEPHVSSAKVV-----LVDGVPGCGKT---KEILSRVNFEEDLILV 191
>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 = 30.1 bits (68), Expect = 2.2
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 131 CLLYGPPGTGKTLLARAVASQLDANFLKVV 160
+L G PGTGK+ +AVA ++ L+V
Sbjct: 207 VVLTGGPGTGKSTTTKAVADLAESLGLEVG 236
>3vaa_A Shikimate kinase, SK; structural genomics, center for structural
genomics of infec diseases, csgid, metal binding,
transferase; 1.70A {Bacteroides thetaiotaomicron}
Length = 199
Score = 29.1 bits (66), Expect = 2.3
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 133 LYGPPGTGKTLLARAVASQLDANFL 157
L G G GKT L +A A +L+ F+
Sbjct: 30 LTGYMGAGKTTLGKAFARKLNVPFI 54
>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase,
transferase; NMR {Streptococcus pneumoniae} SCOP:
c.37.1.1
Length = 236
Score = 29.4 bits (67), Expect = 2.4
Identities = 7/23 (30%), Positives = 13/23 (56%)
Query: 135 GPPGTGKTLLARAVASQLDANFL 157
GP +GK+ +A+ +A +L
Sbjct: 23 GPASSGKSTVAKIIAKDFGFTYL 45
>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54
activator, bacterial transcription, DIM transcription;
HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1
c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A*
Length = 387
Score = 29.7 bits (68), Expect = 2.4
Identities = 17/102 (16%), Positives = 34/102 (33%), Gaps = 25/102 (24%)
Query: 48 LDKAKLKSGTRVALDMTTLTI-MRYLPREVDPLVYNMSHEDPGDITYSAIGGLSEQIREL 106
+++ A++ L L RE D + S +++E+
Sbjct: 103 CMLEEIELTINKAIEHRKLRKENELLRREKDLKEEEY------------VFE-SPKMKEI 149
Query: 107 REVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAV 148
E I+ ++ L+ G G GK ++AR +
Sbjct: 150 LEKIK----------KISCAECP-VLITGESGVGKEVVARLI 180
>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide-
binding; HET: 5GP; 1.9A {Staphylococcus aureus}
Length = 207
Score = 29.0 bits (66), Expect = 2.5
Identities = 11/37 (29%), Positives = 17/37 (45%), Gaps = 2/37 (5%)
Query: 129 KGCL--LYGPPGTGKTLLARAVASQLDANFLKVVSRT 163
KG L L GP G GK + + + ++ +S T
Sbjct: 5 KGLLIVLSGPSGVGKGTVRKRIFEDPSTSYKYSISMT 41
>3ttv_A Catalase HPII; heme orientation, oxidoreductase; HET: HEM; 1.45A
{Escherichia coli} PDB: 3ttt_A* 1gge_A* 1iph_A* 4ens_A*
3ttu_A* 3p9p_A* 4enq_A* 1p81_A* 3ttx_A* 4enw_A* 3ttw_A*
4ent_A* 1qws_A* 1cf9_A* 1p80_A* 1qf7_A* 4enu_A* 4enp_A*
1gg9_A* 1ggf_A* ...
Length = 753
Score = 29.7 bits (67), Expect = 2.5
Identities = 21/73 (28%), Positives = 26/73 (35%), Gaps = 5/73 (6%)
Query: 100 SEQIRELREVIELPLLNPELFQRV----GITPPKGCLLYGPPGTGKTLLARAVASQLDAN 155
IRE R V +L ++ L Q V GI L PP L S
Sbjct: 536 RPYIRE-RVVDQLAHIDLTLAQAVAKNLGIELTDDQLNITPPPDVNGLKKDPSLSLYAIP 594
Query: 156 FLKVVSRTIAIVL 168
V R +AI+L
Sbjct: 595 DGDVKGRVVAILL 607
>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide
monophosphate kinase,, transferase; 1.75A {Escherichia
coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A*
1kdt_A* 2cmk_A* 2fem_A 2feo_A*
Length = 227
Score = 29.3 bits (67), Expect = 2.6
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 135 GPPGTGKTLLARAVASQLDANFL 157
GP G GK L +A+A L + L
Sbjct: 12 GPSGAGKGTLCKAMAEALQWHLL 34
>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus
thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*
Length = 311
Score = 29.5 bits (67), Expect = 2.7
Identities = 15/35 (42%), Positives = 20/35 (57%), Gaps = 4/35 (11%)
Query: 122 RVGITPPK---GCLLY-GPPGTGKTLLARAVASQL 152
R G+ P G L+ GP G GKT LA+ +A+ L
Sbjct: 37 RAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL 71
>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus
abyssi}
Length = 350
Score = 29.3 bits (65), Expect = 2.8
Identities = 9/45 (20%), Positives = 14/45 (31%)
Query: 132 LLYGPPGTGKTLLARAVASQLDANFLKVVSRTIAIVLIFAVIFLH 176
LL G GK+ L RA ++ + I +
Sbjct: 35 LLLGIRRVGKSSLLRAFLNERPGILIDCRELYAERGHITREELIK 79
>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A
{Staphylococcus aureus}
Length = 219
Score = 28.9 bits (66), Expect = 3.5
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 135 GPPGTGKTLLARAVASQLDANFL 157
GP GK+ +A+ VAS+L ++
Sbjct: 10 GPAAAGKSTIAKRVASELSMIYV 32
>1eyb_A Homogentisate 1,2-dioxygenase; jelly roll, beta sandwich,
oxidoreductase; 1.90A {Homo sapiens} SCOP: b.82.1.4 PDB:
1ey2_A
Length = 471
Score = 29.4 bits (65), Expect = 3.5
Identities = 8/30 (26%), Positives = 10/30 (33%)
Query: 185 GHSHHSHEHSHDHGKLPSFKYSKQANEPYH 214
GH HH H H H G + +
Sbjct: 2 GHHHHHHHHHHSSGHIDDDDKHMGSMAELK 31
>2vli_A Antibiotic resistance protein; transferase, tunicamycin,
phosphotransferase; 1.95A {Deinococcus radiodurans}
Length = 183
Score = 28.4 bits (63), Expect = 3.7
Identities = 9/26 (34%), Positives = 14/26 (53%)
Query: 132 LLYGPPGTGKTLLARAVASQLDANFL 157
+ GP G GKT A + +L +F+
Sbjct: 9 WINGPFGVGKTHTAHTLHERLPGSFV 34
>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic
region; yeast protein, ATP binding protein; 2.25A
{Saccharomyces cerevisiae} SCOP: c.37.1.6
Length = 290
Score = 28.8 bits (63), Expect = 3.9
Identities = 17/117 (14%), Positives = 34/117 (29%), Gaps = 6/117 (5%)
Query: 112 LPLLNP--ELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSRTIAIVLI 169
+ L+ + G P GP G+GK+ + + + L + S A +
Sbjct: 13 IEFLDKYIPEWFETGNKCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDD 72
Query: 170 FAVIFLHMPNLCDSHGH----SHHSHEHSHDHGKLPSFKYSKQANEPYHQDVKHPIT 222
F + L + + +HD L + N + +
Sbjct: 73 FYLTHEDQLKLNEQFKNNKLLQGRGLPGTHDMKLLQEVLNTIFNNNEHPDQDTVVLP 129
>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition
domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus
fulgidus} SCOP: c.37.1.19
Length = 237
Score = 28.5 bits (64), Expect = 4.1
Identities = 12/35 (34%), Positives = 17/35 (48%)
Query: 129 KGCLLYGPPGTGKTLLARAVASQLDANFLKVVSRT 163
K + P G+GKT +A A ++L L VV
Sbjct: 109 KRGCIVLPTGSGKTHVAMAAINELSTPTLIVVPTL 143
>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat
ATP binding, chloroplast, transferase; 2.35A
{Arabidopsis thaliana}
Length = 250
Score = 28.6 bits (64), Expect = 4.4
Identities = 9/25 (36%), Positives = 13/25 (52%)
Query: 133 LYGPPGTGKTLLARAVASQLDANFL 157
L G G+GKT + + +A L F
Sbjct: 53 LVGMMGSGKTTVGKIMARSLGYTFF 77
>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 = 29.0 bits (65), Expect = 4.9
Identities = 9/25 (36%), Positives = 14/25 (56%)
Query: 129 KGCLLYGPPGTGKTLLARAVASQLD 153
+G +L GPPG+GKT++
Sbjct: 1268 RGIILCGPPGSGKTMIMNNALRNSS 1292
Score = 28.7 bits (64), Expect = 5.9
Identities = 8/26 (30%), Positives = 11/26 (42%), Gaps = 4/26 (15%)
Query: 130 GCLLYGPPGTGKT----LLARAVASQ 151
G +GP GTGKT + +
Sbjct: 647 GGCFFGPAGTGKTETVKAFGQNLGRV 672
>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 = 28.1 bits (62), Expect = 5.4
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 132 LLYGPPGTGKTLLA 145
L+ G PG+GKTL
Sbjct: 9 LITGTPGSGKTLKM 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 = 5.6
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 128 PKGCLLYGPPGTGKTLLARAVASQL 152
P+ L+ G GTGK++L R +A
Sbjct: 53 PRHLLVNGATGTGKSVLLRELAYTG 77
>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+
ATPase, response regulator, transcriptional activator,
ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB:
1zit_A 2jrl_A
Length = 368
Score = 28.6 bits (65), Expect = 5.6
Identities = 12/51 (23%), Positives = 23/51 (45%), Gaps = 11/51 (21%)
Query: 98 GLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAV 148
G +I E++ +I ++ + L+ G GTGK ++AR +
Sbjct: 133 GEHPKILEIKRLIP----------KIAKSKAP-VLITGESGTGKEIVARLI 172
>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase
activation, cytochrome C, procaspase-9, A nucleotide,
cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A*
3iyt_A* 3iza_A*
Length = 1249
Score = 28.6 bits (64), Expect = 6.0
Identities = 7/21 (33%), Positives = 10/21 (47%)
Query: 133 LYGPPGTGKTLLARAVASQLD 153
+YG G GK++LA
Sbjct: 152 IYGMAGCGKSVLAAEAVRDHS 172
>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2
function project, S2F, unknown function; HET: ADP; 1.70A
{Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A
Length = 158
Score = 27.6 bits (62), Expect = 6.0
Identities = 8/22 (36%), Positives = 10/22 (45%)
Query: 132 LLYGPPGTGKTLLARAVASQLD 153
L G G GKT L R + +
Sbjct: 37 YLNGDLGAGKTTLTRGMLQGIG 58
>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 = 28.3 bits (64), Expect = 6.8
Identities = 15/35 (42%), Positives = 20/35 (57%), Gaps = 4/35 (11%)
Query: 122 RVGITPPK---GCLLY-GPPGTGKTLLARAVASQL 152
R G+ P G L+ GP G GKT LA+ +A+ L
Sbjct: 578 RAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL 612
>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein;
HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19
c.37.1.19 PDB: 2fzl_A*
Length = 472
Score = 28.3 bits (63), Expect = 6.9
Identities = 11/28 (39%), Positives = 15/28 (53%)
Query: 136 PPGTGKTLLARAVASQLDANFLKVVSRT 163
P G+GKT +A A ++L L VV
Sbjct: 116 PTGSGKTHVAMAAINELSTPTLIVVPTL 143
>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 = 28.1 bits (62), Expect = 7.1
Identities = 9/31 (29%), Positives = 15/31 (48%), Gaps = 2/31 (6%)
Query: 132 LLYGPPGTGKTLLARAVASQLDANFLKVVSR 162
L G PG+GK+ AR ++ ++R
Sbjct: 6 LTIGCPGSGKSTWAREFIAKNPG--FYNINR 34
>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP;
2.37A {Humulus lupulus}
Length = 339
Score = 28.0 bits (62), Expect = 7.4
Identities = 9/28 (32%), Positives = 14/28 (50%)
Query: 127 PPKGCLLYGPPGTGKTLLARAVASQLDA 154
K +L G GTGK+ L+ +A+
Sbjct: 39 KEKLLVLMGATGTGKSRLSIDLAAHFPL 66
>1xjc_A MOBB protein homolog; structural genomics, midwest center for
structural GEN PSI, protein structure initiative, MCSG;
2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10
Length = 169
Score = 27.3 bits (60), Expect = 7.6
Identities = 10/59 (16%), Positives = 14/59 (23%), Gaps = 4/59 (6%)
Query: 135 GPPGTGKTLLARAVASQLDANFLKVVSRTIAIVLIFAVIFLHMPNLCDSHGHSHHSHEH 193
G +GKT L + +V + P DS H
Sbjct: 11 GYKHSGKTTLMEKWVAAAVREGWRVG----TVKHHGHGGEPARPEGVDSVRHERAGAVA 65
>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A
{Enterobacteria phage T4} SCOP: c.37.1.1
Length = 181
Score = 27.4 bits (61), Expect = 7.6
Identities = 9/31 (29%), Positives = 15/31 (48%), Gaps = 2/31 (6%)
Query: 132 LLYGPPGTGKTLLARAVASQLDANFLKVVSR 162
L G PG+GK+ AR ++ ++R
Sbjct: 6 LTIGCPGSGKSTWAREFIAKNPG--FYNINR 34
>1pq4_A Periplasmic binding protein component of AN ABC T uptake
transporter; ZNUA, loop, metal-binding, metal binding
protein; 1.90A {Synechocystis SP} SCOP: c.92.2.2 PDB:
2ov3_A 2ov1_A
Length = 291
Score = 27.8 bits (62), Expect = 7.7
Identities = 2/17 (11%), Positives = 3/17 (17%)
Query: 182 DSHGHSHHSHEHSHDHG 198
HG +
Sbjct: 112 HDHGSESEKEKAKGALM 128
>2k8i_A SLYD, peptidyl-prolyl CIS-trans isomerase; ppiase, chaperone,
rotamase; NMR {Escherichia coli}
Length = 171
Score = 27.2 bits (61), Expect = 8.6
Identities = 10/18 (55%), Positives = 11/18 (61%), Gaps = 2/18 (11%)
Query: 183 SHGHSH--HSHEHSHDHG 198
+HGH H H H H HDH
Sbjct: 148 AHGHVHGAHDHHHDHDHD 165
>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two
component system, AAA domain, NTRC family, DNA-binding;
HET: ATP; 3.0A {Salmonella typhimurium}
Length = 304
Score = 27.8 bits (63), Expect = 9.5
Identities = 10/17 (58%), Positives = 14/17 (82%)
Query: 132 LLYGPPGTGKTLLARAV 148
L++G GTGK L+ARA+
Sbjct: 29 LIHGDSGTGKELVARAL 45
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
0.320 0.138 0.408
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: 8,267,457
Number of extensions: 535699
Number of successful extensions: 2116
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2045
Number of HSP's successfully gapped: 207
Length of query: 515
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 417
Effective length of database: 3,965,535
Effective search space: 1653628095
Effective search space used: 1653628095
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 (21.8 bits)
S2: 59 (26.4 bits)