RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1747
(68 letters)
>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 = 76.6 bits (189), Expect = 9e-19
Identities = 21/35 (60%), Positives = 30/35 (85%)
Query: 14 PIFVILGSTGTGKSKLGIEIAKKFNGEIISADSMQ 48
+ VI G+TG GKS+L I++A+KFNGE+I++DSMQ
Sbjct: 3 KVIVIAGTTGVGKSQLSIQLAQKFNGEVINSDSMQ 37
>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta
protein, structural genomics, PSI-2; 2.70A
{Staphylococcus epidermidis atcc 12228}
Length = 340
Score = 75.7 bits (187), Expect = 2e-18
Identities = 25/39 (64%), Positives = 32/39 (82%)
Query: 10 MSKVPIFVILGSTGTGKSKLGIEIAKKFNGEIISADSMQ 48
M+K + VI+G T +GK++L IE+AKKFNGEIIS DSMQ
Sbjct: 4 MTKPFLIVIVGPTASGKTELSIEVAKKFNGEIISGDSMQ 42
>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET:
ATP; 2.37A {Humulus lupulus}
Length = 339
Score = 73.0 bits (179), Expect = 2e-17
Identities = 18/38 (47%), Positives = 28/38 (73%)
Query: 11 SKVPIFVILGSTGTGKSKLGIEIAKKFNGEIISADSMQ 48
K + V++G+TGTGKS+L I++A F E+I++D MQ
Sbjct: 38 RKEKLLVLMGATGTGKSRLSIDLAAHFPLEVINSDKMQ 75
>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta
protein, structural genomics, PSI-2, protein structure
initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A
Length = 322
Score = 71.8 bits (177), Expect = 3e-17
Identities = 18/37 (48%), Positives = 25/37 (67%)
Query: 12 KVPIFVILGSTGTGKSKLGIEIAKKFNGEIISADSMQ 48
K + I+G T GK+K + +AK+ NGE+IS DSMQ
Sbjct: 2 KEKLVAIVGPTAVGKTKTSVMLAKRLNGEVISGDSMQ 38
>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding,
nucleotide-binding, nucleotidyltransferase, tRNA
processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A
3crr_A
Length = 323
Score = 69.9 bits (172), Expect = 2e-16
Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 1/40 (2%)
Query: 10 MSKVP-IFVILGSTGTGKSKLGIEIAKKFNGEIISADSMQ 48
MS +P ++G T GK+ L + +A E+IS DS
Sbjct: 1 MSSLPPAIFLMGPTAAGKTDLAMALADALPCELISVDSAL 40
>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside
modification, isopentenyl-tRNA transferase,
transferase-RNA complex; 2.50A {Escherichia coli k-12}
PDB: 2zxu_A* 2zm5_A
Length = 316
Score = 68.7 bits (169), Expect = 4e-16
Identities = 14/38 (36%), Positives = 20/38 (52%)
Query: 11 SKVPIFVILGSTGTGKSKLGIEIAKKFNGEIISADSMQ 48
S ++G T +GK+ L IE+ K E+IS DS
Sbjct: 8 SLPKAIFLMGPTASGKTALAIELRKILPVELISVDSAL 45
>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 = 66.8 bits (163), Expect = 2e-15
Identities = 10/34 (29%), Positives = 22/34 (64%)
Query: 15 IFVILGSTGTGKSKLGIEIAKKFNGEIISADSMQ 48
+ +I G T +GK+ + I+IA++ +++ D +Q
Sbjct: 3 LHLIYGPTCSGKTDMAIQIAQETGWPVVALDRVQ 36
>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 = 0.002
Identities = 9/36 (25%), Positives = 16/36 (44%)
Query: 10 MSKVPIFVILGSTGTGKSKLGIEIAKKFNGEIISAD 45
M + ++ G TGK+ L +A ++S D
Sbjct: 2 MQTPALIIVTGHPATGKTTLSQALATGLRLPLLSKD 37
>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 = 33.7 bits (76), Expect = 0.002
Identities = 12/62 (19%), Positives = 31/62 (50%), Gaps = 10/62 (16%)
Query: 16 FVIL-GSTGTGKSKLGIEIAK------KFNGEI--ISADSMQGLKFLVECRVKLELLRLK 66
V++ G G+GK+ + +++ K + +I ++ + + ++E KL L ++
Sbjct: 152 NVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKL-LYQID 210
Query: 67 PD 68
P+
Sbjct: 211 PN 212
>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A
{Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A
1ko5_A* 1ko8_A* 1kof_A*
Length = 175
Score = 33.5 bits (76), Expect = 0.002
Identities = 10/36 (27%), Positives = 20/36 (55%)
Query: 11 SKVPIFVILGSTGTGKSKLGIEIAKKFNGEIISADS 46
I+V++G +G+GKS + E+A + + + D
Sbjct: 6 HDHHIYVLMGVSGSGKSAVASEVAHQLHAAFLDGDF 41
>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 = 30.8 bits (70), Expect = 0.015
Identities = 7/34 (20%), Positives = 16/34 (47%)
Query: 13 VPIFVILGSTGTGKSKLGIEIAKKFNGEIISADS 46
+ + ++ G KS + +++K+ II S
Sbjct: 1 MTLIILEGPDCCFKSTVAAKLSKELKYPIIKGSS 34
>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A
{Rhodobacter sphaeroides} SCOP: c.37.1.6
Length = 290
Score = 30.4 bits (68), Expect = 0.025
Identities = 14/44 (31%), Positives = 19/44 (43%), Gaps = 6/44 (13%)
Query: 10 MS-KVPIFVILGSTGTGKSKLGIEIAKKFNGE-----IISADSM 47
MS K PI + GS+G G S + + F E I D+
Sbjct: 1 MSKKHPIISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAF 44
>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein
struct initiative, northeast structural genomics
consortium, NESG, function; 2.40A {Bacillus halodurans}
SCOP: c.37.1.25
Length = 189
Score = 30.3 bits (68), Expect = 0.027
Identities = 9/34 (26%), Positives = 15/34 (44%), Gaps = 2/34 (5%)
Query: 10 MSKVPIFVILGSTGTGKSKLGIEIAKKFNGEIIS 43
M K +++I G G GKS +A + +
Sbjct: 1 MKK--LYIITGPAGVGKSTTCKRLAAQLDNSAYI 32
>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 = 28.5 bits (63), Expect = 0.13
Identities = 11/34 (32%), Positives = 19/34 (55%)
Query: 12 KVPIFVILGSTGTGKSKLGIEIAKKFNGEIISAD 45
+P ++ G+ G GK+ LG E+A K + I+
Sbjct: 10 LLPNILLTGTPGVGKTTLGKELASKSGLKYINVG 43
>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 = 28.2 bits (62), Expect = 0.17
Identities = 10/28 (35%), Positives = 16/28 (57%)
Query: 12 KVPIFVILGSTGTGKSKLGIEIAKKFNG 39
K +I G+ GTGK+ + IA + +G
Sbjct: 9 KGINILITGTPGTGKTSMAEMIAAELDG 36
>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 = 27.5 bits (61), Expect = 0.29
Identities = 11/44 (25%), Positives = 16/44 (36%), Gaps = 7/44 (15%)
Query: 6 LKVVMSKVPIFVILGSTGTGKSKLGIEIAKK-------FNGEII 42
L + + I G G GKS L E + F+G +
Sbjct: 140 LWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVH 183
>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P;
hydrolase, type IV secretion, conjugation; 2.35A
{Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A
Length = 392
Score = 27.3 bits (60), Expect = 0.35
Identities = 10/43 (23%), Positives = 16/43 (37%), Gaps = 3/43 (6%)
Query: 16 FVILGSTGTGKS---KLGIEIAKKFNGEIISADSMQGLKFLVE 55
+ IL G GKS K+ + +I D + K +
Sbjct: 38 WTILAKPGAGKSFTAKMLLLREYMQGSRVIIIDPEREYKEMCR 80
>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC,
cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo
sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B*
2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A*
2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A*
2zi7_B* 2zia_A* 3kfx_A* ...
Length = 263
Score = 26.7 bits (58), Expect = 0.45
Identities = 5/29 (17%), Positives = 11/29 (37%)
Query: 11 SKVPIFVILGSTGTGKSKLGIEIAKKFNG 39
+++ I G+ GKS + +
Sbjct: 22 TRIKKISIEGNIAAGKSTFVNILKQLCED 50
>2w58_A DNAI, primosome component (helicase loader); ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.50A
{Geobacillus kaustophilus HTA426}
Length = 202
Score = 26.6 bits (59), Expect = 0.50
Identities = 8/21 (38%), Positives = 11/21 (52%)
Query: 16 FVILGSTGTGKSKLGIEIAKK 36
+ GS G GK+ L IA +
Sbjct: 57 LYLHGSFGVGKTYLLAAIANE 77
>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein;
HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19
c.37.1.19 PDB: 2fzl_A*
Length = 472
Score = 26.7 bits (59), Expect = 0.52
Identities = 5/26 (19%), Positives = 13/26 (50%)
Query: 17 VILGSTGTGKSKLGIEIAKKFNGEII 42
I+ TG+GK+ + + + + +
Sbjct: 112 CIVLPTGSGKTHVAMAAINELSTPTL 137
>2qgz_A Helicase loader, putative primosome component; structural genomics,
PSI-2, protein structure initiative; 2.40A
{Streptococcus pyogenes serotype M3}
Length = 308
Score = 26.7 bits (59), Expect = 0.56
Identities = 7/22 (31%), Positives = 10/22 (45%)
Query: 16 FVILGSTGTGKSKLGIEIAKKF 37
+ G G GKS L +A +
Sbjct: 155 LYLYGDMGIGKSYLLAAMAHEL 176
>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein,
ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus
radiodurans} PDB: 3gp8_A 3gpl_A*
Length = 574
Score = 26.6 bits (59), Expect = 0.59
Identities = 10/34 (29%), Positives = 16/34 (47%), Gaps = 3/34 (8%)
Query: 14 PIFVILGSTGTGKS---KLGIEIAKKFNGEIISA 44
+ V+ G GTGKS K ++A+ E+
Sbjct: 205 RLVVLTGGPGTGKSTTTKAVADLAESLGLEVGLC 238
>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 = 26.5 bits (58), Expect = 0.63
Identities = 9/33 (27%), Positives = 13/33 (39%)
Query: 5 FLKVVMSKVPIFVILGSTGTGKSKLGIEIAKKF 37
+K + K I G GTG + L I +
Sbjct: 37 VMKAIKEKKHHVTINGPAGTGATTLTKFIIEAL 69
>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 = 26.2 bits (58), Expect = 0.71
Identities = 7/20 (35%), Positives = 10/20 (50%)
Query: 16 FVILGSTGTGKSKLGIEIAK 35
+GS G GK+ L + K
Sbjct: 41 LTFVGSPGVGKTHLAVATLK 60
>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga
maritima} PDB: 3qg5_A 3tho_A*
Length = 365
Score = 26.4 bits (58), Expect = 0.72
Identities = 7/14 (50%), Positives = 8/14 (57%)
Query: 14 PIFVILGSTGTGKS 27
I V+ G G GKS
Sbjct: 24 GITVVEGPNGAGKS 37
>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis,
phosphoprotein, feedback inhibition,
deoxyribonucleoside kinase, salvage pathway; HET: DCP;
2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB:
1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A*
2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*
Length = 230
Score = 26.2 bits (57), Expect = 0.73
Identities = 7/32 (21%), Positives = 14/32 (43%)
Query: 11 SKVPIFVILGSTGTGKSKLGIEIAKKFNGEII 42
++ +I G+ G+GK+ K N +
Sbjct: 18 TQPFTVLIEGNIGSGKTTYLNHFEKYKNDICL 49
>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 = 26.1 bits (58), Expect = 0.73
Identities = 10/34 (29%), Positives = 21/34 (61%), Gaps = 2/34 (5%)
Query: 14 PI--FVILGSTGTGKSKLGIEIAKKFNGEIISAD 45
P+ F+ G TG GK+++ ++++K E++ D
Sbjct: 487 PVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFD 520
>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A
{Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*
Length = 287
Score = 26.1 bits (56), Expect = 0.75
Identities = 11/34 (32%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 14 PIFVIL-GSTGTGKSKLGIEIAKKFNGEIISADS 46
P +L G G+GK+ L I ++ G +I D+
Sbjct: 33 PTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDN 66
>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex,
transferase; HET: DTP; 2.80A {Homo sapiens} SCOP:
c.37.1.1
Length = 241
Score = 26.2 bits (57), Expect = 0.77
Identities = 6/25 (24%), Positives = 9/25 (36%)
Query: 15 IFVILGSTGTGKSKLGIEIAKKFNG 39
I G+ GKS + K +
Sbjct: 4 RLSIEGNIAVGKSTFVKLLTKTYPE 28
>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 = 26.0 bits (57), Expect = 0.90
Identities = 4/19 (21%), Positives = 9/19 (47%)
Query: 9 VMSKVPIFVILGSTGTGKS 27
+ K + ++ G GK+
Sbjct: 15 IFRKKRLTIMDLHPGAGKT 33
>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase;
HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A*
2jas_A*
Length = 205
Score = 25.7 bits (56), Expect = 1.1
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 17 VILGSTGTGKSKLGIEIAKKFNGEII 42
I G+ G GKS + EI+KK EI
Sbjct: 4 AIFGTVGAGKSTISAEISKKLGYEIF 29
>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding,
polymorphism, nucleotide-binding, alternative splicing,
protein transport; HET: CAF; 1.5A {Homo sapiens} PDB:
2bmj_A
Length = 178
Score = 25.7 bits (57), Expect = 1.2
Identities = 8/22 (36%), Positives = 11/22 (50%), Gaps = 2/22 (9%)
Query: 10 MSKVPIF--VILGSTGTGKSKL 29
M +P +LG +GKS L
Sbjct: 2 MRSIPELRLGVLGDARSGKSSL 23
>2zzv_A ABC transporter, solute-binding protein; periplasmic substrate
binding protein, calcium, lactate, trap transporter,
transport protein; 1.40A {Thermus thermophilus} PDB:
2zzw_A 2zzx_A
Length = 361
Score = 25.5 bits (56), Expect = 1.4
Identities = 3/16 (18%), Positives = 6/16 (37%)
Query: 37 FNGEIISADSMQGLKF 52
I + +G+K
Sbjct: 162 SKKPIRRFEDFKGVKL 177
>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus,
hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A
Length = 677
Score = 25.7 bits (55), Expect = 1.5
Identities = 9/51 (17%), Positives = 15/51 (29%), Gaps = 4/51 (7%)
Query: 5 FLKVVMSKVPIFVILGSTGTGKSKLGIEIAKKFNGEIISADSMQGLKFLVE 55
+ + I G T +GK+ I+ + LK L
Sbjct: 147 YPDARAMQRKIIFHSGPTNSGKTYHAIQKYFSAKSGVYCGP----LKLLAH 193
>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 = 25.2 bits (55), Expect = 1.5
Identities = 9/43 (20%), Positives = 19/43 (44%), Gaps = 5/43 (11%)
Query: 10 MSKVPIFVILGSTGTGKSKLGIEIAKKFNG-----EIISADSM 47
M + + ++ G G GKS +AK + ++ +D +
Sbjct: 1 MGDIMLIILTGLPGVGKSTFSKNLAKILSKNNIDVIVLGSDLI 43
>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon;
HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB:
3bb1_A*
Length = 270
Score = 25.3 bits (55), Expect = 1.6
Identities = 5/14 (35%), Positives = 8/14 (57%)
Query: 17 VILGSTGTGKSKLG 30
+++G G GKS
Sbjct: 43 LVMGKGGVGKSSTV 56
>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 = 25.1 bits (55), Expect = 1.7
Identities = 10/52 (19%), Positives = 22/52 (42%), Gaps = 8/52 (15%)
Query: 3 SSFLKVVMSKVPIFVIL---GSTGTGKSKLGIEIAKKFNGE-----IISADS 46
L+ + + P ++ G+ G+GKS L +A + + ++ D
Sbjct: 9 QGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAALSAQGLPAEVVPMDG 60
>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET:
GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A*
2j3e_A*
Length = 262
Score = 25.2 bits (55), Expect = 1.7
Identities = 6/14 (42%), Positives = 8/14 (57%)
Query: 17 VILGSTGTGKSKLG 30
++LG G GKS
Sbjct: 40 LVLGKGGVGKSSTV 53
>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase,
shikimat ATP binding, chloroplast, transferase; 2.35A
{Arabidopsis thaliana}
Length = 250
Score = 25.1 bits (55), Expect = 1.7
Identities = 8/37 (21%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 2 KSSFLKVVMSKVPIFVILGSTGTGKSKLGIEIAKKFN 38
K+ +K ++ ++++ G G+GK+ +G +A+
Sbjct: 38 KAEEVKPYLNGRSMYLV-GMMGSGKTTVGKIMARSLG 73
>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural
genomics, structural genomics consortium, SGC,
activator, ATP-binding, DNA-binding; HET: ADP; 2.80A
{Homo sapiens}
Length = 235
Score = 24.9 bits (55), Expect = 1.9
Identities = 8/27 (29%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 1 MKSSFLKVVMSKVPIFVILGSTGTGKS 27
+S L+ + + +I G+TG GK+
Sbjct: 65 FESEILEAISQN-SVVIIRGATGCGKT 90
>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold,
coiled-coils, ATPase, exonuclease, endonucle binding,
DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB:
3qkr_A*
Length = 203
Score = 25.0 bits (55), Expect = 1.9
Identities = 7/13 (53%), Positives = 10/13 (76%)
Query: 15 IFVILGSTGTGKS 27
I +I+G G+GKS
Sbjct: 25 INLIIGQNGSGKS 37
>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP
binding, GTP hydrolysis, structural genomics,
structural genomics consortium, SGC; HET: GDP; 1.90A
{Homo sapiens} SCOP: c.37.1.8
Length = 196
Score = 24.9 bits (55), Expect = 1.9
Identities = 9/30 (30%), Positives = 11/30 (36%), Gaps = 2/30 (6%)
Query: 2 KSSFLKVVMSKVPIF--VILGSTGTGKSKL 29
+ M+K I G G GKS L
Sbjct: 15 TENLYFQSMAKSAEVKLAIFGRAGVGKSAL 44
>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure
initiative, midwest CENT structural genomics, MCSG;
2.79A {Clostridium symbiosum atcc 14940}
Length = 223
Score = 25.1 bits (54), Expect = 2.1
Identities = 8/41 (19%), Positives = 18/41 (43%)
Query: 7 KVVMSKVPIFVILGSTGTGKSKLGIEIAKKFNGEIISADSM 47
+ + +K I I G+G +G ++A++ D +
Sbjct: 8 RFMGNKNLIITIEREYGSGGRIVGKKLAEELGIHFYDDDIL 48
>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase,
HEL helix motif, transcription regulator; 3.20A
{Streptococcus pneumoniae}
Length = 253
Score = 24.9 bits (53), Expect = 2.2
Identities = 14/37 (37%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 11 SKVPIFVIL-GSTGTGKSKLGIEIAKKFNGEIISADS 46
SK PI ++L G +G GK+ + K+F G I+ D
Sbjct: 29 SKQPIAILLGGQSGAGKTTIHRIKQKEFQGNIVIIDG 65
>2pw9_A Putative formate dehydrogenase accessory protein; structural
genomics, unknown function, PSI-2, protein structure
initiative; 2.10A {Desulfotalea psychrophila LSV54}
SCOP: c.97.1.5
Length = 268
Score = 24.9 bits (55), Expect = 2.3
Identities = 10/33 (30%), Positives = 15/33 (45%), Gaps = 4/33 (12%)
Query: 6 LKVVMSKVPIFVILGSTGTGKSKLGIEIAKKFN 38
LK +PI + S S LG+ +AK+
Sbjct: 209 LKCARIGIPIIMSRTSP----SSLGLALAKRSG 237
>2bvc_A Glutamine synthetase 1; ligase, transition state mimic; HET: P3S
ADP; 2.1A {Mycobacterium tuberculosis} SCOP: d.15.9.1
d.128.1.1 PDB: 2wgs_A* 2whi_A* 3zxr_A* 3zxv_A* 1hto_A*
1htq_A*
Length = 486
Score = 24.5 bits (54), Expect = 3.0
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 32 EIAKKFNGEIISADSMQGLKFLV 54
EI +FN + +AD MQ K+++
Sbjct: 235 EINYQFNSLLHAADDMQLYKYII 257
>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication;
1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB:
1f2u_A* 1us8_A*
Length = 149
Score = 24.3 bits (53), Expect = 3.0
Identities = 7/13 (53%), Positives = 10/13 (76%)
Query: 15 IFVILGSTGTGKS 27
I +I+G G+GKS
Sbjct: 25 INLIIGQNGSGKS 37
>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter,
transport protein; HET: ANP; 2.90A {Thermotoga maritima}
Length = 587
Score = 24.4 bits (54), Expect = 3.2
Identities = 8/12 (66%), Positives = 10/12 (83%)
Query: 18 ILGSTGTGKSKL 29
+LG TG+GKS L
Sbjct: 374 VLGETGSGKSTL 385
>1f52_A Glutamine synthetase; ADP, MPD, ligase; HET: ADP; 2.49A {Salmonella
typhimurium} SCOP: d.15.9.1 d.128.1.1 PDB: 1f1h_A*
1fpy_A* 1lgr_A* 2lgs_A* 2gls_A
Length = 468
Score = 24.5 bits (54), Expect = 3.2
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 32 EIAKKFNGEIISADSMQGLKFLV 54
E+A +FN AD +Q K++V
Sbjct: 220 EVATRFNTMTKKADEIQIYKYVV 242
>2hzl_A Trap-T family sorbitol/mannitol transporter, periplasmic binding
protein, SMOM; trap transporter, periplasmic subunit,
ligand binding; 1.40A {Rhodobacter sphaeroides 2} PDB:
2hzk_A
Length = 365
Score = 24.3 bits (53), Expect = 3.3
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 30 GIEIAKKFNGEIISADSMQGLKF 52
G+++ F EI + MQGLK
Sbjct: 154 GVQMGGWFRREINTVADMQGLKM 176
>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt
transport, TM02 hydrolase, inner membrane, membrane,
nucleotide-binding; 2.30A {Thermotoga maritima}
Length = 266
Score = 24.1 bits (53), Expect = 3.6
Identities = 8/22 (36%), Positives = 12/22 (54%), Gaps = 4/22 (18%)
Query: 18 ILGSTGTGKSKLGIEIAKKFNG 39
+ G+TG+GKS L + G
Sbjct: 38 VAGNTGSGKSTL----LQIVAG 55
>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics,
cell membrane, cobalt transport, hydrolase, ION
transport; 2.30A {Clostridium perfringens atcc 13124}
Length = 275
Score = 24.0 bits (53), Expect = 3.9
Identities = 11/22 (50%), Positives = 12/22 (54%), Gaps = 4/22 (18%)
Query: 18 ILGSTGTGKSKLGIEIAKKFNG 39
ILG G GKS L + FNG
Sbjct: 39 ILGGNGVGKSTL----FQNFNG 56
>2qor_A Guanylate kinase; phosphotransferase, purine metabolism,
structural genomics, structural genomics of pathogenic
protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium
vivax}
Length = 204
Score = 24.0 bits (53), Expect = 4.0
Identities = 11/38 (28%), Positives = 19/38 (50%), Gaps = 3/38 (7%)
Query: 10 MSKVPIFVILGSTGTGKSKLGIEIAKKFNGEI---ISA 44
M+++P V+ G +G GK L ++ +F IS
Sbjct: 9 MARIPPLVVCGPSGVGKGTLIKKVLSEFPSRFRFSISC 46
>3ng0_A Glutamine synthetase; GSI, nitrogen metabolism, synec ligase; HET:
ANP; 2.80A {Synechocystis SP}
Length = 473
Score = 24.1 bits (53), Expect = 4.0
Identities = 7/23 (30%), Positives = 15/23 (65%)
Query: 32 EIAKKFNGEIISADSMQGLKFLV 54
E+ KF+ + SAD++ K+++
Sbjct: 223 ELGIKFDKLVNSADNLMIYKYVI 245
>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics,
GTP-binding, nucleotide-binding, signaling protein;
HET: GDP; 1.89A {Plasmodium falciparum}
Length = 208
Score = 24.0 bits (52), Expect = 4.1
Identities = 8/22 (36%), Positives = 12/22 (54%), Gaps = 2/22 (9%)
Query: 10 MSKVPIF--VILGSTGTGKSKL 29
M K + V+LG + GKS +
Sbjct: 2 MEKKSSYKTVLLGESSVGKSSI 23
>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC,
coiled coil, GTP- binding, nucleotide-binding, immune
system; HET: GDP; 2.15A {Homo sapiens}
Length = 239
Score = 24.2 bits (52), Expect = 4.2
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 17 VILGSTGTGKSKLGIEIAKK 36
V++G TG GKS G I +
Sbjct: 33 VLVGKTGAGKSATGNSILGR 52
>3auy_A DNA double-strand break repair RAD50 ATPase; DNA repair, ABC
transporter ATPase domain-like; HET: DNA ADP; 2.70A
{Methanocaldococcus jannaschii} PDB: 3aux_A* 3av0_B*
Length = 371
Score = 24.0 bits (52), Expect = 4.2
Identities = 7/13 (53%), Positives = 9/13 (69%)
Query: 15 IFVILGSTGTGKS 27
I I+G G+GKS
Sbjct: 27 IVAIIGENGSGKS 39
>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase;
1.90A {Tomato mosaic virus}
Length = 446
Score = 24.0 bits (51), Expect = 4.4
Identities = 9/30 (30%), Positives = 14/30 (46%), Gaps = 3/30 (10%)
Query: 11 SKVPIFVILGSTGTGKSKLGIEIAKKFNGE 40
S + ++ G G GK+K I + N E
Sbjct: 159 SSAKVVLVDGVPGCGKTKE---ILSRVNFE 185
>3lxw_A GTPase IMAP family member 1; immunity, structural genomics
consortium, SGC, immune system; HET: GDP; 2.21A {Homo
sapiens} PDB: 3v70_A*
Length = 247
Score = 23.9 bits (51), Expect = 4.6
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 17 VILGSTGTGKSKLGIEIAKK 36
+++G TG GKS G I +
Sbjct: 25 ILVGRTGAGKSATGNSILGQ 44
>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed
alpha-beta fold, elongated beta-sheet, walker A motif,
P-loop structural motif; 1.90A {Escherichia coli} SCOP:
c.37.1.10 PDB: 1p9n_A
Length = 174
Score = 24.1 bits (51), Expect = 4.7
Identities = 6/25 (24%), Positives = 12/25 (48%)
Query: 13 VPIFVILGSTGTGKSKLGIEIAKKF 37
+P+ +GTGK+ L ++
Sbjct: 6 IPLLAFAAWSGTGKTTLLKKLIPAL 30
>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 = 23.9 bits (51), Expect = 4.9
Identities = 6/14 (42%), Positives = 10/14 (71%)
Query: 14 PIFVILGSTGTGKS 27
I +I G+ G+GK+
Sbjct: 6 EICLITGTPGSGKT 19
>3r20_A Cytidylate kinase; structural genomics, seattle structural
genomics center for infectious disease, ssgcid, ADP,
DCMP, D transferase; 2.00A {Mycobacterium smegmatis}
PDB: 3r8c_A 4die_A*
Length = 233
Score = 24.0 bits (53), Expect = 5.1
Identities = 8/30 (26%), Positives = 15/30 (50%)
Query: 9 VMSKVPIFVILGSTGTGKSKLGIEIAKKFN 38
++S + + G GTGKS + +A+
Sbjct: 5 MVSGSLVVAVDGPAGTGKSSVSRGLARALG 34
>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 = 23.7 bits (51), Expect = 5.5
Identities = 8/33 (24%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 15 IFVILGSTGTGKSKLGIEIAKKFNGEIISADSM 47
+ +I G G+GKS+ ++ K+ ++I +
Sbjct: 3 VILITGMPGSGKSEFA-KLLKERGAKVIVMSDV 34
>3h1t_A Type I site-specific restriction-modification system, R
(restriction) subunit; hydrolase, restriction enzyme
HSDR, ATP-binding; 2.30A {Vibrio vulnificus}
Length = 590
Score = 24.0 bits (52), Expect = 5.7
Identities = 7/16 (43%), Positives = 11/16 (68%)
Query: 22 TGTGKSKLGIEIAKKF 37
TGTGK+ + +I+ K
Sbjct: 207 TGTGKTVVAFQISWKL 222
>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 = 23.7 bits (51), Expect = 6.2
Identities = 9/26 (34%), Positives = 13/26 (50%), Gaps = 2/26 (7%)
Query: 17 VILGSTGTGKSKLGIEIAKKF--NGE 40
+ G+TGTGK+ L + N E
Sbjct: 285 LATGATGTGKTLLVSRFVENACANKE 310
>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 = 23.3 bits (51), Expect = 6.9
Identities = 12/36 (33%), Positives = 22/36 (61%), Gaps = 2/36 (5%)
Query: 10 MSKVPIFVILGSTGTGKSKLGIEIAKKFNGEIISAD 45
M++ PIF++ G+ G G + +G E+A+ E + D
Sbjct: 1 MTE-PIFMV-GARGCGMTTVGRELARALGYEFVDTD 34
>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase;
HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*
Length = 368
Score = 23.4 bits (50), Expect = 6.9
Identities = 7/24 (29%), Positives = 13/24 (54%)
Query: 15 IFVILGSTGTGKSKLGIEIAKKFN 38
+I G GTGK+ + + +A+
Sbjct: 72 AVLIAGQPGTGKTAIAMGMAQALG 95
>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 = 23.3 bits (51), Expect = 7.1
Identities = 10/36 (27%), Positives = 18/36 (50%), Gaps = 2/36 (5%)
Query: 10 MSKVPIFVILGSTGTGKSKLGIEIAKKFNGEIISAD 45
M+ ++ G G+GKS +G +AK ++ D
Sbjct: 1 MAP-KAVLV-GLPGSGKSTIGRRLAKALGVGLLDTD 34
>1u6z_A Exopolyphosphatase; alpha/beta protein, askha (acetate and sugar
kinases, HSC70, superfamily; 1.90A {Escherichia coli}
SCOP: a.211.1.5 c.55.1.8 c.55.1.8 PDB: 2flo_A*
Length = 513
Score = 23.4 bits (51), Expect = 7.5
Identities = 13/55 (23%), Positives = 26/55 (47%), Gaps = 3/55 (5%)
Query: 17 VILGSTGTGKSKLGIEIAKKFNGEIISADSMQGL-KFLVECRV--KLELLRLKPD 68
V +G++GT K+ + + II+ + ++ L K ++ R L L L +
Sbjct: 212 VAMGASGTIKAAHEVLMEMGEKDGIITPERLEKLVKEVLRHRNFASLSLPGLSEE 266
>1xjc_A MOBB protein homolog; structural genomics, midwest center for
structural GEN PSI, protein structure initiative, MCSG;
2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10
Length = 169
Score = 23.5 bits (50), Expect = 7.6
Identities = 4/27 (14%), Positives = 13/27 (48%)
Query: 11 SKVPIFVILGSTGTGKSKLGIEIAKKF 37
+ + ++ ++G +GK+ L +
Sbjct: 2 NAMNVWQVVGYKHSGKTTLMEKWVAAA 28
>1gku_B Reverse gyrase, TOP-RG; topoisomerase, DNA supercoiling, archaea,
helicase; 2.7A {Archaeoglobus fulgidus} SCOP: c.37.1.16
c.37.1.16 e.10.1.1 PDB: 1gl9_B*
Length = 1054
Score = 23.5 bits (51), Expect = 8.2
Identities = 6/19 (31%), Positives = 10/19 (52%)
Query: 16 FVILGSTGTGKSKLGIEIA 34
F TG GK+ G+ ++
Sbjct: 74 FAATAPTGVGKTSFGLAMS 92
>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE;
1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A*
3p1j_A
Length = 260
Score = 23.5 bits (50), Expect = 8.2
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 17 VILGSTGTGKSKLGIEIAKK 36
+++G TGTGKS G I +K
Sbjct: 26 ILVGKTGTGKSAAGNSILRK 45
>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE
delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} PDB:
1xtq_A* 1xtr_A* 1xts_A* 2l0x_A*
Length = 181
Score = 23.3 bits (51), Expect = 8.7
Identities = 8/22 (36%), Positives = 9/22 (40%), Gaps = 2/22 (9%)
Query: 10 MSKVPIF--VILGSTGTGKSKL 29
M + ILG GKS L
Sbjct: 1 MPQSKSRKIAILGYRSVGKSSL 22
>2iut_A DNA translocase FTSK; nucleotide-binding, chromosome partition,
ATP-binding, DNA- cell division, DNA translocation,
KOPS, membrane; HET: DNA SAP; 2.25A {Pseudomonas
aeruginosa} PDB: 2iuu_A*
Length = 574
Score = 23.1 bits (50), Expect = 9.2
Identities = 8/18 (44%), Positives = 15/18 (83%)
Query: 10 MSKVPIFVILGSTGTGKS 27
++K+P ++ G+TG+GKS
Sbjct: 211 LAKMPHLLVAGTTGSGKS 228
>2nu8_B SCS-beta, succinyl-COA synthetase beta chain; citric acid cycle,
heterotetramer, ligase, ATP-grAsp fold, R fold; HET:
COA; 2.15A {Escherichia coli} SCOP: c.23.4.1 d.142.1.4
PDB: 1scu_B* 2nu6_B* 1jkj_B* 2nu7_B* 2nu9_B* 2nua_B*
2scu_B* 1jll_B* 1cqj_B* 1cqi_B*
Length = 388
Score = 23.2 bits (51), Expect = 9.7
Identities = 10/37 (27%), Positives = 16/37 (43%), Gaps = 3/37 (8%)
Query: 12 KVPIFVILGSTGTGKSKLGIEIAKKFNGEIISADSMQ 48
VP+ V L G ++LG + II+A +
Sbjct: 342 NVPVVVRL--EGN-NAELGAKKLADSGLNIIAAKGLT 375
>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase,
translation; HET: ADP; 2.05A {Sulfolobus solfataricus}
Length = 538
Score = 23.1 bits (50), Expect = 9.9
Identities = 8/30 (26%), Positives = 11/30 (36%), Gaps = 3/30 (10%)
Query: 15 IFVILGSTGTGKSKLGIEIA---KKFNGEI 41
I ILG G GK+ + G +
Sbjct: 296 IIGILGPNGIGKTTFARILVGEITADEGSV 325
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
0.321 0.139 0.376
Gapped
Lambda K H
0.267 0.0563 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 981,902
Number of extensions: 47052
Number of successful extensions: 371
Number of sequences better than 10.0: 1
Number of HSP's gapped: 371
Number of HSP's successfully gapped: 99
Length of query: 68
Length of database: 6,701,793
Length adjustment: 38
Effective length of query: 30
Effective length of database: 5,640,795
Effective search space: 169223850
Effective search space used: 169223850
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 (23.8 bits)