RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3632
(121 letters)
>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 = 90.0 bits (224), Expect = 4e-23
Identities = 31/72 (43%), Positives = 42/72 (58%), Gaps = 9/72 (12%)
Query: 43 PEVVEQLGCQHVKGILLYGPPGTGKTLMARQIGQMLNAREPKI----VNGPQVLDKYVGE 98
P+ + G KG+L YGPPG GKTL+A+ I A E + + GP++L + GE
Sbjct: 38 PDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAI-----ANECQANFISIKGPELLTMWFGE 92
Query: 99 SEANVRRLFADA 110
SEANVR +F A
Sbjct: 93 SEANVREIFDKA 104
>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A
{Homo sapiens}
Length = 274
Score = 89.2 bits (222), Expect = 5e-23
Identities = 31/72 (43%), Positives = 43/72 (59%), Gaps = 9/72 (12%)
Query: 43 PEVVEQLGCQHVKGILLYGPPGTGKTLMARQIGQMLNAREPKI----VNGPQVLDKYVGE 98
P+ + LG G+LL GPPG GKTL+A+ + A E + V GP++L+ YVGE
Sbjct: 33 PDQFKALGLVTPAGVLLAGPPGCGKTLLAKAV-----ANESGLNFISVKGPELLNMYVGE 87
Query: 99 SEANVRRLFADA 110
SE VR++F A
Sbjct: 88 SERAVRQVFQRA 99
>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 = 89.9 bits (223), Expect = 2e-22
Identities = 38/92 (41%), Positives = 56/92 (60%), Gaps = 2/92 (2%)
Query: 21 IGGLDKEFTAIFRRAFASRVFPPEVVEQLGCQHVKGILLYGPPGTGKTLMARQIGQMLNA 80
IGG K+ I + + P + + +G + +GILLYGPPGTGKTL+AR + A
Sbjct: 206 IGGCRKQLAQI-KEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA 264
Query: 81 REPKIVNGPQVLDKYVGESEANVRRLFADAEE 112
I NGP+++ K GESE+N+R+ F +AE+
Sbjct: 265 FFFLI-NGPEIMSKLAGESESNLRKAFEEAEK 295
>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 = 89.1 bits (221), Expect = 4e-22
Identities = 36/94 (38%), Positives = 50/94 (53%), Gaps = 10/94 (10%)
Query: 21 IGGLDKEFTAIFRRAFASRVFPPEVVEQLGCQHVKGILLYGPPGTGKTLMARQIGQMLNA 80
IGGL+ + + V P+ + G KG+L YGPPG GKTL+A+ I A
Sbjct: 479 IGGLE-DVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAI-----A 532
Query: 81 REPKI----VNGPQVLDKYVGESEANVRRLFADA 110
E + + GP++L + GESEANVR +F A
Sbjct: 533 NECQANFISIKGPELLTMWFGESEANVREIFDKA 566
Score = 87.2 bits (216), Expect = 2e-21
Identities = 36/93 (38%), Positives = 57/93 (61%), Gaps = 2/93 (2%)
Query: 20 GIGGLDKEFTAIFRRAFASRVFPPEVVEQLGCQHVKGILLYGPPGTGKTLMARQIGQMLN 79
+GG K+ I + + P + + +G + +GILLYGPPGTGKTL+AR +
Sbjct: 205 DVGGCRKQLAQI-KEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG 263
Query: 80 AREPKIVNGPQVLDKYVGESEANVRRLFADAEE 112
A ++NGP+++ K GESE+N+R+ F +AE+
Sbjct: 264 AF-FFLINGPEIMSKLAGESESNLRKAFEEAEK 295
>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding,
nucleotide-binding, HY; HET: ADP; 3.11A
{Methanocaldococcus jannaschii}
Length = 285
Score = 85.4 bits (212), Expect = 2e-21
Identities = 41/117 (35%), Positives = 66/117 (56%), Gaps = 10/117 (8%)
Query: 1 MEVQPRQSIISPSFDFNKMGIGGLDKEFTAIFRRAFASRVFP---PEVVEQLGCQHVKGI 57
M + + P+ + IGGL+K+ I R P PE+ E++G + KGI
Sbjct: 1 MRAKAMEVDERPNVRYE--DIGGLEKQMQEI-REVV---ELPLKHPELFEKVGIEPPKGI 54
Query: 58 LLYGPPGTGKTLMARQIGQMLNAREPKIVNGPQVLDKYVGESEANVRRLFADAEEEE 114
LLYGPPGTGKTL+A+ + NA ++V G +++ K++GE + V+ +F A+E+
Sbjct: 55 LLYGPPGTGKTLLAKAVATETNATFIRVV-GSELVKKFIGEGASLVKDIFKLAKEKA 110
>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic;
photosynthesis, rubisco activase, AAA+ protein; 2.95A
{Nicotiana tabacum} PDB: 3zw6_A
Length = 293
Score = 76.4 bits (188), Expect = 4e-18
Identities = 10/77 (12%), Positives = 32/77 (41%), Gaps = 1/77 (1%)
Query: 42 PPEVVEQLGCQHVKGILLYGPPGTGKTLMARQIGQMLNAREPKIVNGPQVLDKYVGESEA 101
++ + + ++G G GK+ + + + P +++ ++ GE
Sbjct: 24 TKNFLKLPNIKVPLILGIWGGKGQGKSFQCELVFRKMGI-NPIMMSAGELESGNAGEPAK 82
Query: 102 NVRRLFADAEEEEKRVS 118
+R+ + +A E ++ +
Sbjct: 83 LIRQRYREAAEIIRKGN 99
>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 = 72.5 bits (178), Expect = 1e-16
Identities = 21/113 (18%), Positives = 44/113 (38%), Gaps = 7/113 (6%)
Query: 2 EVQPRQSIISPSF-DFNKMGIGGLDKEFTAIFRRAFASRVFPPEVVEQLGCQHVKGILLY 60
+++P + + GI T + + + + +LL
Sbjct: 15 DIKPAFGTNQEDYASYIMNGIIKWGDPVTRVLDDG----ELLVQQTKNSDRTPLVSVLLE 70
Query: 61 GPPGTGKTLMARQIGQMLNAREPKIVNGPQVLDKYVGESEAN-VRRLFADAEE 112
GPP +GKT +A +I + N KI P + + ++ ++++F DA +
Sbjct: 71 GPPHSGKTALAAKIAEESNFPFIKI-CSPDKMIGFSETAKCQAMKKIFDDAYK 122
>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo
sapiens}
Length = 322
Score = 70.1 bits (172), Expect = 1e-15
Identities = 24/63 (38%), Positives = 37/63 (58%), Gaps = 10/63 (15%)
Query: 55 KGILLYGPPGTGKTLMARQIGQMLNAREPKI-----VNGPQVLDKYVGESEANVRRLFAD 109
+GILL+GPPGTGK+ +A+ + A E ++ ++ K++GESE V+ LF
Sbjct: 46 RGILLFGPPGTGKSYLAKAV-----ATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQL 100
Query: 110 AEE 112
A E
Sbjct: 101 ARE 103
>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 = 69.7 bits (171), Expect = 2e-15
Identities = 27/62 (43%), Positives = 38/62 (61%), Gaps = 9/62 (14%)
Query: 55 KGILLYGPPGTGKTLMARQIGQMLNAREPKI----VNGPQVLDKYVGESEANVRRLFADA 110
GILLYGPPGTGK+ +A+ + A E V+ ++ K++GESE V++LFA A
Sbjct: 52 SGILLYGPPGTGKSYLAKAV-----ATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMA 106
Query: 111 EE 112
E
Sbjct: 107 RE 108
>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding,
hydrolase; 2.70A {Drosophila melanogaster}
Length = 297
Score = 66.9 bits (164), Expect = 1e-14
Identities = 30/74 (40%), Positives = 39/74 (52%), Gaps = 10/74 (13%)
Query: 43 PEVVEQLGCQHVKGILLYGPPGTGKTLMARQIGQMLNAREPKI----VNGPQVLDKYVGE 98
PE+ L KG+LL+GPPG GKTL+AR + A E ++ + KYVG+
Sbjct: 44 PELFTGLR-APAKGLLLFGPPGNGKTLLARAV-----ATECSATFLNISAASLTSKYVGD 97
Query: 99 SEANVRRLFADAEE 112
E VR LFA A
Sbjct: 98 GEKLVRALFAVARH 111
>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 = 65.9 bits (161), Expect = 4e-14
Identities = 27/62 (43%), Positives = 35/62 (56%), Gaps = 9/62 (14%)
Query: 55 KGILLYGPPGTGKTLMARQIGQMLNAREPKI----VNGPQVLDKYVGESEANVRRLFADA 110
KGILL+GPPGTGKTL+ + I A + ++ + K+VGE E VR LFA A
Sbjct: 118 KGILLFGPPGTGKTLIGKCI-----ASQSGATFFSISASSLTSKWVGEGEKMVRALFAVA 172
Query: 111 EE 112
Sbjct: 173 RC 174
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo
sapiens}
Length = 389
Score = 65.2 bits (159), Expect = 7e-14
Identities = 26/62 (41%), Positives = 36/62 (58%), Gaps = 9/62 (14%)
Query: 55 KGILLYGPPGTGKTLMARQIGQMLNAREPKI----VNGPQVLDKYVGESEANVRRLFADA 110
+G+LL+GPPG GKT++A+ + A E ++ + KYVGE E VR LFA A
Sbjct: 149 RGLLLFGPPGNGKTMLAKAV-----AAESNATFFNISAASLTSKYVGEGEKLVRALFAVA 203
Query: 111 EE 112
E
Sbjct: 204 RE 205
>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 = 63.4 bits (154), Expect = 4e-13
Identities = 23/58 (39%), Positives = 36/58 (62%)
Query: 55 KGILLYGPPGTGKTLMARQIGQMLNAREPKIVNGPQVLDKYVGESEANVRRLFADAEE 112
+GILL+GPPGTGK+ +A+ + N ++ ++ K++GESE V+ LF A E
Sbjct: 168 RGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARE 225
>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 = 60.2 bits (146), Expect = 4e-12
Identities = 27/62 (43%), Positives = 38/62 (61%), Gaps = 9/62 (14%)
Query: 55 KGILLYGPPGTGKTLMARQIGQMLNAREPKI----VNGPQVLDKYVGESEANVRRLFADA 110
GILLYGPPGTGK+ +A+ + A E V+ ++ K++GESE V++LFA A
Sbjct: 85 SGILLYGPPGTGKSYLAKAV-----ATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMA 139
Query: 111 EE 112
E
Sbjct: 140 RE 141
>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 = 50.7 bits (122), Expect = 8e-09
Identities = 28/74 (37%), Positives = 39/74 (52%), Gaps = 9/74 (12%)
Query: 43 PEVVEQLGCQHVKGILLYGPPGTGKTLMARQIGQMLNAREPKI----VNGPQVLDKYVGE 98
PE QLG + KG LL GPPG GKTL+A+ + A E ++ + G + ++ G
Sbjct: 28 PERFLQLGAKVPKGALLLGPPGCGKTLLAKAV-----ATEAQVPFLAMAGAEFVEVIGGL 82
Query: 99 SEANVRRLFADAEE 112
A VR LF +A
Sbjct: 83 GAARVRSLFKEARA 96
>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 = 50.0 bits (120), Expect = 1e-08
Identities = 26/74 (35%), Positives = 39/74 (52%), Gaps = 9/74 (12%)
Query: 43 PEVVEQLGCQHVKGILLYGPPGTGKTLMARQIGQMLNAREPKI----VNGPQVLDKYVGE 98
P ++G + KG+LL GPPG GKT +AR + A E ++ +G ++ +VG
Sbjct: 38 PSRFHEMGARIPKGVLLVGPPGVGKTHLARAV-----AGEARVPFITASGSDFVEMFVGV 92
Query: 99 SEANVRRLFADAEE 112
A VR LF A+
Sbjct: 93 GAARVRDLFETAKR 106
>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A
{Escherichia coli} SCOP: c.37.1.20
Length = 257
Score = 49.6 bits (119), Expect = 2e-08
Identities = 27/74 (36%), Positives = 44/74 (59%), Gaps = 9/74 (12%)
Query: 43 PEVVEQLGCQHVKGILLYGPPGTGKTLMARQIGQMLNAREPKI----VNGPQVLDKYVGE 98
P ++LG + KG+L+ GPPGTGKTL+A+ I A E K+ ++G ++ +VG
Sbjct: 34 PSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAI-----AGEAKVPFFTISGSDFVEMFVGV 88
Query: 99 SEANVRRLFADAEE 112
+ VR +F A++
Sbjct: 89 GASRVRDMFEQAKK 102
>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
3.20A {Thermus thermophilus} SCOP: c.37.1.20
Length = 278
Score = 49.7 bits (119), Expect = 2e-08
Identities = 26/74 (35%), Positives = 39/74 (52%), Gaps = 9/74 (12%)
Query: 43 PEVVEQLGCQHVKGILLYGPPGTGKTLMARQIGQMLNAREPKI----VNGPQVLDKYVGE 98
P ++G + KG+LL GPPG GKT +AR + A E ++ +G ++ +VG
Sbjct: 62 PSRFHEMGARIPKGVLLVGPPGVGKTHLARAV-----AGEARVPFITASGSDFVEMFVGV 116
Query: 99 SEANVRRLFADAEE 112
A VR LF A+
Sbjct: 117 GAARVRDLFETAKR 130
>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 = 49.2 bits (118), Expect = 2e-08
Identities = 28/74 (37%), Positives = 41/74 (55%), Gaps = 9/74 (12%)
Query: 43 PEVVEQLGCQHVKGILLYGPPGTGKTLMARQIGQMLNAREPKI----VNGPQVLDKYVGE 98
PE LG + KG+LL GPPGTGKTL+A+ + A E + + G ++ +VG
Sbjct: 33 PERYANLGAKIPKGVLLVGPPGTGKTLLAKAV-----AGEAHVPFFSMGGSSFIEMFVGL 87
Query: 99 SEANVRRLFADAEE 112
+ VR LF A++
Sbjct: 88 GASRVRDLFETAKK 101
>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 = 47.9 bits (113), Expect = 1e-07
Identities = 28/174 (16%), Positives = 50/174 (28%), Gaps = 67/174 (38%)
Query: 1 MEVQPRQSIISPSFDFNKMGIGGLDKEFTA--IFRRAFASRVFPPEVVEQL-----GCQH 53
++ + RQ PS +M I D+ + +F + SR + +L +
Sbjct: 98 IKTEQRQ----PSMM-TRMYIEQRDRLYNDNQVFAKYNVSR---LQPYLKLRQALLELRP 149
Query: 54 VKGILLYGPPGTGKTLMA---------------------------------------RQI 74
K +L+ G G+GKT +A QI
Sbjct: 150 AKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI 209
Query: 75 GQMLNAREPKIVNGPQVLDKYVGESEANVRRLFADAEEEEKR-------VSHKW 121
+R N + +A +RRL + + V +
Sbjct: 210 DPNWTSRSDHSSNIKLRIH----SIQAELRRLL--KSKPYENCLLVLLNVQNAK 257
Score = 30.6 bits (68), Expect = 0.11
Identities = 20/117 (17%), Positives = 33/117 (28%), Gaps = 56/117 (47%)
Query: 40 VFPPEVVEQLGCQHV----KGIL-------LYGPPGT--------------GKTLMARQI 74
VF V+ C+ V K IL + + ++ + +
Sbjct: 24 VFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFV 83
Query: 75 GQMLNA-------------REP------------KIVNGPQVLDKYVGESEANVRRL 106
++L R+P ++ N QV KY NV RL
Sbjct: 84 EEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKY------NVSRL 134
Score = 30.6 bits (68), Expect = 0.12
Identities = 14/90 (15%), Positives = 26/90 (28%), Gaps = 28/90 (31%)
Query: 32 FRRAFASRVFP-----------PEVVE--QLGCQHVKGILLYGPPGTGKTLMARQIGQML 78
RR S+ + + L C+ ILL T +Q+ L
Sbjct: 234 LRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCK----ILL--------TTRFKQVTDFL 281
Query: 79 NAREPKIVNGPQVLDKYVGESEANVRRLFA 108
+A + + + + V+ L
Sbjct: 282 SAATTTHI---SLDHHSMTLTPDEVKSLLL 308
>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 = 46.8 bits (112), Expect = 2e-07
Identities = 21/40 (52%), Positives = 26/40 (65%), Gaps = 9/40 (22%)
Query: 44 EVVE---------QLGCQHVKGILLYGPPGTGKTLMARQI 74
EVVE ++G + KGILL GPPGTGKTL+AR +
Sbjct: 30 EVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAV 69
>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET:
ADP; 3.90A {Thermus thermophilus}
Length = 499
Score = 46.4 bits (111), Expect = 3e-07
Identities = 17/40 (42%), Positives = 24/40 (60%), Gaps = 9/40 (22%)
Query: 44 EVVE---------QLGCQHVKGILLYGPPGTGKTLMARQI 74
E+VE ++G + KG+LL GPPG GKT +AR +
Sbjct: 45 EIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAV 84
>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 = 46.0 bits (109), Expect = 5e-07
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 7/46 (15%)
Query: 42 PPEVVEQLGCQHVKGILLYGPPGTGKT----LMARQIGQM---LNA 80
+ + G + +LYGPPG GKT L+A+++G NA
Sbjct: 65 SFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNA 110
>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein,
calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides}
PDB: 3syk_A 3zuh_A*
Length = 309
Score = 42.0 bits (98), Expect = 9e-06
Identities = 12/63 (19%), Positives = 25/63 (39%), Gaps = 6/63 (9%)
Query: 56 GILLYGPPGTGKTLMARQIGQM------LNAREPKIVNGPQVLDKYVGESEANVRRLFAD 109
+ G PGTGKT +A ++ + + V ++ +Y+G + + +
Sbjct: 69 HMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKR 128
Query: 110 AEE 112
A
Sbjct: 129 AMG 131
>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 = 40.0 bits (93), Expect = 5e-05
Identities = 18/48 (37%), Positives = 28/48 (58%), Gaps = 1/48 (2%)
Query: 55 KGILLYGPPGTGKTLMARQIGQMLNAREP-KIVNGPQVLDKYVGESEA 101
+ +LL GPPGTGKT +A I Q L ++ P + G +V + ++E
Sbjct: 64 RAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYSTEIKKTEV 111
>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 = 39.7 bits (93), Expect = 5e-05
Identities = 11/73 (15%), Positives = 28/73 (38%), Gaps = 11/73 (15%)
Query: 46 VEQLGCQHVKGILLYGPPGTGKTLMARQIGQMLNAREPK---IVNGPQVLDKYVGESEAN 102
V + KG+ G PG GKT +A + + ++ + ++ +
Sbjct: 30 VHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDTKDLIFR-------- 81
Query: 103 VRRLFADAEEEEK 115
++ L + ++ +
Sbjct: 82 LKHLMDEGKDTKF 94
>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 = 39.6 bits (93), Expect = 7e-05
Identities = 17/49 (34%), Positives = 27/49 (55%)
Query: 55 KGILLYGPPGTGKTLMARQIGQMLNAREPKIVNGPQVLDKYVGESEANV 103
K IL+ GP G GKT +AR++ ++ NA K+ YVG+ ++
Sbjct: 51 KNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSI 99
>2qgz_A Helicase loader, putative primosome component; structural genomics,
PSI-2, protein structure initiative; 2.40A
{Streptococcus pyogenes serotype M3}
Length = 308
Score = 39.4 bits (92), Expect = 9e-05
Identities = 15/73 (20%), Positives = 30/73 (41%), Gaps = 11/73 (15%)
Query: 46 VEQLGCQHVKGILLYGPPGTGKTLMARQIGQMLNAREPK---IVNGPQVLDKYVGESEAN 102
VEQ KG+ LYG G GK+ + + L+ ++ +++ P
Sbjct: 144 VEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHFPSFAID-------- 195
Query: 103 VRRLFADAEEEEK 115
V+ ++ +E+
Sbjct: 196 VKNAISNGSVKEE 208
>3pvs_A Replication-associated recombination protein A; maintenance of
genome stability Pro recombination; 2.50A {Escherichia
coli}
Length = 447
Score = 39.1 bits (92), Expect = 1e-04
Identities = 13/25 (52%), Positives = 18/25 (72%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLNAR 81
++L+GPPGTGKT +A I + NA
Sbjct: 53 MILWGPPGTGKTTLAEVIARYANAD 77
>2w58_A DNAI, primosome component (helicase loader); ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.50A
{Geobacillus kaustophilus HTA426}
Length = 202
Score = 38.5 bits (90), Expect = 2e-04
Identities = 17/66 (25%), Positives = 27/66 (40%), Gaps = 10/66 (15%)
Query: 52 QHVKGILLYGPPGTGKTLMARQIGQMLNAREPK--IVNGPQVLDKYVGESEANVRRLFAD 109
+ +KG+ L+G G GKT + I L R IV P++ + ++ D
Sbjct: 52 KKMKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVYVPELFRE--------LKHSLQD 103
Query: 110 AEEEEK 115
EK
Sbjct: 104 QTMNEK 109
>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 = 38.6 bits (89), Expect = 2e-04
Identities = 8/22 (36%), Positives = 12/22 (54%)
Query: 57 ILLYGPPGTGKTLMARQIGQML 78
L G GTGKT +++ I +
Sbjct: 48 NLFLGLTGTGKTFVSKYIFNEI 69
>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 = 38.5 bits (89), Expect = 2e-04
Identities = 9/28 (32%), Positives = 15/28 (53%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLNAREPK 84
I +YG GTGKT + + + L+ +
Sbjct: 48 IFIYGLTGTGKTAVVKFVLSKLHKKFLG 75
>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 = 38.6 bits (89), Expect = 2e-04
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 57 ILLYGPPGTGKTLMARQIGQML 78
L G PGTGKT+ R++ ++
Sbjct: 47 ATLLGRPGTGKTVTLRKLWELY 68
>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 = 2e-04
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 57 ILLYGPPGTGKTLMARQIGQML 78
+ L GPPG K+L+AR++
Sbjct: 44 VFLLGPPGIAKSLIARRLKFAF 65
>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 = 37.0 bits (86), Expect = 5e-04
Identities = 9/46 (19%), Positives = 19/46 (41%), Gaps = 5/46 (10%)
Query: 44 EVVEQLGCQHVKG-----ILLYGPPGTGKTLMARQIGQMLNAREPK 84
E+L + G +L+ PG G + + + L ++P+
Sbjct: 9 PDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQ 54
>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 = 36.5 bits (85), Expect = 9e-04
Identities = 13/23 (56%), Positives = 18/23 (78%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLN 79
ILL GP G+GKTLMA+ + + L+
Sbjct: 75 ILLIGPTGSGKTLMAQTLAKHLD 97
>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 = 36.0 bits (84), Expect = 0.001
Identities = 12/23 (52%), Positives = 18/23 (78%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLN 79
ILL GP G+GKTL+A + ++L+
Sbjct: 54 ILLIGPTGSGKTLLAETLARLLD 76
>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 = 36.0 bits (83), Expect = 0.001
Identities = 8/31 (25%), Positives = 13/31 (41%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLNAREPKIVN 87
+ GPP TGK+++ + L N
Sbjct: 129 LAFIGPPNTGKSMLCNSLIHFLGGSVLSFAN 159
>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 = 35.8 bits (83), Expect = 0.001
Identities = 16/47 (34%), Positives = 22/47 (46%), Gaps = 14/47 (29%)
Query: 40 VFPPEVVEQLG-------CQHVKGILLYGPPGTGKT----LMARQIG 75
V EV+++L H +L GPPGTGKT +AR +
Sbjct: 20 VGQDEVIQRLKGYVERKNIPH---LLFSGPPGTGKTATAIALARDLF 63
>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 = 36.2 bits (83), Expect = 0.001
Identities = 17/107 (15%), Positives = 39/107 (36%), Gaps = 30/107 (28%)
Query: 34 RAFASRVFPPEVVEQLGCQHVKGILLYGP-P-----GTGKTLMARQIGQMLNAREPK--- 84
A+ + PP ++E ++ +G+ P P + + + + N+ P
Sbjct: 312 EAYPNTSLPPSILED-SLENNEGV----PSPMLSISNLTQEQVQDYVNK-TNSHLPAGKQ 365
Query: 85 ----IVNGPQVLDKYV--GESEA------NVRRLFADAEEEEKRVSH 119
+VNG V G ++ +R+ A + ++ R+
Sbjct: 366 VEISLVNGA---KNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPF 409
>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 = 35.7 bits (83), Expect = 0.001
Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 10/45 (22%)
Query: 40 VFPPEVVEQLGCQHVKG-----ILLYGPPGTGKT----LMARQIG 75
V EV+++L +V+ +L GPPGTGKT +AR +
Sbjct: 20 VGQDEVIQRLK-GYVERKNIPHLLFSGPPGTGKTATAIALARDLF 63
>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 = 35.5 bits (82), Expect = 0.002
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 56 GILLYGPPGTGKTLMARQIGQML 78
G+L++G GTGK+ R + +L
Sbjct: 47 GVLVFGDRGTGKSTAVRALAALL 69
>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 = 35.0 bits (81), Expect = 0.003
Identities = 10/23 (43%), Positives = 14/23 (60%), Gaps = 4/23 (17%)
Query: 57 ILLYGPPGTGKT----LMARQIG 75
+L GPPG GKT +AR++
Sbjct: 49 LLFAGPPGVGKTTAALALARELF 71
>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable
holliday junction DNA helicase; HET: ADP; 2.69A
{Campylobacter jejuni subsp}
Length = 338
Score = 34.8 bits (81), Expect = 0.003
Identities = 14/42 (33%), Positives = 21/42 (50%), Gaps = 5/42 (11%)
Query: 53 HVKGILLYGPPGTGKTLMARQIGQMLNAREPKIVNGPQVLDK 94
H+ L GP G GKT +A I ++A K P +++K
Sbjct: 57 HI---LFSGPAGLGKTTLANIISYEMSA-NIKTTAAP-MIEK 93
>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 = 34.8 bits (81), Expect = 0.003
Identities = 16/42 (38%), Positives = 24/42 (57%), Gaps = 5/42 (11%)
Query: 53 HVKGILLYGPPGTGKTLMARQIGQMLNAREPKIVNGPQVLDK 94
H+ LL+GPPG GKT +A I L ++ +GP ++K
Sbjct: 40 HL---LLFGPPGLGKTTLAHVIAHELGV-NLRVTSGP-AIEK 76
>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 = 34.8 bits (81), Expect = 0.004
Identities = 19/42 (45%), Positives = 22/42 (52%), Gaps = 5/42 (11%)
Query: 53 HVKGILLYGPPGTGKTLMARQIGQMLNAREPKIVNGPQVLDK 94
HV LL GPPG GKT +A I L + +GP VL K
Sbjct: 53 HV---LLAGPPGLGKTTLAHIIASELQT-NIHVTSGP-VLVK 89
>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 = 33.8 bits (77), Expect = 0.007
Identities = 8/24 (33%), Positives = 14/24 (58%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLNA 80
I++ G P TGKT +++ + L
Sbjct: 8 IIVTGHPATGKTTLSQALATGLRL 31
>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 = 33.7 bits (77), Expect = 0.009
Identities = 9/62 (14%), Positives = 26/62 (41%), Gaps = 5/62 (8%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLNAREPKIV-----NGPQVLDKYVGESEANVRRLFADAE 111
I+L G PG GK+ ++ + ++L+ ++ + + + E +++
Sbjct: 7 IILTGLPGVGKSTFSKNLAKILSKNNIDVIVLGSDLIRESFPVWKEKYEEFIKKSTYRLI 66
Query: 112 EE 113
+
Sbjct: 67 DS 68
>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 = 33.7 bits (77), Expect = 0.009
Identities = 10/36 (27%), Positives = 17/36 (47%)
Query: 52 QHVKGILLYGPPGTGKTLMARQIGQMLNAREPKIVN 87
+ ++L GPPG+GKT+ + E +N
Sbjct: 1302 SEHRPLILCGPPGSGKTMTLTSTLRAFPDFEVVSLN 1337
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 33.5 bits (77), Expect = 0.010
Identities = 9/28 (32%), Positives = 18/28 (64%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLNAREPK 84
+LL G PGTGK+++ + + ++L +
Sbjct: 63 VLLIGEPGTGKSMLGQAMAELLPTETLE 90
>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 = 33.1 bits (75), Expect = 0.012
Identities = 8/25 (32%), Positives = 14/25 (56%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLNAR 81
+LL G PG+GK+ +A + +
Sbjct: 12 LLLSGHPGSGKSTIAEALANLPGVP 36
>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 = 33.2 bits (76), Expect = 0.012
Identities = 8/30 (26%), Positives = 16/30 (53%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLNAREPKIV 86
+ L G PG+GK+ ++ + L+A+
Sbjct: 25 VALSGAPGSGKSTLSNPLAAALSAQGLPAE 54
>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 = 32.7 bits (74), Expect = 0.015
Identities = 14/68 (20%), Positives = 27/68 (39%), Gaps = 3/68 (4%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLNAR---EPKIVNGPQVLDKYVGESEANVRRLFADAEEE 113
ILL G PG GKT + +++ + + Q+ D Y E + + +E
Sbjct: 14 ILLTGTPGVGKTTLGKELASKSGLKYINVGDLAREEQLYDGYDEEYDCPILDEDRVVDEL 73
Query: 114 EKRVSHKW 121
+ ++
Sbjct: 74 DNQMREGG 81
>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer,
structural genomics; HET: ADP; 2.00A {Pyrococcus
horikoshii}
Length = 247
Score = 32.7 bits (75), Expect = 0.016
Identities = 18/57 (31%), Positives = 26/57 (45%), Gaps = 14/57 (24%)
Query: 54 VKG--ILLYGPPGTGKTLMARQ-IGQMLNAREPKIVNGPQVLDKYVG--ESEANVRR 105
+ +LL G PGTGKT+ ++Q + L EP + YV E VR+
Sbjct: 21 PERNVVLLSGGPGTGKTIFSQQFLWNGLKMGEP-------GI--YVALEEHPVQVRQ 68
>2v1u_A Cell division control protein 6 homolog; DNA replication,
nucleotide-binding, replication, archaea; HET: ADP;
3.10A {Aeropyrum pernix}
Length = 387
Score = 32.9 bits (74), Expect = 0.017
Identities = 14/28 (50%), Positives = 17/28 (60%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLNAREPK 84
LLYG GTGKT +AR + + L AR
Sbjct: 47 ALLYGLTGTGKTAVARLVLRRLEARASS 74
>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 = 0.018
Identities = 9/18 (50%), Positives = 11/18 (61%)
Query: 57 ILLYGPPGTGKTLMARQI 74
L+ G GTGKTL + Q
Sbjct: 42 TLVSGTSGTGKTLFSIQF 59
Score = 31.8 bits (72), Expect = 0.034
Identities = 9/18 (50%), Positives = 11/18 (61%)
Query: 57 ILLYGPPGTGKTLMARQI 74
IL G GTGKTL+ +
Sbjct: 284 ILATGATGTGKTLLVSRF 301
>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 = 32.6 bits (73), Expect = 0.020
Identities = 2/25 (8%), Positives = 6/25 (24%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLNAR 81
+ + K + + L
Sbjct: 48 FYITNADDSTKFQLVNDVMDELITS 72
>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 = 0.022
Identities = 10/18 (55%), Positives = 11/18 (61%)
Query: 57 ILLYGPPGTGKTLMARQI 74
+LL G GTGKT A Q
Sbjct: 33 VLLTGGTGTGKTTFAAQF 50
>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 = 32.2 bits (73), Expect = 0.029
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 57 ILLYGPPGTGKTLMARQIGQML 78
I L+GP TGKT +A I +
Sbjct: 107 IWLFGPATTGKTNIAEAIAHTV 128
>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 = 32.1 bits (73), Expect = 0.029
Identities = 11/36 (30%), Positives = 20/36 (55%)
Query: 52 QHVKGILLYGPPGTGKTLMARQIGQMLNAREPKIVN 87
+GI+L GPPG+GKT++ + + + +N
Sbjct: 1265 NSKRGIILCGPPGSGKTMIMNNALRNSSLYDVVGIN 1300
Score = 26.3 bits (58), Expect = 3.4
Identities = 8/22 (36%), Positives = 13/22 (59%), Gaps = 4/22 (18%)
Query: 60 YGPPGTGKT----LMARQIGQM 77
+GP GTGKT + +G++
Sbjct: 651 FGPAGTGKTETVKAFGQNLGRV 672
Score = 26.0 bits (57), Expect = 4.2
Identities = 7/22 (31%), Positives = 9/22 (40%), Gaps = 2/22 (9%)
Query: 47 EQLGCQHVKGILLYGPPGTGKT 68
Q ++L G G GKT
Sbjct: 918 YMQKTQQ--ALILVGKAGCGKT 937
>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 = 31.9 bits (72), Expect = 0.030
Identities = 7/27 (25%), Positives = 14/27 (51%)
Query: 55 KGILLYGPPGTGKTLMARQIGQMLNAR 81
+ L GP +GKT +A + ++ +
Sbjct: 170 RYWLFKGPIDSGKTTLAAALLELCGGK 196
>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 = 31.8 bits (72), Expect = 0.030
Identities = 6/23 (26%), Positives = 13/23 (56%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLN 79
++ GP G GK+ +++ L+
Sbjct: 5 YIITGPAGVGKSTTCKRLAAQLD 27
>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 = 32.0 bits (72), Expect = 0.032
Identities = 21/89 (23%), Positives = 37/89 (41%), Gaps = 13/89 (14%)
Query: 32 FRRAFASRVFPPE-VVEQLGCQHVKGILLYGPPGTGKTLMARQIGQMLNAREPKIVNGPQ 90
AFA+ P + V+ + V L P G GK+++A Q+ +I GP
Sbjct: 9 ILEAFAAAPPPLDYVLPNMVAGTV--GALVSPGGAGKSMLALQLAA-------QIAGGPD 59
Query: 91 VLDKYVGESEANVRRLFADAEEEEKRVSH 119
+L+ + V ++ AE+ + H
Sbjct: 60 LLEVGELPT-GPV--IYLPAEDPPTAIHH 85
>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 = 32.1 bits (74), Expect = 0.033
Identities = 15/30 (50%), Positives = 20/30 (66%), Gaps = 2/30 (6%)
Query: 52 QHVKG-IL-LYGPPGTGKTLMARQIGQMLN 79
+ +KG IL L GPPG GKT +A+ I + L
Sbjct: 104 KSLKGPILCLAGPPGVGKTSLAKSIAKSLG 133
>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 = 31.7 bits (72), Expect = 0.037
Identities = 7/31 (22%), Positives = 11/31 (35%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLNAREPKIVN 87
++ GP TGK+ + VN
Sbjct: 61 LVFCGPANTGKSYFGMSFIHFIQGAVISFVN 91
>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 = 0.039
Identities = 13/23 (56%), Positives = 15/23 (65%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLN 79
IL+ G PGTGKT MA I L+
Sbjct: 13 ILITGTPGTGKTSMAEMIAAELD 35
>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus
P2}
Length = 235
Score = 31.5 bits (72), Expect = 0.041
Identities = 13/33 (39%), Positives = 18/33 (54%), Gaps = 3/33 (9%)
Query: 54 VKG--ILLYGPPGTGKTLMARQ-IGQMLNAREP 83
+G I L G PGTGKT+ + I + L +P
Sbjct: 21 PQGFFIALTGEPGTGKTIFSLHFIAKGLRDGDP 53
>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 = 0.043
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLNA 80
ILL G PG KTL + + ++
Sbjct: 49 ILLEGVPGLAKTLSVNTLAKTMDL 72
>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural
genomics, center for structural genomics; 2.80A
{Escherichia coli}
Length = 145
Score = 30.6 bits (70), Expect = 0.067
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 57 ILLYGPPGTGKTLMARQI 74
+ LYG PGTG+ AR +
Sbjct: 27 VWLYGAPGTGRMTGARYL 44
>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 = 30.9 bits (69), Expect = 0.067
Identities = 7/25 (28%), Positives = 12/25 (48%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLNAR 81
I+L G GK+ + R + +L
Sbjct: 6 IILNGGSSAGKSGIVRCLQSVLPEP 30
>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET:
ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*
Length = 368
Score = 30.7 bits (69), Expect = 0.100
Identities = 12/29 (41%), Positives = 16/29 (55%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLNAREPKI 85
+L+ G PGTGKT +A + Q L P
Sbjct: 73 VLIAGQPGTGKTAIAMGMAQALGPDTPFT 101
>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A
{Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*
Length = 287
Score = 30.4 bits (67), Expect = 0.11
Identities = 13/61 (21%), Positives = 20/61 (32%), Gaps = 5/61 (8%)
Query: 25 DKEFTAIFRRAFASRVFPPEVVEQLGCQHVKGILLYGPPGTGKTLMARQIGQMLNAREPK 84
DK+F + + + LL G PG+GKT + I +
Sbjct: 9 DKQFENRLND-----NLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIV 63
Query: 85 I 85
I
Sbjct: 64 I 64
>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 = 30.0 bits (67), Expect = 0.12
Identities = 11/68 (16%), Positives = 23/68 (33%), Gaps = 10/68 (14%)
Query: 57 ILLYGPPGTGKTLMA------RQIGQMLNAREPKIV----NGPQVLDKYVGESEANVRRL 106
L+ G PG+GKTL ++ + + V G ++ Y+ + +
Sbjct: 8 CLITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIKGLKIPHTYIETDAKKLPKS 67
Query: 107 FADAEEEE 114
+
Sbjct: 68 TDEQLSAH 75
>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 = 30.1 bits (68), Expect = 0.14
Identities = 19/58 (32%), Positives = 25/58 (43%), Gaps = 18/58 (31%)
Query: 40 VFPPEVVEQLGCQHVKG-----ILLYGPPGTGKTL----MARQIGQ--------MLNA 80
EV+ + + V +L YGPPGTGKT +AR+I LNA
Sbjct: 28 YGQNEVITTVR-KFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNA 84
>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 = 29.6 bits (67), Expect = 0.22
Identities = 15/64 (23%), Positives = 25/64 (39%), Gaps = 5/64 (7%)
Query: 56 GILLYGPPGTGKTLMARQIGQMLNAREPKIVNGPQVL--DKYVGES-EANVRRLFADAEE 112
GI+ GP G GKT + + + E K+ V +Y+ E V L + +
Sbjct: 386 GIV--GPNGIGKTTFVKMLAGVEEPTEGKVEWDLTVAYKPQYIKAEYEGTVYELLSKIDS 443
Query: 113 EEKR 116
+
Sbjct: 444 SKLN 447
>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase;
1.90A {Tomato mosaic virus}
Length = 446
Score = 29.4 bits (65), Expect = 0.23
Identities = 12/34 (35%), Positives = 18/34 (52%), Gaps = 3/34 (8%)
Query: 53 HVKGILLYGPPGTGKTLMARQIGQMLNAREPKIV 86
K +L+ G PG GKT ++I +N E I+
Sbjct: 160 SAKVVLVDGVPGCGKT---KEILSRVNFEEDLIL 190
>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 = 29.2 bits (65), Expect = 0.25
Identities = 10/25 (40%), Positives = 16/25 (64%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLNAR 81
I++ G PG GKT + ++I + L R
Sbjct: 3 IIITGEPGVGKTTLVKKIVERLGKR 27
>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 = 29.3 bits (65), Expect = 0.26
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 57 ILLYGPPGTGKTLMARQI 74
IL G PG+GK+ AR+
Sbjct: 5 ILTIGCPGSGKSTWAREF 22
>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 = 29.3 bits (65), Expect = 0.26
Identities = 9/33 (27%), Positives = 16/33 (48%), Gaps = 1/33 (3%)
Query: 56 GILLYGPPGTGKTLMARQIGQMLNA-REPKIVN 87
++ G G+GKT + + G+ L + VN
Sbjct: 16 IVVFVGTAGSGKTTLTGEFGRYLEDNYKVAYVN 48
>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 = 29.5 bits (66), Expect = 0.27
Identities = 8/33 (24%), Positives = 16/33 (48%), Gaps = 1/33 (3%)
Query: 55 KGILLYGPPGTGKT-LMARQIGQMLNAREPKIV 86
+ +L+ G GTGK+ L+ L + ++
Sbjct: 54 RHLLVNGATGTGKSVLLRELAYTGLLRGDRMVI 86
>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 = 28.8 bits (65), Expect = 0.29
Identities = 8/27 (29%), Positives = 13/27 (48%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLNAREP 83
+ L G G GKT + R + Q + +
Sbjct: 36 VYLNGDLGAGKTTLTRGMLQGIGHQGN 62
>3co5_A Putative two-component system transcriptional RES regulator;
structural genomics, APC89341.1; 2.40A {Neisseria
gonorrhoeae}
Length = 143
Score = 28.7 bits (65), Expect = 0.33
Identities = 5/18 (27%), Positives = 8/18 (44%)
Query: 57 ILLYGPPGTGKTLMARQI 74
+ L G G+ +AR
Sbjct: 30 VFLTGEAGSPFETVARYF 47
>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 = 29.0 bits (65), Expect = 0.34
Identities = 12/43 (27%), Positives = 17/43 (39%), Gaps = 8/43 (18%)
Query: 40 VFPPEVVEQLGCQHVKG----ILLYGPPGTGKTL----MARQI 74
V L +L YGPPGTGKT + +++
Sbjct: 40 TAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKEL 82
>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann,
hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11
Length = 189
Score = 28.9 bits (64), Expect = 0.35
Identities = 9/31 (29%), Positives = 17/31 (54%)
Query: 55 KGILLYGPPGTGKTLMARQIGQMLNAREPKI 85
+ + L GPPG GKT + + ++L + +
Sbjct: 2 RHVFLTGPPGVGKTTLIHKASEVLKSSGVPV 32
>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 = 28.9 bits (64), Expect = 0.36
Identities = 11/66 (16%), Positives = 28/66 (42%), Gaps = 7/66 (10%)
Query: 55 KGILLYGPPGTGKTLMARQIGQMLNAREP--KIVNGPQVL-----DKYVGESEANVRRLF 107
K +++ G PG G T ++ L K+V+ V+ ++ + +R++
Sbjct: 4 KVVVVTGVPGVGSTTSSQLAMDNLRKEGVNYKMVSFGSVMFEVAKEENLVSDRDQMRKMD 63
Query: 108 ADAEEE 113
+ ++
Sbjct: 64 PETQKR 69
>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 = 29.1 bits (65), Expect = 0.37
Identities = 12/41 (29%), Positives = 16/41 (39%), Gaps = 9/41 (21%)
Query: 43 PEVVEQLGCQHVKG-----ILLYGPPGTGKT----LMARQI 74
E+ L + +LLYGP GTGK + I
Sbjct: 20 EELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESI 60
>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA
degradation, allosteric REGU; HET: ADP 1PE; 2.40A
{Saccharomyces cerevisiae}
Length = 802
Score = 29.1 bits (65), Expect = 0.39
Identities = 19/63 (30%), Positives = 29/63 (46%), Gaps = 7/63 (11%)
Query: 58 LLYGPPGTGKTLM-ARQIGQMLNAREPKI-VNGP-----QVLDKYVGESEANVRRLFADA 110
L+ GPPGTGKT+ A + + + +I V P L + + V RL A +
Sbjct: 379 LIQGPPGTGKTVTSATIVYHLSKIHKDRILVCAPSNVAVDHLAAKLRDLGLKVVRLTAKS 438
Query: 111 EEE 113
E+
Sbjct: 439 RED 441
>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase,
HEL helix motif, transcription regulator; 3.20A
{Streptococcus pneumoniae}
Length = 253
Score = 28.7 bits (63), Expect = 0.46
Identities = 15/50 (30%), Positives = 18/50 (36%), Gaps = 5/50 (10%)
Query: 25 DKEFTAIFRRAFASRVFPPEVVEQLGCQHVKGILLYGPPGTGKTLMARQI 74
D EF R S + +Q ILL G G GKT + R
Sbjct: 8 DSEFKHALARNLRSLTRGKKSSKQP-----IAILLGGQSGAGKTTIHRIK 52
>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 = 28.8 bits (64), Expect = 0.50
Identities = 10/29 (34%), Positives = 15/29 (51%), Gaps = 1/29 (3%)
Query: 58 LLYGPPGTGKTLMARQIG-QMLNAREPKI 85
L+ GPPGTGKT+ + I + +
Sbjct: 375 LIQGPPGTGKTVTSATIVYHLARQGNGPV 403
>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 = 28.5 bits (63), Expect = 0.52
Identities = 8/32 (25%), Positives = 15/32 (46%)
Query: 55 KGILLYGPPGTGKTLMARQIGQMLNAREPKIV 86
+ + GP GTG T + + I + L + +
Sbjct: 46 HHVTINGPAGTGATTLTKFIIEALISTGETGI 77
>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A
{Enterobacteria phage T4} SCOP: c.37.1.1
Length = 181
Score = 28.2 bits (63), Expect = 0.58
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 57 ILLYGPPGTGKTLMARQI 74
IL G PG+GK+ AR+
Sbjct: 5 ILTIGCPGSGKSTWAREF 22
>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function;
HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*
Length = 359
Score = 28.1 bits (62), Expect = 0.60
Identities = 9/33 (27%), Positives = 20/33 (60%)
Query: 52 QHVKGILLYGPPGTGKTLMARQIGQMLNAREPK 84
+ ++L G PG+GK+ +A ++ Q++N +
Sbjct: 22 NYRVCVILVGSPGSGKSTIAEELCQIINEKYHT 54
Score = 25.8 bits (56), Expect = 3.8
Identities = 3/26 (11%), Positives = 8/26 (30%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLNARE 82
+ GT + + +N +
Sbjct: 122 TAVVARGGTANAIRIAAVDNPVNVNK 147
>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 = 28.1 bits (63), Expect = 0.61
Identities = 7/25 (28%), Positives = 13/25 (52%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLNAR 81
I+L GP K+ +A ++ + L
Sbjct: 4 IILEGPDCCFKSTVAAKLSKELKYP 28
>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 = 27.6 bits (62), Expect = 0.79
Identities = 8/23 (34%), Positives = 15/23 (65%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLN 79
+L G PG+GK+ + R++ + L
Sbjct: 5 AVLVGLPGSGKSTIGRRLAKALG 27
>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 = 27.8 bits (62), Expect = 0.80
Identities = 11/44 (25%), Positives = 20/44 (45%), Gaps = 8/44 (18%)
Query: 40 VFPPEVVEQLGCQHVKG----ILLYGPPGTGKTL----MARQIG 75
V E +++L G +++ G PG GKT +A ++
Sbjct: 24 VGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELL 67
>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI,
protein structure initiative; 1.90A {Geobacillus
stearothermophilus} SCOP: c.37.1.6
Length = 201
Score = 27.7 bits (62), Expect = 0.80
Identities = 8/26 (30%), Positives = 13/26 (50%)
Query: 61 GPPGTGKTLMARQIGQMLNAREPKIV 86
G +GKT +A Q+ Q L + +
Sbjct: 29 GLSRSGKTTLANQLSQTLREQGISVC 54
>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 = 27.5 bits (62), Expect = 0.89
Identities = 9/27 (33%), Positives = 19/27 (70%)
Query: 53 HVKGILLYGPPGTGKTLMARQIGQMLN 79
H++ ++L G G+GK+ +A+++G L
Sbjct: 6 HMQHLVLIGFMGSGKSSLAQELGLALK 32
>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 = 27.8 bits (62), Expect = 1.1
Identities = 7/29 (24%), Positives = 15/29 (51%)
Query: 58 LLYGPPGTGKTLMARQIGQMLNAREPKIV 86
+L G PGTGK+ + + + + ++
Sbjct: 208 VLTGGPGTGKSTTTKAVADLAESLGLEVG 236
>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE;
1.57A {Campylobacter jejuni} SCOP: c.37.1.2
Length = 175
Score = 27.1 bits (61), Expect = 1.1
Identities = 9/25 (36%), Positives = 16/25 (64%)
Query: 55 KGILLYGPPGTGKTLMARQIGQMLN 79
K I+ G G+GK+ +AR + + L+
Sbjct: 5 KNIVFIGFMGSGKSTLARALAKDLD 29
>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 = 1.2
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 55 KGILLYGPPGTGKTLMARQIGQMLN 79
+ I L GP G GK+ + RQ+ Q LN
Sbjct: 5 RNIFLVGPMGAGKSTIGRQLAQQLN 29
>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 = 27.4 bits (62), Expect = 1.2
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 57 ILLYGPPGTGKTLMARQI 74
+L+ G G GK ++AR I
Sbjct: 163 VLITGESGVGKEVVARLI 180
>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 = 27.2 bits (60), Expect = 1.3
Identities = 12/60 (20%), Positives = 21/60 (35%)
Query: 24 LDKEFTAIFRRAFASRVFPPEVVEQLGCQHVKGILLYGPPGTGKTLMARQIGQMLNAREP 83
+ + A R A+ F E + I + G GK+ AR + +L +
Sbjct: 60 IHLQVAARQRLFAATAEFLGEPQQNPDRPVPFIIGVAGSVAVGKSTTARVLQALLARWDH 119
>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 = 27.3 bits (59), Expect = 1.3
Identities = 9/31 (29%), Positives = 14/31 (45%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLNAREPKIVN 87
I GP G+GK+ + QI L + +
Sbjct: 34 IFFSGPQGSGKSFTSIQIYNHLMEKYGGEKS 64
>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus,
hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A
Length = 677
Score = 27.6 bits (60), Expect = 1.3
Identities = 10/27 (37%), Positives = 14/27 (51%), Gaps = 2/27 (7%)
Query: 55 KGILLYGPPGTGKTLMARQIGQMLNAR 81
K I GP +GKT A I + +A+
Sbjct: 156 KIIFHSGPTNSGKTYHA--IQKYFSAK 180
>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase
domains, sensor 1, sensor 2, transferase; HET: DNA;
2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*
Length = 250
Score = 27.2 bits (61), Expect = 1.4
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 58 LLYGPPGTGKTLMARQIGQMLN 79
L G G GKT +AR + + LN
Sbjct: 49 LFSGTRGVGKTSIARLLAKGLN 70
>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P,
MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces
cerevisiae}
Length = 307
Score = 27.3 bits (60), Expect = 1.4
Identities = 9/26 (34%), Positives = 14/26 (53%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLNARE 82
+LL G G+GK+ M I +A +
Sbjct: 6 LLLMGRSGSGKSSMRSIIFSNYSAFD 31
>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups,
carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}
Length = 321
Score = 27.3 bits (60), Expect = 1.5
Identities = 6/27 (22%), Positives = 12/27 (44%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLNAREP 83
I + G GK+ +R + +L+
Sbjct: 95 IGIAGSVAVGKSTTSRVLKALLSRWPD 121
>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase,
translation; HET: ADP; 2.05A {Sulfolobus solfataricus}
Length = 538
Score = 27.3 bits (61), Expect = 1.5
Identities = 18/69 (26%), Positives = 29/69 (42%), Gaps = 6/69 (8%)
Query: 56 GILLYGPPGTGKTLMARQIGQMLNAREPKIVNGPQVL----DKYVGESEANVRRLFADAE 111
GIL GP G GKT AR + + A E + Q+L + + V++ +A
Sbjct: 298 GIL--GPNGIGKTTFARILVGEITADEGSVTPEKQILSYKPQRIFPNYDGTVQQYLENAS 355
Query: 112 EEEKRVSHK 120
++ S
Sbjct: 356 KDALSTSSW 364
>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P,
MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces
cerevisiae}
Length = 331
Score = 26.9 bits (59), Expect = 1.6
Identities = 5/26 (19%), Positives = 12/26 (46%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLNARE 82
+LL G GK+ + + + + +
Sbjct: 2 VLLMGVRRCGKSSICKVVFHNMQPLD 27
>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H
RNA-binding helicase, innate immunity, IFIH1, S
genomics; 1.60A {Homo sapiens}
Length = 216
Score = 26.7 bits (59), Expect = 1.7
Identities = 15/57 (26%), Positives = 22/57 (38%), Gaps = 7/57 (12%)
Query: 23 GLDKEFTAIFRRAFASRVFPP-----EVVEQLGCQHVKGILLYGPPGTGKTLMARQI 74
G D + + RA EV + K I++ P G+GKT +A I
Sbjct: 14 GSDSDEENVAARASPEPELQLRPYQMEVAQP--ALEGKNIIICLPTGSGKTRVAVYI 68
>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 = 26.7 bits (60), Expect = 1.8
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 57 ILLYGPPGTGKTLMARQI 74
+L+ G GTGK ++AR I
Sbjct: 155 VLITGESGTGKEIVARLI 172
>3lre_A Kinesin-like protein KIF18A; motor protein, nucleotide binding,
microtubule binding, ATP- cell projection, cytoskeleton,
glycoprotein, microtubule; HET: ADP; 2.20A {Homo
sapiens}
Length = 355
Score = 26.8 bits (60), Expect = 1.9
Identities = 15/75 (20%), Positives = 24/75 (32%), Gaps = 10/75 (13%)
Query: 2 EVQPRQSIISPSFDFNKMGIGGLDKEFTAIFRRAFASRVFPPEVVEQLGCQHVKG----- 56
+ + + + N + D +F F F EV E ++
Sbjct: 48 QEEVSFFHGKKTTNQNVIKKQNKDLKFV--FDAVFDETSTQSEVFEHTTKPILRSFLNGY 105
Query: 57 ---ILLYGPPGTGKT 68
+L YG G GKT
Sbjct: 106 NCTVLAYGATGAGKT 120
>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop
kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex
aeolicus}
Length = 168
Score = 26.7 bits (60), Expect = 1.9
Identities = 7/23 (30%), Positives = 12/23 (52%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLN 79
I L G +GK+ + + + LN
Sbjct: 3 IYLIGFMCSGKSTVGSLLSRSLN 25
>3dc4_A Kinesin-like protein NOD; catalytic domain, ATPase, microtubule,
ADP, nucleotide-binding protein, ATP-binding, coiled
coil, motor protein; HET: ADP; 1.90A {Drosophila
melanogaster} PDB: 3dcb_A* 3dco_N* 3pxn_A*
Length = 344
Score = 26.8 bits (60), Expect = 1.9
Identities = 16/75 (21%), Positives = 26/75 (34%), Gaps = 10/75 (13%)
Query: 2 EVQPRQSIISPSFDFNKMGIGGLDKEFTAIFRRAFASRVFPPEVVEQLGCQHVKG----- 56
+ S++ + + EF F AF + + E+ + L V
Sbjct: 37 LGRREPSVVQFPPWSDGKSLIVDQNEFH--FDHAFPATISQDEMYQALILPLVDKLLEGF 94
Query: 57 ---ILLYGPPGTGKT 68
L YG GTGK+
Sbjct: 95 QCTALAYGQTGTGKS 109
>2cvh_A DNA repair and recombination protein RADB; filament formation,
homologous recombination, ATPase domain,
hyperthermophIle; HET: DNA; 2.20A {Thermococcus
kodakarensis} PDB: 2cvf_A*
Length = 220
Score = 26.8 bits (60), Expect = 2.0
Identities = 9/25 (36%), Positives = 14/25 (56%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLNAR 81
+YGP +GKT +A Q G + +
Sbjct: 23 TQVYGPYASGKTTLALQTGLLSGKK 47
>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A
{Coxiella burnetii}
Length = 185
Score = 26.4 bits (59), Expect = 2.0
Identities = 8/25 (32%), Positives = 12/25 (48%)
Query: 55 KGILLYGPPGTGKTLMARQIGQMLN 79
I L G G GKT + Q+ ++
Sbjct: 6 TNIYLIGLMGAGKTSVGSQLAKLTK 30
>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 = 2.1
Identities = 7/23 (30%), Positives = 12/23 (52%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLN 79
I + G G G T + R++ + L
Sbjct: 5 IFMVGARGCGMTTVGRELARALG 27
>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 = 26.7 bits (59), Expect = 2.2
Identities = 10/30 (33%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 58 LLYGPPGTGKTLMARQI-GQMLNAREPKIV 86
L+ GPPGTGKT+ + I + ++
Sbjct: 199 LIQGPPGTGKTVTSATIVYHLARQGNGPVL 228
>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin
biosynthesis; HET: DST AMP; 2.10A {Agrobacterium
tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A
Length = 253
Score = 26.7 bits (59), Expect = 2.2
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 54 VKGILLYGPPGTGKTLMARQIGQMLNA 80
+ L+YGP +GKT MA QI Q
Sbjct: 1 MLLHLIYGPTCSGKTDMAIQIAQETGW 27
>2vli_A Antibiotic resistance protein; transferase, tunicamycin,
phosphotransferase; 1.95A {Deinococcus radiodurans}
Length = 183
Score = 26.1 bits (57), Expect = 2.5
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 57 ILLYGPPGTGKTLMARQIGQML 78
I + GP G GKT A + + L
Sbjct: 8 IWINGPFGVGKTHTAHTLHERL 29
>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 = 26.5 bits (58), Expect = 2.6
Identities = 7/31 (22%), Positives = 18/31 (58%)
Query: 44 EVVEQLGCQHVKGILLYGPPGTGKTLMARQI 74
+ ++++ + L+G G+GK+++A Q
Sbjct: 142 KKLDEMCDLDSFFLFLHGRAGSGKSVIASQA 172
>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A
{Sulfolobus acidocaldarius} SCOP: c.37.1.1
Length = 194
Score = 26.2 bits (57), Expect = 2.7
Identities = 7/31 (22%), Positives = 17/31 (54%)
Query: 55 KGILLYGPPGTGKTLMARQIGQMLNAREPKI 85
K ++ G PG GK+ + ++ ++L+ +
Sbjct: 2 KIGIVTGIPGVGKSTVLAKVKEILDNQGINN 32
>2vvg_A Kinesin-2; motor protein, nucleotide-binding, microtubule,
ATP-binding; HET: ADP; 1.60A {Giardia intestinalis}
Length = 350
Score = 26.0 bits (58), Expect = 3.1
Identities = 11/78 (14%), Positives = 22/78 (28%), Gaps = 13/78 (16%)
Query: 2 EVQPRQSIIS---PSFDFNKMGIGGLDKEFTAIFRRAFASRVFPPEVVEQLGCQHVKG-- 56
+ + + P + + + + FT F + + + +
Sbjct: 29 RMDEASAQVIVDPPEQEKSATQAKKVPRTFT--FDAVYDQTSCNYGIFQASFKPLIDAVL 86
Query: 57 ------ILLYGPPGTGKT 68
I YG G GKT
Sbjct: 87 EGFNSTIFAYGQTGAGKT 104
>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 = 26.1 bits (58), Expect = 3.2
Identities = 9/25 (36%), Positives = 12/25 (48%)
Query: 55 KGILLYGPPGTGKTLMARQIGQMLN 79
I L G G GKT + + + LN
Sbjct: 26 VRIFLTGYMGAGKTTLGKAFARKLN 50
>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET:
ATP; 2.37A {Humulus lupulus}
Length = 339
Score = 26.0 bits (57), Expect = 3.2
Identities = 8/34 (23%), Positives = 17/34 (50%), Gaps = 3/34 (8%)
Query: 55 KGILLYGPPGTGKTLMARQIGQMLNAREPKIVNG 88
K ++L G GTGK+ ++ + +++N
Sbjct: 41 KLLVLMGATGTGKSRLSIDLAAHFPL---EVINS 71
>1jr3_A DNA polymerase III subunit gamma; processivity, processivity
clamp, clamp loader, AAA+ ATPase, transferase; HET:
DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20
PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*
Length = 373
Score = 26.0 bits (58), Expect = 3.3
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 58 LLYGPPGTGKTLMARQIGQMLN 79
L G G GKT +AR + + LN
Sbjct: 42 LFSGTRGVGKTSIARLLAKGLN 63
>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 = 26.1 bits (57), Expect = 3.4
Identities = 8/23 (34%), Positives = 16/23 (69%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLN 79
I++ G P GKT +++++ + LN
Sbjct: 42 IVMVGLPARGKTYISKKLTRYLN 64
>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 = 26.0 bits (56), Expect = 3.4
Identities = 10/54 (18%), Positives = 18/54 (33%), Gaps = 8/54 (14%)
Query: 26 KEFTAIFRRAFASRVFPPEVVEQLGCQHVKGILLYGPPGTGKTLMARQIGQMLN 79
+ I+ S +V G G G GKT +A+ + ++
Sbjct: 32 EALARIYLNRLLSGAGLSDVNMIYGS--------IGRVGIGKTTLAKFTVKRVS 77
>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation,
ATP-binding, cytoplasm, mitochondrion,
nucleotide-binding, nucleus; 2.95A {Saccharomyces
cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*
Length = 409
Score = 26.1 bits (58), Expect = 3.4
Identities = 11/34 (32%), Positives = 19/34 (55%), Gaps = 3/34 (8%)
Query: 55 KGILLYGPPGTGKTLMARQIGQMLNAREPKIVNG 88
K I++ G G GK+ ++ Q+ Q N E ++N
Sbjct: 3 KVIVIAGTTGVGKSQLSIQLAQKFNG-E--VINS 33
>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A
{Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*
Length = 308
Score = 26.0 bits (57), Expect = 3.7
Identities = 7/27 (25%), Positives = 12/27 (44%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLNAREP 83
I + G GK+ AR + +L+
Sbjct: 83 ISIAGSVAVGKSTTARVLQALLSRWPE 109
>3bos_A Putative DNA replication factor; P-loop containing nucleoside
triphosphate hydrolases, struct genomics; HET: MSE CDP;
1.75A {Shewanella amazonensis} PDB: 3sc3_A
Length = 242
Score = 25.6 bits (57), Expect = 4.0
Identities = 11/50 (22%), Positives = 18/50 (36%), Gaps = 13/50 (26%)
Query: 57 ILLYGPPGTGKT-LM-ARQIGQMLNAREPKIV---------NGPQVLDKY 95
I L+GP +G+T L+ A N E + +L+
Sbjct: 55 IYLWGPVKSGRTHLIHA--ACARANELERRSFYIPLGIHASISTALLEGL 102
>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 = 25.8 bits (57), Expect = 4.0
Identities = 13/26 (50%), Positives = 19/26 (73%)
Query: 55 KGILLYGPPGTGKTLMARQIGQMLNA 80
K IL+ GP G GKT +AR++ ++ NA
Sbjct: 51 KNILMIGPTGVGKTEIARRLAKLANA 76
>2y65_A Kinesin, kinesin heavy chain; motor protein; HET: ADP; 2.20A
{Drosophila melanogaster} PDB: 2y5w_A*
Length = 365
Score = 25.7 bits (57), Expect = 4.2
Identities = 12/70 (17%), Positives = 22/70 (31%), Gaps = 10/70 (14%)
Query: 7 QSIISPSFDFNKMGIGGLDKEFTAIFRRAFASRVFPPEVVEQLGCQHVKG--------IL 58
+ ++ + + I K + F + F +V + V I
Sbjct: 32 KFVVKFPNNVEENCISIAGKVYL--FDKVFKPNASQEKVYNEAAKSIVTDVLAGYNGTIF 89
Query: 59 LYGPPGTGKT 68
YG +GKT
Sbjct: 90 AYGQTSSGKT 99
>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA
binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A
{Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A*
2zuc_A* 2zud_A*
Length = 324
Score = 25.9 bits (57), Expect = 4.2
Identities = 9/30 (30%), Positives = 15/30 (50%), Gaps = 2/30 (6%)
Query: 59 LYGPPGTGKTLMARQIGQMLNAREPKIVNG 88
+G G+GKT + Q+ +N + P G
Sbjct: 112 FFGEFGSGKTQLCHQLS--VNVQLPPEKGG 139
>3ch4_B Pmkase, phosphomevalonate kinase; parallel beta-sheet with the
strand order 23145, walker A motif, cholesterol
biosynthesis, lipid synthesis; 1.76A {Homo sapiens}
Length = 202
Score = 25.7 bits (56), Expect = 4.2
Identities = 11/60 (18%), Positives = 22/60 (36%), Gaps = 1/60 (1%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLNAREPKIVNGPQVLDKYVGESE-ANVRRLFADAEEEEK 115
+L G +GK + + L A ++ L + + N +RL + +E
Sbjct: 14 LLFSGKRKSGKDFVTEALQSRLGADVCAVLRLSGPLKEQYAQEHGLNFQRLLDTSTYKEA 73
>4a14_A Kinesin, kinesin-like protein KIF7; motor protein, motor domain;
HET: ADP; 1.60A {Homo sapiens} PDB: 2xt3_A*
Length = 344
Score = 25.6 bits (57), Expect = 4.3
Identities = 11/52 (21%), Positives = 17/52 (32%), Gaps = 10/52 (19%)
Query: 25 DKEFTAIFRRAFASRVFPPEVVEQLGCQHVKG--------ILLYGPPGTGKT 68
D+ F F A V + ++ + YG G+GKT
Sbjct: 49 DRHFG--FHVVLAEDAGQEAVYQACVQPLLEAFFEGFNATVFAYGQTGSGKT 98
>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 = 25.7 bits (57), Expect = 4.4
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 58 LLYGPPGTGKTLMARQIGQML 78
L GP G GKT + Q+ + L
Sbjct: 492 LFAGPTGVGKTEVTVQLSKAL 512
>2kjq_A DNAA-related protein; solution structure, NESG, structural
genomics, PSI-2, protei structure initiative; NMR
{Neisseria meningitidis serogroup B}
Length = 149
Score = 25.3 bits (56), Expect = 4.5
Identities = 7/44 (15%), Positives = 13/44 (29%), Gaps = 6/44 (13%)
Query: 57 ILLYGPPGTGKT-LMARQIGQMLNAREPKIV----NGPQVLDKY 95
I ++G G GK+ L+ + + D
Sbjct: 39 IYVWGEEGAGKSHLL-QAWVAQALEAGKNAAYIDAASMPLTDAA 81
>2bjv_A PSP operon transcriptional activator; AAA, transcription
activation, gene regulation, sigma54 activator,
enhancer binding protein, PSPF; 1.7A {Escherichia coli}
PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*
Length = 265
Score = 25.6 bits (57), Expect = 4.5
Identities = 8/18 (44%), Positives = 13/18 (72%)
Query: 57 ILLYGPPGTGKTLMARQI 74
+L+ G GTGK L+A ++
Sbjct: 32 VLIIGERGTGKELIASRL 49
>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 = 25.8 bits (56), Expect = 4.8
Identities = 8/23 (34%), Positives = 16/23 (69%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLN 79
I++ G P GKT +++++ + LN
Sbjct: 38 IVMVGLPARGKTYISKKLTRYLN 60
>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis,
hydrolyase/translation complex; HET: ADP; 1.90A
{Pyrococcus furiosus}
Length = 538
Score = 25.7 bits (57), Expect = 4.8
Identities = 16/62 (25%), Positives = 25/62 (40%), Gaps = 5/62 (8%)
Query: 56 GILLYGPPGTGKTLMARQIGQMLNAREPKIVNGPQVL--DKYVGES-EANVRRLFADAEE 112
GI+ GP G GKT + + + E KI V +Y+ E V L + +
Sbjct: 316 GIV--GPNGIGKTTFVKMLAGVEEPTEGKIEWDLTVAYKPQYIKADYEGTVYELLSKIDA 373
Query: 113 EE 114
+
Sbjct: 374 SK 375
>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 = 25.5 bits (57), Expect = 4.8
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 57 ILLYGPPGTGKTLMARQI 74
+L++G GTGK L+AR +
Sbjct: 28 VLIHGDSGTGKELVARAL 45
>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and
beta protein; HET: GSP; 1.90A {Methanocaldococcus
jannaschii} PDB: 2hf8_A*
Length = 226
Score = 25.3 bits (56), Expect = 5.3
Identities = 8/27 (29%), Positives = 14/27 (51%), Gaps = 4/27 (14%)
Query: 55 KGIL---LYGPPGTGKT-LMARQIGQM 77
G++ G G+GKT L+ + I +
Sbjct: 36 HGVVAFDFMGAIGSGKTLLIEKLIDNL 62
>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding
protein, ring protein, octamer, AAA ATPase; 3.20A {Homo
sapiens} SCOP: c.37.1.11 PDB: 2zjb_A
Length = 343
Score = 25.6 bits (56), Expect = 5.5
Identities = 7/30 (23%), Positives = 13/30 (43%), Gaps = 2/30 (6%)
Query: 59 LYGPPGTGKTLMARQIGQMLNAREPKIVNG 88
+G TGKT ++ + + A+ P
Sbjct: 127 AFGEFRTGKTQLSHTLC--VTAQLPGAGGY 154
>3bfn_A Kinesin-like protein KIF22; limited proteolysis, structural
genomics consortium domain, ADP, SGC, ATP-binding,
DNA-binding, microtubule, MO protein; HET: ADP; 2.30A
{Homo sapiens}
Length = 388
Score = 25.3 bits (56), Expect = 5.5
Identities = 10/52 (19%), Positives = 18/52 (34%), Gaps = 10/52 (19%)
Query: 25 DKEFTAIFRRAFASRVFPPEVVEQLGCQHVKGILL--------YGPPGTGKT 68
++ F + R ++ ++ +L YGP G GKT
Sbjct: 64 TLKYQ--FDAFYGERSTQQDIYAGSVQPILRHLLEGQNASVLAYGPTGAGKT 113
>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding
protein; 2.30A {Archaeoglobus fulgidus}
Length = 221
Score = 25.3 bits (56), Expect = 6.0
Identities = 8/18 (44%), Positives = 12/18 (66%), Gaps = 1/18 (5%)
Query: 61 GPPGTGKT-LMARQIGQM 77
G G+GKT L+ R I ++
Sbjct: 37 GAIGSGKTLLIERTIERI 54
>1miw_A TRNA CCA-adding enzyme; tRNA nucleotidyltransferase, translation,
transferase; HET: ATP; 3.00A {Geobacillus
stearothermophilus} SCOP: a.173.1.1 d.218.1.4 PDB:
1miv_A* 1miy_A*
Length = 404
Score = 25.4 bits (56), Expect = 6.1
Identities = 8/37 (21%), Positives = 15/37 (40%), Gaps = 7/37 (18%)
Query: 65 TGKTLMA-------RQIGQMLNAREPKIVNGPQVLDK 94
GK ++ + + L+A +VNG +K
Sbjct: 350 NGKDVIEWVGKPAGPWVKEALDAIWRAVVNGEVENEK 386
>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric
ring, heptamer, ring, oligomer, RAD51 polymerizat motif;
HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1
c.37.1.11
Length = 349
Score = 25.4 bits (55), Expect = 6.1
Identities = 6/16 (37%), Positives = 11/16 (68%)
Query: 59 LYGPPGTGKTLMARQI 74
++G G+GKT +A +
Sbjct: 136 VFGEFGSGKTQLAHTL 151
>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET:
AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1
Length = 222
Score = 25.2 bits (56), Expect = 6.3
Identities = 5/23 (21%), Positives = 9/23 (39%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLN 79
+++ G P +GK I
Sbjct: 8 VMISGAPASGKGTQCELIKTKYQ 30
>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication,
DNA repair, DNA recombina hydrolase; 2.90A {Pyrococcus
furiosus} SCOP: c.37.1.19 c.37.1.19
Length = 494
Score = 25.1 bits (54), Expect = 6.8
Identities = 10/31 (32%), Positives = 14/31 (45%), Gaps = 1/31 (3%)
Query: 57 ILLYGPPGTGKTLMARQ-IGQMLNAREPKIV 86
L+ P G GKTL+A L K++
Sbjct: 26 CLIVLPTGLGKTLIAMMIAEYRLTKYGGKVL 56
>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase;
HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A*
3l0p_A*
Length = 223
Score = 24.9 bits (55), Expect = 7.1
Identities = 7/23 (30%), Positives = 12/23 (52%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLN 79
IL++GP G+GK + +
Sbjct: 3 ILIFGPNGSGKGTQGNLVKDKYS 25
>3ga4_A Dolichyl-diphosphooligosaccharide-protein glycosyltransferase
subunit OST6; oxidoreductase, active site loop, redox
state, membrane; HET: PG4; 1.30A {Saccharomyces
cerevisiae} PDB: 3g7y_A 3g9b_A*
Length = 178
Score = 25.0 bits (54), Expect = 7.3
Identities = 8/25 (32%), Positives = 16/25 (64%)
Query: 43 PEVVEQLGCQHVKGILLYGPPGTGK 67
P++V+ L Q+V +++Y P + K
Sbjct: 93 PQLVKDLKLQNVPHLVVYPPAESNK 117
>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination,
ATP-binding, cytoplasm, metal-binding, nucleotide
biosynthesis, nucleotide-binding; HET: AP5; 1.58A
{Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A*
2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A*
1zip_A* 1s3g_A*
Length = 216
Score = 24.8 bits (55), Expect = 7.4
Identities = 7/23 (30%), Positives = 11/23 (47%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLN 79
++L G PG GK +I +
Sbjct: 3 LVLMGLPGAGKGTQGERIVEKYG 25
>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 = 25.2 bits (55), Expect = 7.5
Identities = 6/20 (30%), Positives = 13/20 (65%)
Query: 57 ILLYGPPGTGKTLMARQIGQ 76
+ +YG G GK+++A + +
Sbjct: 150 VTIYGMAGCGKSVLAAEAVR 169
>1x88_A Kinesin-like protein KIF11; switch II, motor domain, NECK linker,
cell cycle; HET: ADP NAT; 1.80A {Homo sapiens} SCOP:
c.37.1.9 PDB: 3hqd_A* 3ken_A* 2pg2_A* 1yrs_A* 2fme_A*
2g1q_A* 2gm1_A* 1ii6_A* 2uyi_A* 2uym_A* 2wog_A* 2x2r_A*
2x7c_A* 2x7d_A* 2x7e_A* 2xae_A* 3k3b_A* 3k5e_A* 3l9h_A*
1q0b_A* ...
Length = 359
Score = 24.8 bits (55), Expect = 7.6
Identities = 16/75 (21%), Positives = 27/75 (36%), Gaps = 12/75 (16%)
Query: 2 EVQPRQSIISPSFDFNKMGIGGLDKEFTAIFRRAFASRVFPPEVVEQLGCQHVKGILL-- 59
E P + +S + K +T F F + +V + C + +++
Sbjct: 33 ECDPVRKEVSVRT--GGLADKSSRKTYT--FDMVFGASTKQIDVYRSVVCPILDEVIMGY 88
Query: 60 ------YGPPGTGKT 68
YG GTGKT
Sbjct: 89 NCTIFAYGQTGTGKT 103
>3llu_A RAS-related GTP-binding protein C; structural genomics
consortium, SGC, cytoplasm, nucleotide-binding,
nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens}
PDB: 2q3f_A*
Length = 196
Score = 24.9 bits (54), Expect = 7.7
Identities = 7/26 (26%), Positives = 14/26 (53%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLNARE 82
ILL G +GK+ + + + ++ E
Sbjct: 23 ILLMGLRRSGKSSIQKVVFHKMSPNE 48
>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding,
nucleotide-binding, transferase; HET: AP5; 2.00A
{Marinibacillus marinus}
Length = 216
Score = 24.8 bits (55), Expect = 7.8
Identities = 10/23 (43%), Positives = 12/23 (52%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLN 79
I+L G PG GK A QI +
Sbjct: 3 IVLMGLPGAGKGTQAEQIIEKYE 25
>1goj_A Kinesin, kinesin heavy chain; motor protein, ATPase; HET: ADP;
2.3A {Neurospora crassa} SCOP: c.37.1.9
Length = 355
Score = 24.8 bits (55), Expect = 7.8
Identities = 13/52 (25%), Positives = 17/52 (32%), Gaps = 10/52 (19%)
Query: 25 DKEFTAIFRRAFASRVFPPEVVEQLGCQHVKGILL--------YGPPGTGKT 68
FT F R F ++ + V IL YG G GK+
Sbjct: 46 QGSFT--FDRVFDMSCKQSDIFDFSIKPTVDDILNGYNGTVFAYGQTGAGKS 95
>1vfg_A A-adding enzyme, poly A polymerase; transferase, RNA, riken
structural genomics/proteomics initiative, RSGI,
structural genomics; HET: APC; 2.80A {Aquifex aeolicus}
SCOP: a.173.1.1 d.218.1.4
Length = 390
Score = 25.1 bits (55), Expect = 8.2
Identities = 4/30 (13%), Positives = 13/30 (43%), Gaps = 5/30 (16%)
Query: 65 TGKTLMAR-----QIGQMLNAREPKIVNGP 89
+ L + ++G+ + + +I+N
Sbjct: 354 KIEELKKQGLKGKELGERIEELKREIMNKI 383
>2lc0_A Putative uncharacterized protein TB39.8; FHAA, kinase substrate,
protein binding; NMR {Mycobacterium tuberculosis}
Length = 132
Score = 24.4 bits (53), Expect = 8.6
Identities = 8/38 (21%), Positives = 14/38 (36%), Gaps = 5/38 (13%)
Query: 17 NKMGI-----GGLDKEFTAIFRRAFASRVFPPEVVEQL 49
++ + L++ F R F + P EV L
Sbjct: 3 SQKRLVQRVERKLEQTVGDAFARIFGGSIVPQEVEALL 40
>3gbj_A KIF13B protein; kinesin, motor domain, ADP, structural genomics,
structural genomics consortium, SGC, ATP-binding,
microtubule, motor protein; HET: ADP; 2.10A {Homo
sapiens}
Length = 354
Score = 24.8 bits (55), Expect = 8.8
Identities = 18/84 (21%), Positives = 31/84 (36%), Gaps = 19/84 (22%)
Query: 2 EVQPRQSIISP-SFDFNKMGIGGLDKEFTAIFRRAFASRVFPP--------EVVEQLGCQ 52
+V + I++P + + +K G K F + F S V + LG
Sbjct: 26 DVDANKVILNPVNTNLSKGDARGQPKVFA--YDHCFWSMDESVKEKYAGQDIVFKCLGEN 83
Query: 53 HVKG--------ILLYGPPGTGKT 68
++ I YG G+GK+
Sbjct: 84 ILQNAFDGYNACIFAYGQTGSGKS 107
>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5;
1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB:
1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*
Length = 214
Score = 24.4 bits (54), Expect = 9.4
Identities = 8/23 (34%), Positives = 11/23 (47%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLN 79
I+L G P GK A+ I +
Sbjct: 3 IILLGAPVAGKGTQAQFIMEKYG 25
>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase,
shikimat ATP binding, chloroplast, transferase; 2.35A
{Arabidopsis thaliana}
Length = 250
Score = 24.7 bits (54), Expect = 9.5
Identities = 7/25 (28%), Positives = 14/25 (56%)
Query: 55 KGILLYGPPGTGKTLMARQIGQMLN 79
+ + L G G+GKT + + + + L
Sbjct: 49 RSMYLVGMMGSGKTTVGKIMARSLG 73
>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P;
2.25A {Thermus thermophilus} PDB: 3asy_A*
Length = 211
Score = 24.5 bits (54), Expect = 9.8
Identities = 8/25 (32%), Positives = 14/25 (56%)
Query: 57 ILLYGPPGTGKTLMARQIGQMLNAR 81
I + G +GKT +A+ + + L R
Sbjct: 9 IGIAGGTASGKTTLAQALARTLGER 33
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
0.319 0.138 0.405
Gapped
Lambda K H
0.267 0.0763 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,878,421
Number of extensions: 107020
Number of successful extensions: 546
Number of sequences better than 10.0: 1
Number of HSP's gapped: 530
Number of HSP's successfully gapped: 218
Length of query: 121
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 39
Effective length of database: 4,412,271
Effective search space: 172078569
Effective search space used: 172078569
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: 51 (23.4 bits)