RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7782
(225 letters)
>3h43_A Proteasome-activating nucleotidase; regulatory particle,
nucleosidase, ATP-binding, cytoplasm,
nucleotide-binding, hydrolase; 2.10A {Methanocaldococcus
jannaschii}
Length = 85
Score = 100 bits (250), Expect = 8e-28
Identities = 26/82 (31%), Positives = 42/82 (51%)
Query: 143 EKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCS 202
++NE R +D +R P+ VGT+ + + + +V +S G V++ FV+ D L PG
Sbjct: 2 KENEILRRELDRMRVPPLIVGTVVDKVGERKVVVKSSTGPSFLVNVSHFVNPDDLAPGKR 61
Query: 203 VLLNHKVHAVVGVLSDDTDPMV 224
V LN + VV VL +
Sbjct: 62 VCLNQQTLTVVDVLPELEHHHH 83
>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding,
nucleotide-binding, HY; HET: ADP; 3.11A
{Methanocaldococcus jannaschii}
Length = 285
Score = 101 bits (255), Expect = 2e-26
Identities = 32/45 (71%), Positives = 41/45 (91%)
Query: 3 LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
L+ Q+QEI+E VELPL HPE +E++GI+PPKG++LYGPPGTGKTL
Sbjct: 22 LEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTL 66
>2wg5_A General control protein GCN4, proteasome-activating nucleotidase;
transcription hydrolase complex, nucleotide-binding;
2.10A {Saccharomyces cerevisiae} PDB: 2wg6_A
Length = 109
Score = 93.4 bits (232), Expect = 7e-25
Identities = 28/99 (28%), Positives = 53/99 (53%)
Query: 127 MEEEFIRNQERLKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYV 186
+ +++++ KN + V LR P+ VG + +I++D +V +S G + V
Sbjct: 5 HHHRMKQLEDKVEELLSKNYHLENEVARLRSPPLLVGVVSDILEDGRVVVKSSTGPKFVV 64
Query: 187 SILSFVDKDQLEPGCSVLLNHKVHAVVGVLSDDTDPMVT 225
+ ++++++L+PG V LN + A+V VL DPMV
Sbjct: 65 NTSQYINEEELKPGARVALNQQTLAIVNVLPTSKDPMVY 103
>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 = 83.7 bits (207), Expect = 5e-19
Identities = 27/45 (60%), Positives = 36/45 (80%)
Query: 3 LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
Q+ +IKE VELPL HP ++ +G+KPP+G++LYGPPGTGKTL
Sbjct: 209 CRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTL 253
>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 = 81.9 bits (203), Expect = 9e-19
Identities = 20/40 (50%), Positives = 30/40 (75%)
Query: 8 QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
+E++E V+ P+ HP+ + + G+ P KGV+ YGPPG GKTL
Sbjct: 25 RELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTL 64
>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A
{Homo sapiens}
Length = 274
Score = 80.7 bits (200), Expect = 1e-18
Identities = 16/40 (40%), Positives = 28/40 (70%)
Query: 8 QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
+E+ ++ P+ +P+ ++ +G+ P GV+L GPPG GKTL
Sbjct: 20 EELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTL 59
>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 = 79.8 bits (197), Expect = 2e-17
Identities = 21/45 (46%), Positives = 32/45 (71%)
Query: 3 LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
L+ +E++E V+ P+ HP+ + + G+ P KGV+ YGPPG GKTL
Sbjct: 482 LEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTL 526
Score = 75.6 bits (186), Expect = 4e-16
Identities = 27/45 (60%), Positives = 36/45 (80%)
Query: 3 LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
Q+ +IKE VELPL HP ++ +G+KPP+G++LYGPPGTGKTL
Sbjct: 209 CRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTL 253
Score = 39.0 bits (91), Expect = 9e-04
Identities = 5/38 (13%), Positives = 10/38 (26%)
Query: 8 QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGK 45
Q +++S + G P +G
Sbjct: 760 QTLQQSRGFGSFRFPSGNQGGAGPSQGSGGGTGGSVYT 797
>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 = 73.7 bits (180), Expect = 5e-16
Identities = 24/99 (24%), Positives = 38/99 (38%), Gaps = 1/99 (1%)
Query: 127 MEEEFIRNQERLKPQEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYV 186
+ + E LK ++ R VD L P G L DD+ V TS G + +
Sbjct: 66 LAARNSKLMETLKEARQQLLALREEVDRLGQPPSGYGVLLATHDDDTVDVFTS-GRKMRL 124
Query: 187 SILSFVDKDQLEPGCSVLLNHKVHAVVGVLSDDTDPMVT 225
+ +D L+ G +V LN + V + + T
Sbjct: 125 TCSPNIDAASLKKGQTVRLNEALTVVEAGTFEAVGEIST 163
>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding,
nucleotide-binding, hydrolase; 2.70A {Drosophila
melanogaster}
Length = 297
Score = 66.6 bits (163), Expect = 2e-13
Identities = 21/45 (46%), Positives = 28/45 (62%), Gaps = 1/45 (2%)
Query: 3 LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
DV Q ++E V LP PE + + P KG++L+GPPG GKTL
Sbjct: 26 QDVAKQALQEMVILPSVRPELFTGLR-APAKGLLLFGPPGNGKTL 69
>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 = 65.8 bits (161), Expect = 5e-13
Identities = 19/45 (42%), Positives = 29/45 (64%), Gaps = 1/45 (2%)
Query: 3 LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
L+ + +KE+V LP+ P ++ KP G++LYGPPGTGK+
Sbjct: 23 LEGAKEALKEAVILPVKFPHLFK-GNRKPTSGILLYGPPGTGKSY 66
>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo
sapiens}
Length = 322
Score = 65.1 bits (159), Expect = 9e-13
Identities = 17/45 (37%), Positives = 28/45 (62%), Gaps = 1/45 (2%)
Query: 3 LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
L+ + +KE+V LP+ P + P +G++L+GPPGTGK+
Sbjct: 17 LEGAKEALKEAVILPIKFPHLFTGK-RTPWRGILLFGPPGTGKSY 60
>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 = 65.2 bits (159), Expect = 1e-12
Identities = 20/45 (44%), Positives = 29/45 (64%), Gaps = 1/45 (2%)
Query: 3 LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
++ IKE V P+ P+ + + PPKG++L+GPPGTGKTL
Sbjct: 89 VEFAKATIKEIVVWPMLRPDIFTGLR-GPPKGILLFGPPGTGKTL 132
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo
sapiens}
Length = 389
Score = 64.9 bits (158), Expect = 1e-12
Identities = 18/45 (40%), Positives = 28/45 (62%), Gaps = 1/45 (2%)
Query: 3 LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
D+ Q ++E V LP PE + + P +G++L+GPPG GKT+
Sbjct: 120 QDLAKQALQEIVILPSLRPELFTGLR-APARGLLLFGPPGNGKTM 163
>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 = 59.6 bits (145), Expect = 6e-11
Identities = 20/40 (50%), Positives = 27/40 (67%), Gaps = 1/40 (2%)
Query: 8 QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
E++E V+ L PE + ++G K PKG +L GPPG GKTL
Sbjct: 16 LEVREFVDY-LKSPERFLQLGAKVPKGALLLGPPGCGKTL 54
>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 = 58.6 bits (142), Expect = 1e-10
Identities = 11/45 (24%), Positives = 19/45 (42%), Gaps = 3/45 (6%)
Query: 3 LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
+ + + EL + + + P V+L GPP +GKT
Sbjct: 38 WGDPVTRVLDDGELLVQQTKNSDR---TPLVSVLLEGPPHSGKTA 79
>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 = 57.3 bits (139), Expect = 4e-10
Identities = 23/40 (57%), Positives = 29/40 (72%), Gaps = 1/40 (2%)
Query: 8 QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
+E+ E V+ L +PE Y +G K PKGV+L GPPGTGKTL
Sbjct: 21 EEVVEIVDF-LKYPERYANLGAKIPKGVLLVGPPGTGKTL 59
>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 = 57.7 bits (139), Expect = 5e-10
Identities = 17/45 (37%), Positives = 28/45 (62%), Gaps = 1/45 (2%)
Query: 3 LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
L+ + +KE+V LP+ P + P +G++L+GPPGTGK+
Sbjct: 139 LEGAKEALKEAVILPIKFPHLFTGK-RTPWRGILLFGPPGTGKSY 182
>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 = 57.2 bits (138), Expect = 6e-10
Identities = 19/45 (42%), Positives = 29/45 (64%), Gaps = 1/45 (2%)
Query: 3 LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
L+ + +KE+V LP+ P ++ KP G++LYGPPGTGK+
Sbjct: 56 LEGAKEALKEAVILPVKFPHLFK-GNRKPTSGILLYGPPGTGKSY 99
>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
3.20A {Thermus thermophilus} SCOP: c.37.1.20
Length = 278
Score = 56.6 bits (137), Expect = 7e-10
Identities = 22/45 (48%), Positives = 29/45 (64%), Gaps = 1/45 (2%)
Query: 3 LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
+ +E+KE VE L +P + EMG + PKGV+L GPPG GKT
Sbjct: 45 AEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTH 88
>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET:
ADP; 3.90A {Thermus thermophilus}
Length = 499
Score = 56.8 bits (138), Expect = 1e-09
Identities = 22/40 (55%), Positives = 28/40 (70%), Gaps = 1/40 (2%)
Query: 8 QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
+E+KE VE L +P + EMG + PKGV+L GPPG GKT
Sbjct: 41 EELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTH 79
>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 = 55.8 bits (135), Expect = 1e-09
Identities = 22/45 (48%), Positives = 29/45 (64%), Gaps = 1/45 (2%)
Query: 3 LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
+ +E+KE VE L +P + EMG + PKGV+L GPPG GKT
Sbjct: 21 AEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTH 64
>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 = 56.4 bits (137), Expect = 1e-09
Identities = 21/40 (52%), Positives = 28/40 (70%), Gaps = 1/40 (2%)
Query: 8 QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
+E+KE VE L P + +G + PKG++L GPPGTGKTL
Sbjct: 26 EELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGKTL 64
>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A
{Escherichia coli} SCOP: c.37.1.20
Length = 257
Score = 55.8 bits (135), Expect = 1e-09
Identities = 21/40 (52%), Positives = 29/40 (72%), Gaps = 1/40 (2%)
Query: 8 QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
+E+ E VE L P ++++G K PKGV++ GPPGTGKTL
Sbjct: 22 EEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTL 60
>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic;
photosynthesis, rubisco activase, AAA+ protein; 2.95A
{Nicotiana tabacum} PDB: 3zw6_A
Length = 293
Score = 56.0 bits (135), Expect = 1e-09
Identities = 8/46 (17%), Positives = 19/46 (41%), Gaps = 4/46 (8%)
Query: 3 LDVQIQEIKESVELPLTHPE-YYEEMGIKPPKGVILYGPPGTGKTL 47
+ + + L + + + + IK P + ++G G GK+
Sbjct: 9 FYIAPAFMDK---LVVHITKNFLKLPNIKVPLILGIWGGKGQGKSF 51
>2wfw_A ARC; ATP-binding protein, proteasomal atpases, PAN, AAA,
ATP-binding, nucleotide-binding; 1.60A {Rhodococcus
erythropolis} PDB: 3fp9_A
Length = 153
Score = 49.6 bits (118), Expect = 5e-08
Identities = 19/73 (26%), Positives = 29/73 (39%), Gaps = 1/73 (1%)
Query: 153 DDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCSVLLNHKVHAV 212
D L P G L + +D V TS G + ++ +D D L G +V LN + V
Sbjct: 1 DRLGQPPSGYGVLLSVHEDKTVDVFTS-GRKMRLTCSPNIDTDTLALGQTVRLNEALTIV 59
Query: 213 VGVLSDDTDPMVT 225
+ + T
Sbjct: 60 EAGTYEQVGEIST 72
>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 = 44.8 bits (105), Expect = 1e-05
Identities = 40/285 (14%), Positives = 77/285 (27%), Gaps = 85/285 (29%)
Query: 16 LPLTHPEYYEE-----MGIKPPKGVILYGPPGTGKT---------LPFSPALGYHYY--- 58
++ + Y + + ++P K V++ G G+GKT + + +
Sbjct: 129 YNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLN 188
Query: 59 ---CRGAGS----------NSDKKDDKDKKKKYEPPIPTRVGKKKRK-----AKGPDAAI 100
C + D + + + + + +
Sbjct: 189 LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLL 248
Query: 101 KLPQV-TPHT------KCRLKLLKLER---IKDYLLMEEEFIRNQERLKPQEEKNEEER- 149
L V C K+L R + D+L + + +E +
Sbjct: 249 VLLNVQNAKAWNAFNLSC--KILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSL 306
Query: 150 ------SRVDDLR-----GTPMSVGTLEEIIDDNHAIVSTSVGSEHYVS------ILSFV 192
R DL P + + E I D A T +H I S +
Sbjct: 307 LLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLA---TWDNWKHVNCDKLTTIIESSL 363
Query: 193 DKDQLEPG--------CSVLLNHKVH---AVVGVL---SDDTDPM 223
+ LEP SV H ++ ++ +D M
Sbjct: 364 --NVLEPAEYRKMFDRLSVFPPS-AHIPTILLSLIWFDVIKSDVM 405
Score = 26.4 bits (57), Expect = 9.7
Identities = 31/256 (12%), Positives = 69/256 (26%), Gaps = 75/256 (29%)
Query: 10 IKESVEL--PLTHPEYYEEMGIKP-----PKGV--ILYGPPGT-----------GKTL-- 47
I+ S+ + P + + ++ + + P P + +++ +L
Sbjct: 359 IESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVE 418
Query: 48 --PFSPALGYH-YYCRGAGSNSDKKDDKDKK--KKYEPPIPTRVGKKKRKAKGPDAAIKL 102
P + Y ++ + Y P K D I
Sbjct: 419 KQPKESTISIPSIYLELKVKLENEY-ALHRSIVDHYNIP----------KTFDSDDLIPP 467
Query: 103 PQ-------VTPHTKCRLKLLKLERIKDYLLMEE-----EFIRNQERLKPQEEKNEEERS 150
+ H L +E + L F+ +++ S
Sbjct: 468 YLDQYFYSHIGHH------LKNIEHPERMTLFRMVFLDFRFLEQ--KIRHDSTAWNASGS 519
Query: 151 RVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVDKDQLEPGCS-VLLNHKV 209
++ L + + I DN V +IL F+ P L+ K
Sbjct: 520 ILNTL----QQLKFYKPYICDNDPKYERLVN-----AILDFL------PKIEENLICSKY 564
Query: 210 HAVVGV-LSDDTDPMV 224
++ + L + + +
Sbjct: 565 TDLLRIALMAEDEAIF 580
>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 = 38.5 bits (90), Expect = 5e-04
Identities = 8/25 (32%), Positives = 11/25 (44%)
Query: 22 EYYEEMGIKPPKGVILYGPPGTGKT 46
+ + KG+ G PG GKT
Sbjct: 28 VFVHNFNPEEGKGLTFVGSPGVGKT 52
>3pvs_A Replication-associated recombination protein A; maintenance of
genome stability Pro recombination; 2.50A {Escherichia
coli}
Length = 447
Score = 36.0 bits (84), Expect = 0.007
Identities = 10/12 (83%), Positives = 12/12 (100%)
Query: 35 VILYGPPGTGKT 46
+IL+GPPGTGKT
Sbjct: 53 MILWGPPGTGKT 64
>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 = 36.0 bits (83), Expect = 0.008
Identities = 9/14 (64%), Positives = 11/14 (78%)
Query: 33 KGVILYGPPGTGKT 46
+ +LYGPPG GKT
Sbjct: 78 RAAMLYGPPGIGKT 91
>2qgz_A Helicase loader, putative primosome component; structural genomics,
PSI-2, protein structure initiative; 2.40A
{Streptococcus pyogenes serotype M3}
Length = 308
Score = 35.6 bits (82), Expect = 0.010
Identities = 9/25 (36%), Positives = 14/25 (56%)
Query: 22 EYYEEMGIKPPKGVILYGPPGTGKT 46
++ E+ KG+ LYG G GK+
Sbjct: 142 DFVEQYPSAEQKGLYLYGDMGIGKS 166
>2w58_A DNAI, primosome component (helicase loader); ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.50A
{Geobacillus kaustophilus HTA426}
Length = 202
Score = 34.3 bits (79), Expect = 0.015
Identities = 9/18 (50%), Positives = 11/18 (61%)
Query: 29 IKPPKGVILYGPPGTGKT 46
K KG+ L+G G GKT
Sbjct: 51 GKKMKGLYLHGSFGVGKT 68
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 32.4 bits (73), Expect = 0.066
Identities = 8/31 (25%), Positives = 14/31 (45%), Gaps = 2/31 (6%)
Query: 128 EEEFIR--NQERLKPQEEKNEEERSRVDDLR 156
E E IR +E+ K +E + + + R
Sbjct: 83 EPESIRKWREEQRKRLQELDAASKVMEQEWR 113
>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 = 32.2 bits (73), Expect = 0.087
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 28 GIKPPKGVILYGPPGTGKT 46
G++ P +I+ G P TGKT
Sbjct: 1 GMQTPALIIVTGHPATGKT 19
>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1;
winged-helix domain, helix-turn-helix, AAA+ ATPase
domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A
{Sulfolobus solfataricus}
Length = 386
Score = 32.7 bits (74), Expect = 0.088
Identities = 11/44 (25%), Positives = 18/44 (40%), Gaps = 9/44 (20%)
Query: 4 DVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
+ QI++I + + P + +YG GTGKT
Sbjct: 26 EDQIRKIASILAPLYREEK---------PNNIFIYGLTGTGKTA 60
>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 = 32.2 bits (74), Expect = 0.094
Identities = 8/11 (72%), Positives = 9/11 (81%)
Query: 36 ILYGPPGTGKT 46
+ GPPGTGKT
Sbjct: 42 LFSGPPGTGKT 52
>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 = 32.3 bits (74), Expect = 0.097
Identities = 8/11 (72%), Positives = 9/11 (81%)
Query: 36 ILYGPPGTGKT 46
+ GPPGTGKT
Sbjct: 42 LFSGPPGTGKT 52
>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 = 32.5 bits (74), Expect = 0.11
Identities = 36/162 (22%), Positives = 60/162 (37%), Gaps = 43/162 (26%)
Query: 35 VILYGPPGTGKTLPFSPALGYHYYCRG-------AGSNS--DKKDDKDKKKKYEPPIPTR 85
++ GPPGTGKT+ + + YH +G A SN D+ +K + + R
Sbjct: 198 SLIQGPPGTGKTVTSA-TIVYHLARQGNGPVLVCAPSNIAVDQLTEKIHQTGLK---VVR 253
Query: 86 VGKKKRKAKGPDAAIKLPQVTPHTKCRL-----KLLKLERIKDYLLMEEEFIRNQERLKP 140
+ K R+A + + H + R +L KL+++KD L
Sbjct: 254 LCAKSREAI----DSPVSFLALHNQIRNMDSMPELQKLQQLKDET----------GELSS 299
Query: 141 QEEKNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGS 182
+EK R E++ + I T VG+
Sbjct: 300 ADEKRYRALKR-----------TAERELLMNADVICCTCVGA 330
>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 = 32.6 bits (74), Expect = 0.11
Identities = 29/157 (18%), Positives = 59/157 (37%), Gaps = 33/157 (21%)
Query: 35 VILYGPPGTGKTLPFSPALGYHYYCRG-------AGSNS--DKKDDKDKKKKYEPPIPTR 85
++ GPPGTGKT+ + + YH +G A SN D+ +K + + R
Sbjct: 374 SLIQGPPGTGKTVTSA-TIVYHLARQGNGPVLVCAPSNIAVDQLTEKIHQTGLK---VVR 429
Query: 86 VGKKKRKAKGPDAAIKLPQVTPHTKCRLKLLKLERIKDYLLMEEEFIRNQERLKPQEEKN 145
+ K R+A + + H + R ++ + + +++ E E++
Sbjct: 430 LCAKSREAI----DSPVSFLALHNQIR----NMDSMPELQKLQQLKDETGELSSADEKRY 481
Query: 146 EEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGS 182
+ + E++ + I T VG+
Sbjct: 482 RALKRTAER------------ELLMNADVICCTCVGA 506
>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 = 32.1 bits (72), Expect = 0.13
Identities = 12/44 (27%), Positives = 19/44 (43%), Gaps = 7/44 (15%)
Query: 4 DVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
+ Q+Q++ + L +P L G PGTGKT+
Sbjct: 23 EQQLQQLDILLGNWLRNPG-------HHYPRATLLGRPGTGKTV 59
>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein,
calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides}
PDB: 3syk_A 3zuh_A*
Length = 309
Score = 32.0 bits (72), Expect = 0.13
Identities = 17/93 (18%), Positives = 32/93 (34%), Gaps = 7/93 (7%)
Query: 8 QEIKESVELPLTHPEYYEEMGIKPPKG---VILYGPPGTGKTLPFSPALGYHYYCRGAGS 64
I+E+ L L +++G+ + G PGTGKT + + + G
Sbjct: 41 DRIRETAAL-LLVERARQKLGLAHETPTLHMSFTGNPGTGKTT-VALKMAGLLHRLGYVR 98
Query: 65 NSD--KKDDKDKKKKYEPPIPTRVGKKKRKAKG 95
D +Y + + ++A G
Sbjct: 99 KGHLVSVTRDDLVGQYIGHTAPKTKEVLKRAMG 131
>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 = 32.0 bits (73), Expect = 0.14
Identities = 7/11 (63%), Positives = 8/11 (72%)
Query: 36 ILYGPPGTGKT 46
+ GPPG GKT
Sbjct: 50 LFAGPPGVGKT 60
>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 = 31.7 bits (71), Expect = 0.16
Identities = 6/44 (13%), Positives = 15/44 (34%), Gaps = 9/44 (20%)
Query: 4 DVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
+ +++ ++ + + + G GTGKT
Sbjct: 26 EDILRDAAIAIRYFVKNEV---------KFSNLFLGLTGTGKTF 60
>2ehv_A Hypothetical protein PH0186; KAIC, RECA ATPase, unknown function;
HET: ADP; 2.07A {Pyrococcus horikoshii} PDB: 2zts_A*
Length = 251
Score = 31.0 bits (70), Expect = 0.25
Identities = 11/35 (31%), Positives = 14/35 (40%), Gaps = 5/35 (14%)
Query: 28 GIKPPKGVILYGPPGTGKTLPFSPALGYHYYCRGA 62
G V+L G GTGKT + +GA
Sbjct: 26 GFPEGTTVLLTGGTGTGKTT-----FAAQFIYKGA 55
>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 = 31.0 bits (70), Expect = 0.27
Identities = 9/41 (21%), Positives = 15/41 (36%), Gaps = 5/41 (12%)
Query: 28 GIKPPKGVILYGPPGTGKTLPFSPALGYHYYCRGAGSNSDK 68
G+ + ++ G GTGKTL + G +
Sbjct: 35 GLPIGRSTLVSGTSGTGKTL-----FSIQFLYNGIIEFDEP 70
Score = 26.8 bits (59), Expect = 7.2
Identities = 8/18 (44%), Positives = 10/18 (55%), Gaps = 2/18 (11%)
Query: 32 PKG--VILYGPPGTGKTL 47
K ++ G GTGKTL
Sbjct: 279 FKDSIILATGATGTGKTL 296
>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 = 30.7 bits (69), Expect = 0.41
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 30 KPPKGVILYGPPGTGKT 46
+ V+L GPPGTGKT
Sbjct: 61 MAGRAVLLAGPPGTGKT 77
>2jlq_A Serine protease subunit NS3; ribonucleoprotein,
nucleotide-binding, viral nucleoprotein, endoplasmic
reticulum, helicase, hydrolase; 1.67A {Dengue virus 4}
PDB: 2jly_A* 2jls_A* 2jlu_A 2jlv_A* 2jlw_A 2jlx_A*
2jlz_A* 2jlr_A* 2bmf_A 2bhr_A
Length = 451
Score = 30.6 bits (69), Expect = 0.44
Identities = 11/50 (22%), Positives = 20/50 (40%), Gaps = 3/50 (6%)
Query: 12 ESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLPFSPALGYHYYCRG 61
++ P E E++ + + I+ PG GKT P++ R
Sbjct: 2 SAMGEPD--YEVDEDI-FRKKRLTIMDLHPGAGKTKRILPSIVREALLRR 48
>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 = 30.8 bits (69), Expect = 0.45
Identities = 15/94 (15%), Positives = 36/94 (38%), Gaps = 16/94 (17%)
Query: 129 EEFIRNQERLKPQEE-KNEEERSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVS 187
E+F + +P E ++E + +L G + G + +++ + +
Sbjct: 35 EQFNKILP--EPTEGFAADDEPTTPAELVGKFL--GYVSSLVEPSKV--------GQFDQ 82
Query: 188 ILSFVDKDQLEPGCSVLLNHKVHAVVGVLSDDTD 221
+L+ + E L + +HA+ L + D
Sbjct: 83 VLNLC-LTEFE--NCYLEGNDIHALAAKLLQEND 113
>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 = 30.6 bits (69), Expect = 0.45
Identities = 17/85 (20%), Positives = 25/85 (29%), Gaps = 20/85 (23%)
Query: 22 EYYEEMGIKPPKGVILYGPPGTGKT-----------------LPFSPALGYHYYCRGAGS 64
+ + +IL GPPG+GKT L FS A +
Sbjct: 1294 VDVLHAWLSEHRPLILCGPPGSGKTMTLTSTLRAFPDFEVVSLNFSSATTPELLLKTFDH 1353
Query: 65 NSDKKDDKDKKKKYEPPIPTRVGKK 89
+ + K + P GK
Sbjct: 1354 HCEYKRTPSGETVLRPTQL---GKW 1375
>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA
degradation, allosteric REGU; HET: ADP 1PE; 2.40A
{Saccharomyces cerevisiae}
Length = 802
Score = 30.7 bits (69), Expect = 0.45
Identities = 29/163 (17%), Positives = 50/163 (30%), Gaps = 28/163 (17%)
Query: 35 VILYGPPGTGKTLPFSPALGYHYYCRG------AGSNSDKKDDKDKKKKYEPPIPTRVGK 88
++ GPPGTGKT+ + + + A SN K + + R+
Sbjct: 378 SLIQGPPGTGKTVTSATIVYHLSKIHKDRILVCAPSNVAVDHLAAKLRDLGLKV-VRLTA 436
Query: 89 KKRKAKGPDAAIKLPQVTPHTKCRLKLLKLERIKDYLLMEEEFIRNQERLKPQEEKNEEE 148
K R+ + + +L L ++KD L + K +
Sbjct: 437 KSREDVESSVSNLALHNLVGRGAKGELKNLLKLKD----------EVGELSASDTKRFVK 486
Query: 149 RSRVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSF 191
R T EI++ + T VG+ F
Sbjct: 487 LVR-----------KTEAEILNKADVVCCTCVGAGDKRLDTKF 518
>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 = 29.8 bits (68), Expect = 0.68
Identities = 9/12 (75%), Positives = 10/12 (83%)
Query: 35 VILYGPPGTGKT 46
V+L GPPG GKT
Sbjct: 54 VLLAGPPGLGKT 65
>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 = 29.8 bits (68), Expect = 0.70
Identities = 8/12 (66%), Positives = 11/12 (91%)
Query: 35 VILYGPPGTGKT 46
++L+GPPG GKT
Sbjct: 41 LLLFGPPGLGKT 52
>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman
fold, hydro; HET: ADP; 2.91A {Escherichia coli}
Length = 500
Score = 29.7 bits (67), Expect = 0.72
Identities = 8/13 (61%), Positives = 9/13 (69%)
Query: 35 VILYGPPGTGKTL 47
V L GPPG K+L
Sbjct: 44 VFLLGPPGIAKSL 56
>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable
holliday junction DNA helicase; HET: ADP; 2.69A
{Campylobacter jejuni subsp}
Length = 338
Score = 29.8 bits (68), Expect = 0.73
Identities = 6/12 (50%), Positives = 8/12 (66%)
Query: 35 VILYGPPGTGKT 46
++ GP G GKT
Sbjct: 58 ILFSGPAGLGKT 69
>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 = 29.7 bits (67), Expect = 0.77
Identities = 7/13 (53%), Positives = 11/13 (84%)
Query: 34 GVILYGPPGTGKT 46
GV+++G GTGK+
Sbjct: 47 GVLVFGDRGTGKS 59
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 29.7 bits (67), Expect = 0.88
Identities = 8/21 (38%), Positives = 12/21 (57%)
Query: 26 EMGIKPPKGVILYGPPGTGKT 46
+ + V+L G PGTGK+
Sbjct: 54 KTAANQKRHVLLIGEPGTGKS 74
>2xes_A Protein PAT1 homolog 1; mRNA decapping, P-bodies, RNA binding
protein; 2.10A {Homo sapiens} PDB: 2xer_A 2xeq_A
Length = 248
Score = 28.8 bits (64), Expect = 1.1
Identities = 18/114 (15%), Positives = 39/114 (34%), Gaps = 4/114 (3%)
Query: 115 LLKLERIKDYLLMEEEFIRNQERLKPQE--EKNEEERSRVDDLRGTPMSVGTLEEIIDDN 172
L+ +E+ LL E++ R +E ++ + ++ + +E D+
Sbjct: 12 LVIIEKTYSLLLDVEDYERRYLLSLEEERPALMDDRKHKICSMYDNLRGKLPGQERPSDD 71
Query: 173 H--AIVSTSVGSEHYVSILSFVDKDQLEPGCSVLLNHKVHAVVGVLSDDTDPMV 224
H I+ G IL F+ +Q + + D+ P +
Sbjct: 72 HFVQIMCIRKGKRMVARILPFLSTEQAADILMTTARNLPFLIKKDAQDEVLPCL 125
>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer,
structural genomics; HET: ADP; 2.00A {Pyrococcus
horikoshii}
Length = 247
Score = 28.9 bits (65), Expect = 1.1
Identities = 11/33 (33%), Positives = 15/33 (45%), Gaps = 7/33 (21%)
Query: 32 PKG--VILYGPPGTGKTLPFSPALGYHYYCRGA 62
P+ V+L G PGTGKT+ + G
Sbjct: 21 PERNVVLLSGGPGTGKTI-----FSQQFLWNGL 48
>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme
function initiative, EFI, STRU genomics, transferase;
1.60A {Janibacter SP}
Length = 200
Score = 28.5 bits (63), Expect = 1.5
Identities = 10/34 (29%), Positives = 18/34 (52%)
Query: 13 SVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKT 46
V+L + + M +P + V++ G G+GKT
Sbjct: 10 GVDLGTENLYFQSMMTGEPTRHVVVMGVSGSGKT 43
>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 = 28.5 bits (63), Expect = 1.8
Identities = 6/17 (35%), Positives = 7/17 (41%), Gaps = 1/17 (5%)
Query: 31 PPKGV-ILYGPPGTGKT 46
V L P G GK+
Sbjct: 28 VAGTVGALVSPGGAGKS 44
>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 = 28.3 bits (63), Expect = 1.8
Identities = 7/32 (21%), Positives = 15/32 (46%)
Query: 35 VILYGPPGTGKTLPFSPALGYHYYCRGAGSNS 66
+ GPP TGK++ + + + + +N
Sbjct: 129 LAFIGPPNTGKSMLCNSLIHFLGGSVLSFANH 160
>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 = 28.2 bits (64), Expect = 2.1
Identities = 11/16 (68%), Positives = 11/16 (68%), Gaps = 2/16 (12%)
Query: 33 KGVIL--YGPPGTGKT 46
KG IL GPPG GKT
Sbjct: 107 KGPILCLAGPPGVGKT 122
>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 = 28.3 bits (63), Expect = 2.2
Identities = 6/22 (27%), Positives = 12/22 (54%)
Query: 32 PKGVILYGPPGTGKTLPFSPAL 53
P+ +++ G GTGK++
Sbjct: 53 PRHLLVNGATGTGKSVLLRELA 74
>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian
virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A
2h1l_A
Length = 377
Score = 28.1 bits (62), Expect = 2.3
Identities = 7/19 (36%), Positives = 9/19 (47%), Gaps = 2/19 (10%)
Query: 31 PPK--GVILYGPPGTGKTL 47
PK + GP +GKT
Sbjct: 166 IPKKRYWLFKGPIDSGKTT 184
>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 = 27.7 bits (61), Expect = 2.5
Identities = 10/36 (27%), Positives = 16/36 (44%), Gaps = 1/36 (2%)
Query: 32 PKGVILYGPPGTGKTLPFSPALGYHYYCRGAGSNSD 67
++L G PG+GK+ + AL +SD
Sbjct: 9 GNILLLSGHPGSGKST-IAEALANLPGVPKVHFHSD 43
>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 = 28.3 bits (63), Expect = 3.0
Identities = 7/13 (53%), Positives = 8/13 (61%)
Query: 34 GVILYGPPGTGKT 46
+IL G G GKT
Sbjct: 925 ALILVGKAGCGKT 937
Score = 27.9 bits (62), Expect = 3.2
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 22 EYYEEMGIKPPKGVILYGPPGTGKTL 47
E + +G+IL GPPG+GKT+
Sbjct: 1257 EKIFYDLLNSKRGIILCGPPGSGKTM 1282
>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR
complex, HMR, HML, TELO AAA+ domain, structural,
nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}
Length = 318
Score = 28.0 bits (61), Expect = 3.1
Identities = 4/44 (9%), Positives = 8/44 (18%), Gaps = 9/44 (20%)
Query: 4 DVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTL 47
I + L + K + + K
Sbjct: 26 VEDFTRIFLPIYDSLMSSQ---------NKLFYITNADDSTKFQ 60
>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 = 27.7 bits (61), Expect = 3.3
Identities = 6/16 (37%), Positives = 8/16 (50%)
Query: 31 PPKGVILYGPPGTGKT 46
V+ G G+GKT
Sbjct: 13 ASMIVVFVGTAGSGKT 28
>3u5c_H RP30, RP40, 40S ribosomal protein S7-A; translation, ribosome,
ribosomal, ribosomal R ribosomal protein, eukaryotic
ribosome, RNA-protein C; 3.00A {Saccharomyces
cerevisiae} PDB: 3u5g_H
Length = 190
Score = 27.4 bits (60), Expect = 3.8
Identities = 4/37 (10%), Positives = 9/37 (24%), Gaps = 2/37 (5%)
Query: 67 DKKDDKDKKKKYEPP--IPTRVGKKKRKAKGPDAAIK 101
+ ++ + K P + K A
Sbjct: 26 ELENSSPELKAELRPLQFKSIREIDVAGGKKALAIFV 62
>2h7w_A Chagasin; beta-strands, immunoglobulin-fold, hydrolase inhibitor;
1.70A {Trypanosoma cruzi} SCOP: b.1.26.1 PDB: 2nnr_A
2oul_B 3cbj_B 3cbk_B 3e1z_A 2fo8_A 2nqd_A*
Length = 131
Score = 26.6 bits (58), Expect = 3.8
Identities = 12/42 (28%), Positives = 18/42 (42%)
Query: 46 TLPFSPALGYHYYCRGAGSNSDKKDDKDKKKKYEPPIPTRVG 87
LP +P G+ +Y G S + + KY PP +G
Sbjct: 46 QLPSNPTTGFAWYFEGGTKESPNESMFTVENKYFPPDSKLLG 87
>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 = 27.0 bits (59), Expect = 4.0
Identities = 5/16 (31%), Positives = 8/16 (50%)
Query: 31 PPKGVILYGPPGTGKT 46
+ +IL G GK+
Sbjct: 2 TTRMIILNGGSSAGKS 17
>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus
P2}
Length = 235
Score = 27.3 bits (61), Expect = 4.1
Identities = 10/18 (55%), Positives = 13/18 (72%), Gaps = 2/18 (11%)
Query: 32 PKG--VILYGPPGTGKTL 47
P+G + L G PGTGKT+
Sbjct: 21 PQGFFIALTGEPGTGKTI 38
>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 = 26.7 bits (60), Expect = 4.4
Identities = 6/18 (33%), Positives = 10/18 (55%)
Query: 29 IKPPKGVILYGPPGTGKT 46
+ + + L GP G GK+
Sbjct: 1 MAEKRNIFLVGPMGAGKS 18
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA
replication, viral replication, nucleotide-binding;
2.10A {Kokobera virus} PDB: 2v6j_A
Length = 431
Score = 27.5 bits (61), Expect = 4.4
Identities = 8/29 (27%), Positives = 11/29 (37%), Gaps = 4/29 (13%)
Query: 35 VILYGPPGTGKT--LPFSPALGYHYYCRG 61
+L PG GKT + P L +
Sbjct: 5 TVLDLHPGAGKTRRVL--PQLVREAVKKR 31
>1m7v_A Nitric oxide synthase; pterin oxygenase, bacteria, heme,
oxidoreductase; HET: ARG HEM THG; 1.95A {Bacillus
subtilis} SCOP: d.174.1.1 PDB: 2fbz_X* 2fc1_A* 1m7z_A*
2fc2_A* 2an0_A* 2amo_A* 2an2_A*
Length = 363
Score = 27.1 bits (60), Expect = 4.5
Identities = 6/19 (31%), Positives = 13/19 (68%), Gaps = 2/19 (10%)
Query: 15 ELPLTHPEY--YEEMGIKP 31
E+P+THP+ + ++ +K
Sbjct: 194 EVPITHPDIEAFSDLELKW 212
>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase,
HEL helix motif, transcription regulator; 3.20A
{Streptococcus pneumoniae}
Length = 253
Score = 27.2 bits (59), Expect = 4.8
Identities = 10/43 (23%), Positives = 16/43 (37%), Gaps = 4/43 (9%)
Query: 4 DVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKT 46
D + + LT + + P ++L G G GKT
Sbjct: 8 DSEFKHALARNLRSLTRGKKSSK----QPIAILLGGQSGAGKT 46
>1t2k_D Cyclic-AMP-dependent transcription factor ATF-2; protein DNA
complex, transcription/DNA complex; 3.00A {Homo sapiens}
SCOP: h.1.3.1
Length = 61
Score = 25.0 bits (55), Expect = 5.2
Identities = 10/69 (14%), Positives = 24/69 (34%), Gaps = 21/69 (30%)
Query: 88 KKKRKAKGPDAAIKLPQVTPHTKCRLKLLKLERIKDYLLMEEEFIRNQERLKPQEEKNEE 147
++K + AA ++ R K + ++ +++ + N +
Sbjct: 2 RRKFLERNRAAA---------SRSRQK--RKVWVQSL----------EKKAEDLSSLNGQ 40
Query: 148 ERSRVDDLR 156
+S V LR
Sbjct: 41 LQSEVTLLR 49
>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 = 26.8 bits (59), Expect = 5.2
Identities = 9/34 (26%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 35 VILYGPPGTGKTLPFSPALGYHYYCRGAGSNSDK 68
+ L+GP TGKT + A+ + G + +++
Sbjct: 107 IWLFGPATTGKTN-IAEAIAHTVPFYGCVNWTNE 139
>2xzm_Y RPS6E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_Y
Length = 293
Score = 27.1 bits (59), Expect = 5.3
Identities = 19/93 (20%), Positives = 30/93 (32%), Gaps = 1/93 (1%)
Query: 65 NSDKKDDKDKKKKYEPPIPTRVGKKKRKAKGPDAAIKLPQVTPHTKCRLKLLKLERIKDY 124
K+DD KK + K K + K P + K K K +R
Sbjct: 146 GLKKEDDPILIKKSVIRRTFKTAKGKDRTKCPKIQRLITPERILRKKVYKAEKTQRYVKT 205
Query: 125 LLMEEEFIR-NQERLKPQEEKNEEERSRVDDLR 156
+EE+ + E K + K + V +
Sbjct: 206 NAAKEEYEKFLSEWKKQRAAKAHAASAPVVEAP 238
>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG,
structural genomics, midwest center for structural
genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB:
3h0k_A
Length = 179
Score = 26.8 bits (59), Expect = 5.5
Identities = 13/72 (18%), Positives = 23/72 (31%), Gaps = 7/72 (9%)
Query: 33 KGVILYGPPGTGKT--LPFSPALGYHYYCRGAGSNSDKKDDKDKKKKYEPPIPTRVGKKK 90
K +++ G PG+GK+ G SD + + K+
Sbjct: 2 KVILITGMPGSGKSEFAKLLKERGAKVI-----VMSDVVRKRYSIEAKPGERLMDFAKRL 56
Query: 91 RKAKGPDAAIKL 102
R+ G +L
Sbjct: 57 REIYGDGVVARL 68
>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 = 26.4 bits (58), Expect = 5.6
Identities = 6/12 (50%), Positives = 8/12 (66%)
Query: 35 VILYGPPGTGKT 46
I+ GP G GK+
Sbjct: 5 YIITGPAGVGKS 16
>1igy_B IGG1 intact antibody MAB61.1.3; intact immunoglobulin, V region, C
region, hinge region, immunoglobulin; HET: NAG FUL NDG
BMA MAN GAL FUC; 3.20A {Mus musculus} SCOP: b.1.1.1
b.1.1.2 b.1.1.2 b.1.1.2
Length = 434
Score = 27.2 bits (60), Expect = 5.7
Identities = 11/39 (28%), Positives = 13/39 (33%)
Query: 46 TLPFSPALGYHYYCRGAGSNSDKKDDKDKKKKYEPPIPT 84
T+P SP C A S K DK + P
Sbjct: 183 TVPSSPRPSETVTCNVAHPASSTKVDKKIVPRDCGCKPC 221
>1yks_A Genome polyprotein [contains: flavivirin protease NS3 catalytic
subunit]; helicase, flavivirus, DEAD-BOX, ATPase,
rtpase, hydrolase; 1.80A {Yellow fever virus} SCOP:
c.37.1.14 c.37.1.14 PDB: 1ymf_A*
Length = 440
Score = 27.1 bits (60), Expect = 5.8
Identities = 9/27 (33%), Positives = 11/27 (40%)
Query: 35 VILYGPPGTGKTLPFSPALGYHYYCRG 61
+L PG GKT F P + R
Sbjct: 11 TVLDFHPGAGKTRRFLPQILAECARRR 37
>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 = 26.9 bits (59), Expect = 5.9
Identities = 7/16 (43%), Positives = 8/16 (50%)
Query: 31 PPKGVILYGPPGTGKT 46
V + GP GTG T
Sbjct: 44 KKHHVTINGPAGTGAT 59
>2v1u_A Cell division control protein 6 homolog; DNA replication,
nucleotide-binding, replication, archaea; HET: ADP;
3.10A {Aeropyrum pernix}
Length = 387
Score = 26.7 bits (58), Expect = 6.4
Identities = 9/18 (50%), Positives = 11/18 (61%)
Query: 30 KPPKGVILYGPPGTGKTL 47
+ P +LYG GTGKT
Sbjct: 42 EKPSNALLYGLTGTGKTA 59
>3t61_A Gluconokinase; PSI-biology, structural genomics, protein
structure initiati YORK structural genomics research
consortium, nysgrc; 2.20A {Sinorhizobium meliloti}
Length = 202
Score = 26.6 bits (58), Expect = 6.8
Identities = 5/17 (29%), Positives = 11/17 (64%)
Query: 30 KPPKGVILYGPPGTGKT 46
+ P +++ G G+GK+
Sbjct: 16 RFPGSIVVMGVSGSGKS 32
>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate
kinase); nucleoside monophosphate kinase, NMP kinase;
HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP:
c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*
Length = 194
Score = 26.3 bits (59), Expect = 6.9
Identities = 8/19 (42%), Positives = 10/19 (52%)
Query: 27 MGIKPPKGVILYGPPGTGK 45
M P V + G PG+GK
Sbjct: 1 MEKSKPNVVFVLGGPGSGK 19
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 27.0 bits (60), Expect = 7.0
Identities = 5/42 (11%), Positives = 22/42 (52%), Gaps = 2/42 (4%)
Query: 114 KLLKLERIKDYLLMEEEFIRNQERLKPQEEKNEEERSRVDDL 155
+ + +++ L E + ++ Q ++ Q ++ + ++++L
Sbjct: 915 SVERYKKLHIGL--ENKIMQLQRKIDEQNKEYKSLLEKMNNL 954
>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase;
1.90A {Tomato mosaic virus}
Length = 446
Score = 26.7 bits (58), Expect = 7.0
Identities = 7/12 (58%), Positives = 9/12 (75%)
Query: 35 VILYGPPGTGKT 46
V++ G PG GKT
Sbjct: 164 VLVDGVPGCGKT 175
>1jnm_A Proto-oncogene C-JUN; BZIP, protein-DNA complex, transcription/DNA
complex; 2.20A {Homo sapiens} SCOP: h.1.3.1 PDB: 1fos_F
2h7h_A 1t2k_C 1a02_J* 1s9k_E 1jun_A
Length = 62
Score = 24.6 bits (54), Expect = 7.4
Identities = 16/69 (23%), Positives = 29/69 (42%), Gaps = 21/69 (30%)
Query: 88 KKKRKAKGPDAAIKLPQVTPHTKCRLKLLKLERIKDYLLMEEEFIRNQERLKPQEEKNEE 147
++++ + AA +K R + KLERI +E++K + +N E
Sbjct: 2 AERKRMRNRIAA---------SKSRKR--KLERIARL----------EEKVKTLKAQNSE 40
Query: 148 ERSRVDDLR 156
S + LR
Sbjct: 41 LASTANMLR 49
>2r2a_A Uncharacterized protein; zonular occludens toxin, structural
genomics, APC84050.2, PS protein structure initiative;
HET: MSE; 1.82A {Neisseria meningitidis MC58}
Length = 199
Score = 26.2 bits (57), Expect = 7.5
Identities = 7/12 (58%), Positives = 10/12 (83%)
Query: 36 ILYGPPGTGKTL 47
++ G PG+GKTL
Sbjct: 9 LITGTPGSGKTL 20
>1mjt_A Nitric-oxide synthase homolog; sanos, NO, NOS, bacterial, MRSA,
seitu, oxidoreductase; HET: SUC HEM NAD; 2.40A
{Staphylococcus aureus} SCOP: d.174.1.1
Length = 347
Score = 26.4 bits (58), Expect = 8.1
Identities = 5/19 (26%), Positives = 10/19 (52%), Gaps = 2/19 (10%)
Query: 15 ELPLTHPEY--YEEMGIKP 31
E+P+ H Y ++ +K
Sbjct: 182 EVPIEHNHYPKLRKLNLKW 200
>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 = 26.1 bits (57), Expect = 9.1
Identities = 9/48 (18%), Positives = 18/48 (37%), Gaps = 2/48 (4%)
Query: 1 MSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVI--LYGPPGTGKT 46
M D +++ + + +G I ++G G+GKT
Sbjct: 98 MRADEYLKKRATIGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKT 145
>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase,
transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens}
PDB: 1z83_A* 3adk_A
Length = 196
Score = 25.9 bits (58), Expect = 9.3
Identities = 6/17 (35%), Positives = 10/17 (58%)
Query: 29 IKPPKGVILYGPPGTGK 45
+K + + G PG+GK
Sbjct: 6 LKKTNIIFVVGGPGSGK 22
>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase;
HET: AMP; 2.3A {Homo sapiens}
Length = 199
Score = 26.0 bits (58), Expect = 9.5
Identities = 6/17 (35%), Positives = 11/17 (64%)
Query: 29 IKPPKGVILYGPPGTGK 45
++ K + + G PG+GK
Sbjct: 9 LRKCKIIFIIGGPGSGK 25
>3udf_A Penicillin-binding protein 1A; transglycosylase, transpeptidase;
HET: MES; 1.70A {Acinetobacter baumannii} PDB: 3udi_A*
3udx_A* 3ue0_A* 3ue1_A*
Length = 731
Score = 26.5 bits (59), Expect = 9.5
Identities = 3/32 (9%), Positives = 10/32 (31%), Gaps = 10/32 (31%)
Query: 55 YHYYCRGAGSNSDKKDDKDKKKKYEPPIPTRV 86
+H++ + + + P +V
Sbjct: 2 HHHH----------HHENLYFQSHMLLKPLQV 23
>1p6o_A Cytosine deaminase; hydrolase, dimer, inhibitor bound; 1.14A
{Saccharomyces cerevisiae} SCOP: c.97.1.2 PDB: 1ox7_A
1rb7_A 1ysd_A 1ysb_A 2o3k_A 1uaq_A
Length = 161
Score = 25.7 bits (57), Expect = 9.7
Identities = 5/16 (31%), Positives = 7/16 (43%)
Query: 204 LLNHKVHAVVGVLSDD 219
L + H VV V +
Sbjct: 124 YLQTRGHEVVVVDDER 139
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
0.313 0.135 0.389
Gapped
Lambda K H
0.267 0.0529 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,552,939
Number of extensions: 212923
Number of successful extensions: 738
Number of sequences better than 10.0: 1
Number of HSP's gapped: 725
Number of HSP's successfully gapped: 150
Length of query: 225
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 135
Effective length of database: 4,188,903
Effective search space: 565501905
Effective search space used: 565501905
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 55 (25.4 bits)