RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16321
(102 letters)
>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding,
nucleotide-binding, HY; HET: ADP; 3.11A
{Methanocaldococcus jannaschii}
Length = 285
Score = 172 bits (439), Expect = 1e-55
Identities = 55/81 (67%), Positives = 73/81 (90%)
Query: 12 GSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATF 71
G L+ Q+QEI+E VELPL HPE +E++GI+PPKG++LYGPPGTGKTLLAKAVA +T+ATF
Sbjct: 20 GGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATF 79
Query: 72 LRVVGSELIQKYLGDGPKLVR 92
+RVVGSEL++K++G+G LV+
Sbjct: 80 IRVVGSELVKKFIGEGASLVK 100
>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 = 125 bits (316), Expect = 5e-37
Identities = 36/81 (44%), Positives = 54/81 (66%)
Query: 12 GSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATF 71
G L+ +E++E V+ P+ HP+ + + G+ P KGV+ YGPPG GKTLLAKA+AN+ A F
Sbjct: 18 GGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANF 77
Query: 72 LRVVGSELIQKYLGDGPKLVR 92
+ + G EL+ + G+ VR
Sbjct: 78 ISIKGPELLTMWFGESEANVR 98
>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A
{Homo sapiens}
Length = 274
Score = 122 bits (308), Expect = 4e-36
Identities = 34/81 (41%), Positives = 55/81 (67%)
Query: 12 GSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATF 71
G+L+ +E+ ++ P+ +P+ ++ +G+ P GV+L GPPG GKTLLAKAVAN++ F
Sbjct: 13 GALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGLNF 72
Query: 72 LRVVGSELIQKYLGDGPKLVR 92
+ V G EL+ Y+G+ + VR
Sbjct: 73 ISVKGPELLNMYVGESERAVR 93
>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 = 126 bits (318), Expect = 5e-36
Identities = 41/81 (50%), Positives = 58/81 (71%)
Query: 12 GSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATF 71
G Q+ +IKE VELPL HP ++ +G+KPP+G++LYGPPGTGKTL+A+AVAN+T A F
Sbjct: 207 GGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFF 266
Query: 72 LRVVGSELIQKYLGDGPKLVR 92
+ G E++ K G+ +R
Sbjct: 267 FLINGPEIMSKLAGESESNLR 287
>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 = 122 bits (308), Expect = 3e-34
Identities = 36/81 (44%), Positives = 54/81 (66%)
Query: 12 GSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATF 71
G L+ +E++E V+ P+ HP+ + + G+ P KGV+ YGPPG GKTLLAKA+AN+ A F
Sbjct: 480 GGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANF 539
Query: 72 LRVVGSELIQKYLGDGPKLVR 92
+ + G EL+ + G+ VR
Sbjct: 540 ISIKGPELLTMWFGESEANVR 560
Score = 107 bits (268), Expect = 1e-28
Identities = 41/81 (50%), Positives = 58/81 (71%)
Query: 12 GSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATF 71
G Q+ +IKE VELPL HP ++ +G+KPP+G++LYGPPGTGKTL+A+AVAN+T A F
Sbjct: 207 GGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFF 266
Query: 72 LRVVGSELIQKYLGDGPKLVR 92
+ G E++ K G+ +R
Sbjct: 267 FLINGPEIMSKLAGESESNLR 287
Score = 39.4 bits (92), Expect = 6e-05
Identities = 5/38 (13%), Positives = 10/38 (26%)
Query: 19 QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGK 56
Q +++S + G P +G
Sbjct: 760 QTLQQSRGFGSFRFPSGNQGGAGPSQGSGGGTGGSVYT 797
>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding,
hydrolase; 2.70A {Drosophila melanogaster}
Length = 297
Score = 114 bits (288), Expect = 7e-33
Identities = 41/82 (50%), Positives = 53/82 (64%), Gaps = 1/82 (1%)
Query: 12 GSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATF 71
DV Q ++E V LP PE + + P KG++L+GPPG GKTLLA+AVA + SATF
Sbjct: 24 AGQDVAKQALQEMVILPSVRPELFTGLR-APAKGLLLFGPPGNGKTLLARAVATECSATF 82
Query: 72 LRVVGSELIQKYLGDGPKLVRV 93
L + + L KY+GDG KLVR
Sbjct: 83 LNISAASLTSKYVGDGEKLVRA 104
>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 = 114 bits (288), Expect = 1e-32
Identities = 35/81 (43%), Positives = 54/81 (66%), Gaps = 1/81 (1%)
Query: 12 GSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATF 71
L+ + +KE+V LP+ P ++ KP G++LYGPPGTGK+ LAKAVA + ++TF
Sbjct: 21 AGLEGAKEALKEAVILPVKFPHLFK-GNRKPTSGILLYGPPGTGKSYLAKAVATEANSTF 79
Query: 72 LRVVGSELIQKYLGDGPKLVR 92
V S+L+ K++G+ KLV+
Sbjct: 80 FSVSSSDLVSKWMGESEKLVK 100
>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 = 113 bits (284), Expect = 7e-32
Identities = 34/81 (41%), Positives = 52/81 (64%), Gaps = 1/81 (1%)
Query: 12 GSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATF 71
++ IKE V P+ P+ + + PPKG++L+GPPGTGKTL+ K +A+Q+ ATF
Sbjct: 87 AGVEFAKATIKEIVVWPMLRPDIFTGLR-GPPKGILLFGPPGTGKTLIGKCIASQSGATF 145
Query: 72 LRVVGSELIQKYLGDGPKLVR 92
+ S L K++G+G K+VR
Sbjct: 146 FSISASSLTSKWVGEGEKMVR 166
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo
sapiens}
Length = 389
Score = 111 bits (280), Expect = 3e-31
Identities = 36/82 (43%), Positives = 53/82 (64%), Gaps = 1/82 (1%)
Query: 12 GSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATF 71
D+ Q ++E V LP PE + + P +G++L+GPPG GKT+LAKAVA +++ATF
Sbjct: 118 AGQDLAKQALQEIVILPSLRPELFTGLR-APARGLLLFGPPGNGKTMLAKAVAAESNATF 176
Query: 72 LRVVGSELIQKYLGDGPKLVRV 93
+ + L KY+G+G KLVR
Sbjct: 177 FNISAASLTSKYVGEGEKLVRA 198
>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic;
photosynthesis, rubisco activase, AAA+ protein; 2.95A
{Nicotiana tabacum} PDB: 3zw6_A
Length = 293
Score = 109 bits (273), Expect = 1e-30
Identities = 16/84 (19%), Positives = 33/84 (39%), Gaps = 4/84 (4%)
Query: 10 KRGSLDVQIQEIKESVELPLTHPE-YYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTS 68
K + + + L + + + + IK P + ++G G GK+ + V +
Sbjct: 5 KLDGFYIAPAFMDK---LVVHITKNFLKLPNIKVPLILGIWGGKGQGKSFQCELVFRKMG 61
Query: 69 ATFLRVVGSELIQKYLGDGPKLVR 92
+ + EL G+ KL+R
Sbjct: 62 INPIMMSAGELESGNAGEPAKLIR 85
>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo
sapiens}
Length = 322
Score = 109 bits (273), Expect = 2e-30
Identities = 33/83 (39%), Positives = 53/83 (63%), Gaps = 2/83 (2%)
Query: 12 GSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQT-SAT 70
L+ + +KE+V LP+ P + P +G++L+GPPGTGK+ LAKAVA + ++T
Sbjct: 15 AGLEGAKEALKEAVILPIKFPHLFTGK-RTPWRGILLFGPPGTGKSYLAKAVATEANNST 73
Query: 71 FLRVVGSELIQKYLGDGPKLVRV 93
F + S+L+ K+LG+ KLV+
Sbjct: 74 FFSISSSDLVSKWLGESEKLVKN 96
>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 = 102 bits (256), Expect = 8e-28
Identities = 35/81 (43%), Positives = 54/81 (66%), Gaps = 1/81 (1%)
Query: 12 GSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATF 71
L+ + +KE+V LP+ P ++ KP G++LYGPPGTGK+ LAKAVA + ++TF
Sbjct: 54 AGLEGAKEALKEAVILPVKFPHLFK-GNRKPTSGILLYGPPGTGKSYLAKAVATEANSTF 112
Query: 72 LRVVGSELIQKYLGDGPKLVR 92
V S+L+ K++G+ KLV+
Sbjct: 113 FSVSSSDLVSKWMGESEKLVK 133
>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 = 96.6 bits (240), Expect = 3e-25
Identities = 33/82 (40%), Positives = 53/82 (64%), Gaps = 2/82 (2%)
Query: 12 GSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQT-SAT 70
L+ + +KE+V LP+ P + P +G++L+GPPGTGK+ LAKAVA + ++T
Sbjct: 137 AGLEGAKEALKEAVILPIKFPHLFTGK-RTPWRGILLFGPPGTGKSYLAKAVATEANNST 195
Query: 71 FLRVVGSELIQKYLGDGPKLVR 92
F + S+L+ K+LG+ KLV+
Sbjct: 196 FFSISSSDLVSKWLGESEKLVK 217
>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 = 92.1 bits (229), Expect = 2e-24
Identities = 15/76 (19%), Positives = 33/76 (43%), Gaps = 3/76 (3%)
Query: 12 GSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATF 71
+ + + EL + + + P V+L GPP +GKT LA +A +++ F
Sbjct: 36 IKWGDPVTRVLDDGELLVQQTKNSDR---TPLVSVLLEGPPHSGKTALAAKIAEESNFPF 92
Query: 72 LRVVGSELIQKYLGDG 87
+++ + + +
Sbjct: 93 IKICSPDKMIGFSETA 108
>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 = 85.0 bits (211), Expect = 8e-22
Identities = 34/74 (45%), Positives = 46/74 (62%), Gaps = 1/74 (1%)
Query: 19 QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSE 78
E++E V+ L PE + ++G K PKG +L GPPG GKTLLAKAVA + FL + G+E
Sbjct: 16 LEVREFVDY-LKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAE 74
Query: 79 LIQKYLGDGPKLVR 92
++ G G VR
Sbjct: 75 FVEVIGGLGAARVR 88
>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 = 79.6 bits (197), Expect = 1e-19
Identities = 37/74 (50%), Positives = 48/74 (64%), Gaps = 1/74 (1%)
Query: 19 QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSE 78
+E+ E V+ L +PE Y +G K PKGV+L GPPGTGKTLLAKAVA + F + GS
Sbjct: 21 EEVVEIVDF-LKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSS 79
Query: 79 LIQKYLGDGPKLVR 92
I+ ++G G VR
Sbjct: 80 FIEMFVGLGASRVR 93
>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 = 78.1 bits (193), Expect = 3e-19
Identities = 34/79 (43%), Positives = 49/79 (62%), Gaps = 1/79 (1%)
Query: 14 LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLR 73
+ +E+KE VE L +P + EMG + PKGV+L GPPG GKT LA+AVA + F+
Sbjct: 21 AEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFIT 79
Query: 74 VVGSELIQKYLGDGPKLVR 92
GS+ ++ ++G G VR
Sbjct: 80 ASGSDFVEMFVGVGAARVR 98
>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
3.20A {Thermus thermophilus} SCOP: c.37.1.20
Length = 278
Score = 78.2 bits (193), Expect = 3e-19
Identities = 34/79 (43%), Positives = 49/79 (62%), Gaps = 1/79 (1%)
Query: 14 LDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLR 73
+ +E+KE VE L +P + EMG + PKGV+L GPPG GKT LA+AVA + F+
Sbjct: 45 AEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFIT 103
Query: 74 VVGSELIQKYLGDGPKLVR 92
GS+ ++ ++G G VR
Sbjct: 104 ASGSDFVEMFVGVGAARVR 122
>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A
{Escherichia coli} SCOP: c.37.1.20
Length = 257
Score = 77.7 bits (192), Expect = 4e-19
Identities = 33/74 (44%), Positives = 49/74 (66%), Gaps = 1/74 (1%)
Query: 19 QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSE 78
+E+ E VE L P ++++G K PKGV++ GPPGTGKTLLAKA+A + F + GS+
Sbjct: 22 EEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSD 80
Query: 79 LIQKYLGDGPKLVR 92
++ ++G G VR
Sbjct: 81 FVEMFVGVGASRVR 94
>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 = 73.8 bits (182), Expect = 5e-17
Identities = 33/74 (44%), Positives = 49/74 (66%), Gaps = 1/74 (1%)
Query: 19 QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSE 78
+E+KE VE L P + +G + PKG++L GPPGTGKTLLA+AVA + + F + GS+
Sbjct: 26 EELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISGSD 84
Query: 79 LIQKYLGDGPKLVR 92
++ ++G G VR
Sbjct: 85 FVELFVGVGAARVR 98
>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET:
ADP; 3.90A {Thermus thermophilus}
Length = 499
Score = 73.8 bits (182), Expect = 5e-17
Identities = 34/74 (45%), Positives = 48/74 (64%), Gaps = 1/74 (1%)
Query: 19 QEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSE 78
+E+KE VE L +P + EMG + PKGV+L GPPG GKT LA+AVA + F+ GS+
Sbjct: 41 EELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSD 99
Query: 79 LIQKYLGDGPKLVR 92
++ ++G G VR
Sbjct: 100 FVEMFVGVGAARVR 113
>3pvs_A Replication-associated recombination protein A; maintenance of
genome stability Pro recombination; 2.50A {Escherichia
coli}
Length = 447
Score = 51.0 bits (123), Expect = 4e-09
Identities = 15/29 (51%), Positives = 21/29 (72%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRV 74
+IL+GPPGTGKT LA+ +A +A R+
Sbjct: 53 MILWGPPGTGKTTLAEVIARYANADVERI 81
>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 = 51.0 bits (121), Expect = 5e-09
Identities = 17/67 (25%), Positives = 30/67 (44%), Gaps = 10/67 (14%)
Query: 4 SYKALKKRGSLDVQIQEIKESVELPLTHPEYYEE-----MGIKPPKGVILYGPPGTGKTL 58
Y + R D Q+ K +V + + Y + + ++P K V++ G G+GKT
Sbjct: 111 MYIEQRDRLYNDNQVF-AKYNV----SRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTW 165
Query: 59 LAKAVAN 65
+A V
Sbjct: 166 VALDVCL 172
Score = 28.3 bits (62), Expect = 0.44
Identities = 6/37 (16%), Positives = 15/37 (40%), Gaps = 7/37 (18%)
Query: 21 IKESVEL--PLTHPEYYEEMGIKPPKGV-ILYGPPGT 54
I+ S+ + P + + ++ + + P I P
Sbjct: 359 IESSLNVLEPAEYRKMFDRLSVF-PPSAHI---PTIL 391
>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein,
calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides}
PDB: 3syk_A 3zuh_A*
Length = 309
Score = 48.6 bits (115), Expect = 3e-08
Identities = 16/86 (18%), Positives = 33/86 (38%), Gaps = 14/86 (16%)
Query: 17 QIQEIKESVELPLTHPEYYEEMGIKPPKG---VILYGPPGTGKTLLAKAVANQTSA---- 69
+I+E + + +++G+ + G PGTGKT +A +A
Sbjct: 42 RIRETAALLLVE----RARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYV 97
Query: 70 ---TFLRVVGSELIQKYLGDGPKLVR 92
+ V +L+ +Y+G +
Sbjct: 98 RKGHLVSVTRDDLVGQYIGHTAPKTK 123
>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 = 47.4 bits (113), Expect = 5e-08
Identities = 11/34 (32%), Positives = 14/34 (41%)
Query: 33 EYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQ 66
+ + KG+ G PG GKT LA A
Sbjct: 28 VFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKA 61
>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 = 47.6 bits (113), Expect = 7e-08
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 44 KGVILYGPPGTGKTLLAKAVANQ 66
+ +LYGPPG GKT A VA +
Sbjct: 78 RAAMLYGPPGIGKTTAAHLVAQE 100
>2qgz_A Helicase loader, putative primosome component; structural genomics,
PSI-2, protein structure initiative; 2.40A
{Streptococcus pyogenes serotype M3}
Length = 308
Score = 46.8 bits (111), Expect = 1e-07
Identities = 12/34 (35%), Positives = 20/34 (58%)
Query: 33 EYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQ 66
++ E+ KG+ LYG G GK+ L A+A++
Sbjct: 142 DFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHE 175
>2w58_A DNAI, primosome component (helicase loader); ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.50A
{Geobacillus kaustophilus HTA426}
Length = 202
Score = 45.4 bits (108), Expect = 2e-07
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 7/48 (14%)
Query: 40 IKPPKGVILYGPPGTGKTLLAKAVANQ-----TSATFLRVVGSELIQK 82
K KG+ L+G G GKT L A+AN+ S+ + V EL ++
Sbjct: 51 GKKMKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVYV--PELFRE 96
>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 = 43.0 bits (101), Expect = 2e-06
Identities = 13/35 (37%), Positives = 20/35 (57%)
Query: 39 GIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLR 73
G++ P +I+ G P TGKT L++A+A L
Sbjct: 1 GMQTPALIIVTGHPATGKTTLSQALATGLRLPLLS 35
>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 = 41.9 bits (99), Expect = 5e-06
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 47 ILYGPPGTGKTLLAKAVANQ 66
+ GPPGTGKT A A+A
Sbjct: 42 LFSGPPGTGKTATAIALARD 61
>2chg_A Replication factor C small subunit; DNA-binding protein, DNA
replication, clamp loader, AAA+ ATPase, ATP-binding,
nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus
fulgidus}
Length = 226
Score = 41.8 bits (99), Expect = 5e-06
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 47 ILYGPPGTGKTLLAKAVANQ 66
+ GPPGTGKT A A+A
Sbjct: 42 LFSGPPGTGKTATAIALARD 61
>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 = 41.5 bits (97), Expect = 1e-05
Identities = 19/41 (46%), Positives = 26/41 (63%), Gaps = 2/41 (4%)
Query: 41 KPPKGVILYGPPGTGKTLLAKAVANQ--TSATFLRVVGSEL 79
+ V+L GPPGTGKT LA A+A + + F +VGSE+
Sbjct: 61 MAGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEV 101
>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 = 41.2 bits (97), Expect = 1e-05
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 47 ILYGPPGTGKTLLAKAVANQ 66
+ GPPG GKT A A+A +
Sbjct: 50 LFAGPPGVGKTTAALALARE 69
>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 = 40.5 bits (94), Expect = 2e-05
Identities = 8/52 (15%), Positives = 21/52 (40%), Gaps = 9/52 (17%)
Query: 15 DVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQ 66
+ +++ ++ + + + G GTGKT ++K + N+
Sbjct: 26 EDILRDAAIAIRYFVKNEV---------KFSNLFLGLTGTGKTFVSKYIFNE 68
>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme
function initiative, EFI, STRU genomics, transferase;
1.60A {Janibacter SP}
Length = 200
Score = 40.1 bits (93), Expect = 2e-05
Identities = 15/51 (29%), Positives = 26/51 (50%)
Query: 24 SVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRV 74
V+L + + M +P + V++ G G+GKT +A VA++T F
Sbjct: 10 GVDLGTENLYFQSMMTGEPTRHVVVMGVSGSGKTTIAHGVADETGLEFAEA 60
>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 = 40.0 bits (93), Expect = 3e-05
Identities = 13/52 (25%), Positives = 23/52 (44%), Gaps = 9/52 (17%)
Query: 15 DVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQ 66
+ QI++I + + P + +YG GTGKT + K V ++
Sbjct: 26 EDQIRKIASILAPLYREEK---------PNNIFIYGLTGTGKTAVVKFVLSK 68
>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman
fold, hydro; HET: ADP; 2.91A {Escherichia coli}
Length = 500
Score = 39.7 bits (93), Expect = 4e-05
Identities = 10/30 (33%), Positives = 15/30 (50%), Gaps = 1/30 (3%)
Query: 46 VILYGPPGTGKTLLAKAVANQ-TSATFLRV 74
V L GPPG K+L+A+ + +A
Sbjct: 44 VFLLGPPGIAKSLIARRLKFAFQNARAFEY 73
>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 = 39.8 bits (92), Expect = 4e-05
Identities = 12/52 (23%), Positives = 21/52 (40%), Gaps = 7/52 (13%)
Query: 15 DVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQ 66
+ Q+Q++ + L +P L G PGTGKT+ + +
Sbjct: 23 EQQLQQLDILLGNWLRNPG-------HHYPRATLLGRPGTGKTVTLRKLWEL 67
>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 = 37.9 bits (89), Expect = 2e-04
Identities = 17/33 (51%), Positives = 21/33 (63%), Gaps = 2/33 (6%)
Query: 44 KGVIL--YGPPGTGKTLLAKAVANQTSATFLRV 74
KG IL GPPG GKT LAK++A F+R+
Sbjct: 107 KGPILCLAGPPGVGKTSLAKSIAKSLGRKFVRI 139
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 37.0 bits (86), Expect = 4e-04
Identities = 11/28 (39%), Positives = 18/28 (64%)
Query: 37 EMGIKPPKGVILYGPPGTGKTLLAKAVA 64
+ + V+L G PGTGK++L +A+A
Sbjct: 54 KTAANQKRHVLLIGEPGTGKSMLGQAMA 81
>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable
holliday junction DNA helicase; HET: ADP; 2.69A
{Campylobacter jejuni subsp}
Length = 338
Score = 36.8 bits (86), Expect = 4e-04
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 46 VILYGPPGTGKTLLAKAVAN 65
++ GP G GKT LA ++
Sbjct: 58 ILFSGPAGLGKTTLANIISY 77
>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 = 36.8 bits (86), Expect = 4e-04
Identities = 12/20 (60%), Positives = 15/20 (75%)
Query: 46 VILYGPPGTGKTLLAKAVAN 65
V+L GPPG GKT LA +A+
Sbjct: 54 VLLAGPPGLGKTTLAHIIAS 73
>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 = 36.4 bits (85), Expect = 5e-04
Identities = 11/20 (55%), Positives = 16/20 (80%)
Query: 46 VILYGPPGTGKTLLAKAVAN 65
++L+GPPG GKT LA +A+
Sbjct: 41 LLLFGPPGLGKTTLAHVIAH 60
>3t61_A Gluconokinase; PSI-biology, structural genomics, protein
structure initiati YORK structural genomics research
consortium, nysgrc; 2.20A {Sinorhizobium meliloti}
Length = 202
Score = 36.2 bits (83), Expect = 5e-04
Identities = 8/33 (24%), Positives = 18/33 (54%)
Query: 41 KPPKGVILYGPPGTGKTLLAKAVANQTSATFLR 73
+ P +++ G G+GK+ + +A+A F+
Sbjct: 16 RFPGSIVVMGVSGSGKSSVGEAIAEACGYPFIE 48
>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 = 36.2 bits (83), Expect = 6e-04
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 8/56 (14%)
Query: 28 PLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQKY 83
PL PE+ I +L G PG GKT L K +A+++ ++ V +L ++
Sbjct: 2 PLGSPEFMLLPNI------LLTGTPGVGKTTLGKELASKSGLKYINV--GDLAREE 49
>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 = 36.3 bits (84), Expect = 6e-04
Identities = 11/21 (52%), Positives = 15/21 (71%)
Query: 46 VILYGPPGTGKTLLAKAVANQ 66
++ YGPPGTGKT A+A +
Sbjct: 49 LLFYGPPGTGKTSTIVALARE 69
>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural
genomics, PSI, protein struc initiative; 3.20A
{Agrobacterium tumefaciens str} SCOP: c.37.1.25
Length = 191
Score = 35.8 bits (82), Expect = 7e-04
Identities = 13/46 (28%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 43 PKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGDGP 88
++L G PG+GK+ +A+A+AN + S+ + Y+ G
Sbjct: 9 GNILLLSGHPGSGKSTIAEALANLPGVPKVH-FHSDDLWGYIKHGR 53
>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 = 35.9 bits (83), Expect = 8e-04
Identities = 9/20 (45%), Positives = 15/20 (75%)
Query: 45 GVILYGPPGTGKTLLAKAVA 64
GV+++G GTGK+ +A+A
Sbjct: 47 GVLVFGDRGTGKSTAVRALA 66
>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase,
antibiotic resistance, phosphorylation, mononucleoti
binding fold; HET: ATP; 2.50A {Streptomyces venezuelae}
SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A*
1qhy_A*
Length = 178
Score = 35.5 bits (81), Expect = 8e-04
Identities = 6/33 (18%), Positives = 14/33 (42%)
Query: 42 PPKGVILYGPPGTGKTLLAKAVANQTSATFLRV 74
+ +IL G GK+ + + + + +L
Sbjct: 2 TTRMIILNGGSSAGKSGIVRCLQSVLPEPWLAF 34
>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 = 35.7 bits (81), Expect = 0.001
Identities = 10/64 (15%), Positives = 19/64 (29%), Gaps = 12/64 (18%)
Query: 6 KALKKRGSL---DVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKA 62
++L+KR L I + L + K + + K L
Sbjct: 14 ESLQKRELLKSQVEDFTRIFLPIYDSLMSSQ---------NKLFYITNADDSTKFQLVND 64
Query: 63 VANQ 66
V ++
Sbjct: 65 VMDE 68
>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 = 35.2 bits (82), Expect = 0.001
Identities = 10/29 (34%), Positives = 14/29 (48%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRV 74
++L G PG KTL +A F R+
Sbjct: 49 ILLEGVPGLAKTLSVNTLAKTMDLDFHRI 77
>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 = 35.1 bits (81), Expect = 0.001
Identities = 8/21 (38%), Positives = 13/21 (61%)
Query: 46 VILYGPPGTGKTLLAKAVANQ 66
+I+ G PG GKT +A++
Sbjct: 45 MIISGMPGIGKTTSVHCLAHE 65
>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 = 34.6 bits (79), Expect = 0.002
Identities = 12/33 (36%), Positives = 17/33 (51%)
Query: 41 KPPKGVILYGPPGTGKTLLAKAVANQTSATFLR 73
+L G G+GK+ +A VA+Q A FL
Sbjct: 6 HDHHIYVLMGVSGSGKSAVASEVAHQLHAAFLD 38
>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 = 34.4 bits (79), Expect = 0.002
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 46 VILYGPPGTGKTLLAKAVANQ 66
++ YGPPGTGKT A+ +
Sbjct: 61 MLFYGPPGTGKTSTILALTKE 81
>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 = 34.1 bits (78), Expect = 0.003
Identities = 9/27 (33%), Positives = 15/27 (55%), Gaps = 2/27 (7%)
Query: 41 KPPK--GVILYGPPGTGKTLLAKAVAN 65
PK + GPP TGK++L ++ +
Sbjct: 122 GIPKKNCLAFIGPPNTGKSMLCNSLIH 148
>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 = 33.9 bits (77), Expect = 0.004
Identities = 12/50 (24%), Positives = 22/50 (44%)
Query: 38 MGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGDG 87
M +++ G PGTGKT +A+ +A + VG + + +
Sbjct: 5 MEQPKGINILITGTPGTGKTSMAEMIAAELDGFQHLEVGKLVKENHFYTE 54
>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 = 33.9 bits (78), Expect = 0.004
Identities = 6/27 (22%), Positives = 13/27 (48%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFL 72
+IL GP K+ +A ++ + +
Sbjct: 4 IILEGPDCCFKSTVAAKLSKELKYPII 30
>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 = 34.0 bits (78), Expect = 0.004
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 43 PKGVILYGPPGTGKTLLAKAVANQTS 68
P V +YG G GK++LA S
Sbjct: 147 PGWVTIYGMAGCGKSVLAAEAVRDHS 172
>2v1u_A Cell division control protein 6 homolog; DNA replication,
nucleotide-binding, replication, archaea; HET: ADP;
3.10A {Aeropyrum pernix}
Length = 387
Score = 33.6 bits (76), Expect = 0.005
Identities = 13/52 (25%), Positives = 24/52 (46%), Gaps = 9/52 (17%)
Query: 15 DVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQ 66
+ +++ + E + L + P +LYG GTGKT +A+ V +
Sbjct: 25 EAELRRLAEVLAPALRG---------EKPSNALLYGLTGTGKTAVARLVLRR 67
>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase;
HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP:
c.37.1.20 PDB: 1s9h_A
Length = 267
Score = 33.8 bits (77), Expect = 0.005
Identities = 11/32 (34%), Positives = 18/32 (56%), Gaps = 5/32 (15%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRVVGS 77
+ L+GP TGKT +A+A+A+ + G
Sbjct: 107 IWLFGPATTGKTNIAEAIAH-----TVPFYGC 133
>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase,
HEL helix motif, transcription regulator; 3.20A
{Streptococcus pneumoniae}
Length = 253
Score = 33.3 bits (75), Expect = 0.006
Identities = 16/88 (18%), Positives = 30/88 (34%), Gaps = 14/88 (15%)
Query: 15 DVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRV 74
D + + LT + + P ++L G G GKT + + + + +
Sbjct: 8 DSEFKHALARNLRSLTRGKKSSK----QPIAILLGGQSGAGKTTIHRIKQKEFQGNIVII 63
Query: 75 VG----------SELIQKYLGDGPKLVR 92
G EL Q+Y D + +
Sbjct: 64 DGDSFRSQHPHYLELQQEYGKDSVEYTK 91
>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 = 33.3 bits (76), Expect = 0.006
Identities = 15/42 (35%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLR--VVGSELIQKYLG 85
+IL G PG GK+ +K +A S + V+GS+LI++
Sbjct: 7 IILTGLPGVGKSTFSKNLAKILSKNNIDVIVLGSDLIRESFP 48
>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 = 33.3 bits (77), Expect = 0.007
Identities = 14/29 (48%), Positives = 18/29 (62%), Gaps = 5/29 (17%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRV 74
++L GP G+GKTLLA +T A L V
Sbjct: 54 ILLIGPTGSGKTLLA-----ETLARLLDV 77
>2kjq_A DNAA-related protein; solution structure, NESG, structural
genomics, PSI-2, protei structure initiative; NMR
{Neisseria meningitidis serogroup B}
Length = 149
Score = 33.0 bits (76), Expect = 0.007
Identities = 7/28 (25%), Positives = 11/28 (39%)
Query: 48 LYGPPGTGKTLLAKAVANQTSATFLRVV 75
++G G GK+ L +A Q
Sbjct: 41 VWGEEGAGKSHLLQAWVAQALEAGKNAA 68
>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding
loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori}
SCOP: c.37.1.20
Length = 376
Score = 33.4 bits (77), Expect = 0.007
Identities = 13/29 (44%), Positives = 18/29 (62%), Gaps = 5/29 (17%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRV 74
++L GP G+GKTL+A QT A L +
Sbjct: 75 ILLIGPTGSGKTLMA-----QTLAKHLDI 98
>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 = 32.7 bits (74), Expect = 0.012
Identities = 10/26 (38%), Positives = 13/26 (50%), Gaps = 2/26 (7%)
Query: 42 PPK--GVILYGPPGTGKTLLAKAVAN 65
PK + GP +GKT LA A+
Sbjct: 166 IPKKRYWLFKGPIDSGKTTLAAALLE 191
>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 = 32.6 bits (74), Expect = 0.013
Identities = 9/31 (29%), Positives = 15/31 (48%)
Query: 33 EYYEEMGIKPPKGVILYGPPGTGKTLLAKAV 63
+ + +IL GPPG+GKT+ +
Sbjct: 1294 VDVLHAWLSEHRPLILCGPPGSGKTMTLTST 1324
Score = 26.8 bits (59), Expect = 1.6
Identities = 10/32 (31%), Positives = 16/32 (50%), Gaps = 6/32 (18%)
Query: 35 YEEMGIKPPKGVILYGPPGTGKTL----LAKA 62
++ + I GV++ GP G GKT +A
Sbjct: 900 HQILNIN--HGVMMVGPSGGGKTTSWEVYLEA 929
Score = 26.4 bits (58), Expect = 2.1
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 49 YGPPGTGKTLLAKAVANQ 66
+GP GTGKT KA+ +Q
Sbjct: 610 FGPAGTGKTETVKALGSQ 627
>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 = 32.5 bits (74), Expect = 0.014
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 46 VILYGPPGTGKTLLAKAVANQ 66
++LYGP GTGK A+
Sbjct: 39 LLLYGPNGTGKKTRCMALLES 59
>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A
{Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*
Length = 287
Score = 32.3 bits (72), Expect = 0.015
Identities = 15/65 (23%), Positives = 23/65 (35%), Gaps = 4/65 (6%)
Query: 15 DVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRV 74
D Q + L + E P +L G PG+GKT L A+ +T + +
Sbjct: 9 DKQFENRLNDNLEELIQGKKAVE----SPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVI 64
Query: 75 VGSEL 79
Sbjct: 65 DNDTF 69
>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay,
zinc-finger, ATP-binding, metal-BIN UPF2, UPF1,
helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A
2iyk_A
Length = 800
Score = 32.2 bits (73), Expect = 0.016
Identities = 18/57 (31%), Positives = 28/57 (49%), Gaps = 9/57 (15%)
Query: 46 VILYGPPGTGKTL----LAKAVANQTSATFLRVVGS-----ELIQKYLGDGPKLVRV 93
++ GPPGTGKT+ + +A Q + L S +L +K G K+VR+
Sbjct: 374 SLIQGPPGTGKTVTSATIVYHLARQGNGPVLVCAPSNIAVDQLTEKIHQTGLKVVRL 430
>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 = 32.2 bits (72), Expect = 0.016
Identities = 11/55 (20%), Positives = 17/55 (30%), Gaps = 10/55 (18%)
Query: 15 DVQIQEIKESVELPLTHPEYYEEMGIKPPKGVILY---GPPGTGKTLLAKAVANQ 66
+ + + L G ++Y G G GKT LAK +
Sbjct: 28 RGEAEALARIYLNRLLS-------GAGLSDVNMIYGSIGRVGIGKTTLAKFTVKR 75
>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp
loader, sliding clamp, primer-TEM DNA, DNA binding
protein-DNA complex; HET: DNA ADP 08T; 3.20A
{Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*
Length = 324
Score = 31.9 bits (73), Expect = 0.017
Identities = 16/34 (47%), Positives = 24/34 (70%), Gaps = 1/34 (2%)
Query: 46 VILYGP-PGTGKTLLAKAVANQTSATFLRVVGSE 78
+IL+ P PGTGKT +AKA+ + +A + V GS+
Sbjct: 50 IILHSPSPGTGKTTVAKALCHDVNADMMFVNGSD 83
>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 = 32.2 bits (73), Expect = 0.018
Identities = 8/22 (36%), Positives = 13/22 (59%)
Query: 39 GIKPPKGVILYGPPGTGKTLLA 60
G+ + ++ G GTGKTL +
Sbjct: 35 GLPIGRSTLVSGTSGTGKTLFS 56
Score = 30.7 bits (69), Expect = 0.053
Identities = 11/37 (29%), Positives = 14/37 (37%)
Query: 39 GIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVV 75
G ++ G GTGKTLL A R +
Sbjct: 277 GFFKDSIILATGATGTGKTLLVSRFVENACANKERAI 313
>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus
abyssi}
Length = 350
Score = 32.0 bits (72), Expect = 0.022
Identities = 7/33 (21%), Positives = 14/33 (42%)
Query: 40 IKPPKGVILYGPPGTGKTLLAKAVANQTSATFL 72
++ +L G GK+ L +A N+ +
Sbjct: 28 LENYPLTLLLGIRRVGKSSLLRAFLNERPGILI 60
>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 = 31.3 bits (72), Expect = 0.024
Identities = 9/33 (27%), Positives = 17/33 (51%)
Query: 40 IKPPKGVILYGPPGTGKTLLAKAVANQTSATFL 72
+ + + L GP G GK+ + + +A Q + F
Sbjct: 1 MAEKRNIFLVGPMGAGKSTIGRQLAQQLNMEFY 33
>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 = 31.6 bits (71), Expect = 0.025
Identities = 9/24 (37%), Positives = 12/24 (50%), Gaps = 1/24 (4%)
Query: 42 PPKGV-ILYGPPGTGKTLLAKAVA 64
V L P G GK++LA +A
Sbjct: 28 VAGTVGALVSPGGAGKSMLALQLA 51
>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 = 31.4 bits (71), Expect = 0.026
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 46 VILYGPPGTGKTLLAKAVANQ 66
I+ GP G GK+ K +A Q
Sbjct: 5 YIITGPAGVGKSTTCKRLAAQ 25
>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB,
proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR
binding; 6.93A {Bacillus subtilis}
Length = 758
Score = 31.4 bits (72), Expect = 0.028
Identities = 15/30 (50%), Positives = 20/30 (66%), Gaps = 4/30 (13%)
Query: 39 GIKPPK---GVILY-GPPGTGKTLLAKAVA 64
G+K PK G ++ GP G GKT LA+A+A
Sbjct: 513 GLKDPKRPIGSFIFLGPTGVGKTELARALA 542
>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann,
hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11
Length = 189
Score = 31.2 bits (70), Expect = 0.029
Identities = 12/33 (36%), Positives = 17/33 (51%)
Query: 44 KGVILYGPPGTGKTLLAKAVANQTSATFLRVVG 76
+ V L GPPG GKT L + ++ + V G
Sbjct: 2 RHVFLTGPPGVGKTTLIHKASEVLKSSGVPVDG 34
>2ehv_A Hypothetical protein PH0186; KAIC, RECA ATPase, unknown function;
HET: ADP; 2.07A {Pyrococcus horikoshii} PDB: 2zts_A*
Length = 251
Score = 31.4 bits (71), Expect = 0.030
Identities = 10/22 (45%), Positives = 11/22 (50%)
Query: 39 GIKPPKGVILYGPPGTGKTLLA 60
G V+L G GTGKT A
Sbjct: 26 GFPEGTTVLLTGGTGTGKTTFA 47
>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A
{Coxiella burnetii}
Length = 185
Score = 31.0 bits (71), Expect = 0.031
Identities = 9/33 (27%), Positives = 12/33 (36%)
Query: 40 IKPPKGVILYGPPGTGKTLLAKAVANQTSATFL 72
K + L G G GKT + +A T
Sbjct: 2 KKNLTNIYLIGLMGAGKTSVGSQLAKLTKRILY 34
>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 = 31.5 bits (71), Expect = 0.031
Identities = 9/25 (36%), Positives = 11/25 (44%)
Query: 42 PPKGVILYGPPGTGKTLLAKAVANQ 66
V + GP GTG T L K +
Sbjct: 44 KKHHVTINGPAGTGATTLTKFIIEA 68
>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 = 31.5 bits (72), Expect = 0.031
Identities = 13/44 (29%), Positives = 18/44 (40%), Gaps = 4/44 (9%)
Query: 39 GIKPPK---GVILY-GPPGTGKTLLAKAVANQTSATFLRVVGSE 78
G+ G L+ GP G GKT + ++ LR SE
Sbjct: 480 GLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSE 523
>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 = 31.1 bits (70), Expect = 0.040
Identities = 8/31 (25%), Positives = 17/31 (54%)
Query: 36 EEMGIKPPKGVILYGPPGTGKTLLAKAVANQ 66
+EM + L+G G+GK+++A ++
Sbjct: 145 DEMCDLDSFFLFLHGRAGSGKSVIASQALSK 175
>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD,
hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A*
2gk7_A 2xzo_A* 2xzp_A
Length = 624
Score = 30.9 bits (70), Expect = 0.055
Identities = 18/57 (31%), Positives = 28/57 (49%), Gaps = 9/57 (15%)
Query: 46 VILYGPPGTGKTL----LAKAVANQTSATFLRVVGS-----ELIQKYLGDGPKLVRV 93
++ GPPGTGKT+ + +A Q + L S +L +K G K+VR+
Sbjct: 198 SLIQGPPGTGKTVTSATIVYHLARQGNGPVLVCAPSNIAVDQLTEKIHQTGLKVVRL 254
>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein,
ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus
radiodurans} PDB: 3gp8_A 3gpl_A*
Length = 574
Score = 30.5 bits (69), Expect = 0.069
Identities = 14/30 (46%), Positives = 18/30 (60%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRVV 75
V+L G PGTGK+ KAVA+ + L V
Sbjct: 207 VVLTGGPGTGKSTTTKAVADLAESLGLEVG 236
>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 = 30.3 bits (69), Expect = 0.072
Identities = 8/27 (29%), Positives = 14/27 (51%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFL 72
+L G PG+GK+ + + +A L
Sbjct: 5 AVLVGLPGSGKSTIGRRLAKALGVGLL 31
>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer,
structural genomics; HET: ADP; 2.00A {Pyrococcus
horikoshii}
Length = 247
Score = 30.4 bits (69), Expect = 0.073
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 39 GIKPPKGVILYGPPGTGKTLLA 60
GI V+L G PGTGKT+ +
Sbjct: 19 GIPERNVVLLSGGPGTGKTIFS 40
>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 = 30.1 bits (68), Expect = 0.078
Identities = 5/18 (27%), Positives = 9/18 (50%)
Query: 47 ILYGPPGTGKTLLAKAVA 64
++ PG G L A++
Sbjct: 28 LIQALPGMGDDALIYALS 45
>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 = 30.1 bits (68), Expect = 0.079
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRVV 75
V L G PG+GK+ L+ +A SA L
Sbjct: 25 VALSGAPGSGKSTLSNPLAAALSAQGLPAE 54
>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 = 30.4 bits (68), Expect = 0.080
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 43 PKGVILYGPPGTGKTLLAKA 62
K ++ G PG+GK+ A+
Sbjct: 2 KKIILTIGCPGSGKSTWARE 21
>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 = 30.2 bits (68), Expect = 0.085
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 33 EYYEEMGIKPPKGVILYGPPGTGKTLLAK 61
E + +G+IL GPPG+GKT++
Sbjct: 1257 EKIFYDLLNSKRGIILCGPPGSGKTMIMN 1285
Score = 30.2 bits (68), Expect = 0.095
Identities = 8/22 (36%), Positives = 10/22 (45%), Gaps = 4/22 (18%)
Query: 45 GVILYGPPGTGKT----LLAKA 62
+IL G G GKT + A
Sbjct: 925 ALILVGKAGCGKTATWKTVIDA 946
Score = 28.3 bits (63), Expect = 0.44
Identities = 7/22 (31%), Positives = 10/22 (45%), Gaps = 4/22 (18%)
Query: 49 YGPPGTGKT----LLAKAVANQ 66
+GP GTGKT + +
Sbjct: 651 FGPAGTGKTETVKAFGQNLGRV 672
>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus
P2}
Length = 235
Score = 30.0 bits (68), Expect = 0.090
Identities = 10/20 (50%), Positives = 14/20 (70%), Gaps = 2/20 (10%)
Query: 43 PKG--VILYGPPGTGKTLLA 60
P+G + L G PGTGKT+ +
Sbjct: 21 PQGFFIALTGEPGTGKTIFS 40
>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA
degradation, allosteric REGU; HET: ADP 1PE; 2.40A
{Saccharomyces cerevisiae}
Length = 802
Score = 30.3 bits (68), Expect = 0.093
Identities = 16/57 (28%), Positives = 25/57 (43%), Gaps = 9/57 (15%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATF-LRVVGS--------ELIQKYLGDGPKLVRV 93
++ GPPGTGKT+ + + S R++ L K G K+VR+
Sbjct: 378 SLIQGPPGTGKTVTSATIVYHLSKIHKDRILVCAPSNVAVDHLAAKLRDLGLKVVRL 434
>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 = 29.8 bits (67), Expect = 0.11
Identities = 5/20 (25%), Positives = 10/20 (50%)
Query: 46 VILYGPPGTGKTLLAKAVAN 65
++ GP TGK+ + +
Sbjct: 61 LVFCGPANTGKSYFGMSFIH 80
>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 = 29.5 bits (67), Expect = 0.12
Identities = 6/30 (20%), Positives = 13/30 (43%)
Query: 43 PKGVILYGPPGTGKTLLAKAVANQTSATFL 72
+ + + G G G T + + +A F+
Sbjct: 2 TEPIFMVGARGCGMTTVGRELARALGYEFV 31
>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE;
1.57A {Campylobacter jejuni} SCOP: c.37.1.2
Length = 175
Score = 29.1 bits (66), Expect = 0.14
Identities = 12/35 (34%), Positives = 19/35 (54%), Gaps = 2/35 (5%)
Query: 38 MGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFL 72
M + K ++ G G+GK+ LA+A+A FL
Sbjct: 1 MSLA--KNIVFIGFMGSGKSTLARALAKDLDLVFL 33
>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus,
hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A
Length = 677
Score = 29.5 bits (65), Expect = 0.17
Identities = 10/35 (28%), Positives = 14/35 (40%), Gaps = 1/35 (2%)
Query: 27 LPLTHP-EYYEEMGIKPPKGVILYGPPGTGKTLLA 60
L P +Y + K + GP +GKT A
Sbjct: 138 SDLRIPPNWYPDARAMQRKIIFHSGPTNSGKTYHA 172
>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural
genomics, center for structural genomics; 2.80A
{Escherichia coli}
Length = 145
Score = 29.0 bits (66), Expect = 0.18
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 46 VILYGPPGTGKTLLAKAV 63
V LYG PGTG+ A+ +
Sbjct: 27 VWLYGAPGTGRMTGARYL 44
>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function;
HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*
Length = 359
Score = 29.3 bits (65), Expect = 0.18
Identities = 13/54 (24%), Positives = 22/54 (40%), Gaps = 7/54 (12%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGDGPKLVRVALVPEV 99
VIL G PG+GK+ +A+ + + + + + D L P V
Sbjct: 27 VILVGSPGSGKSTIAEELCQIINEKYHTFLSEHPNVIEVNDR-------LKPMV 73
Score = 27.7 bits (61), Expect = 0.62
Identities = 12/46 (26%), Positives = 15/46 (32%)
Query: 50 GPPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGDGPKLVRVAL 95
GT + AV N + L + Q DG L R L
Sbjct: 126 ARGGTANAIRIAAVDNPVNVNKLAQDSINIAQIVPMDGFHLSRRCL 171
>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus
thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*
Length = 311
Score = 29.1 bits (66), Expect = 0.18
Identities = 15/31 (48%), Positives = 18/31 (58%), Gaps = 4/31 (12%)
Query: 39 GIKPPK---GVILY-GPPGTGKTLLAKAVAN 65
G+K P G L+ GP G GKT LAK +A
Sbjct: 39 GLKDPNRPIGSFLFLGPTGVGKTELAKTLAA 69
>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET:
ATP; 2.37A {Humulus lupulus}
Length = 339
Score = 29.1 bits (65), Expect = 0.18
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 41 KPPKGVILYGPPGTGKTLLAKAVA 64
+ K ++L G GTGK+ L+ +A
Sbjct: 38 RKEKLLVLMGATGTGKSRLSIDLA 61
>2r2a_A Uncharacterized protein; zonular occludens toxin, structural
genomics, APC84050.2, PS protein structure initiative;
HET: MSE; 1.82A {Neisseria meningitidis MC58}
Length = 199
Score = 28.9 bits (64), Expect = 0.21
Identities = 7/14 (50%), Positives = 10/14 (71%)
Query: 47 ILYGPPGTGKTLLA 60
++ G PG+GKTL
Sbjct: 9 LITGTPGSGKTLKM 22
>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM:
PF02562, ST genomics, PSI-2, protein structure
initiative; 2.35A {Corynebacterium glutamicum atcc
13032}
Length = 208
Score = 28.7 bits (65), Expect = 0.22
Identities = 10/15 (66%), Positives = 11/15 (73%)
Query: 50 GPPGTGKTLLAKAVA 64
GP G+GKT LA A A
Sbjct: 29 GPAGSGKTYLAMAKA 43
>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P;
hydrolase, type IV secretion, conjugation; 2.35A
{Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A
Length = 392
Score = 28.8 bits (64), Expect = 0.23
Identities = 10/42 (23%), Positives = 15/42 (35%), Gaps = 1/42 (2%)
Query: 34 YYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVV 75
+ IL PG GK+ AK + + RV+
Sbjct: 27 WKRGGDRTNSNWTIL-AKPGAGKSFTAKMLLLREYMQGSRVI 67
>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone,
hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus
influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*
Length = 310
Score = 28.8 bits (65), Expect = 0.25
Identities = 13/33 (39%), Positives = 22/33 (66%)
Query: 42 PPKGVILYGPPGTGKTLLAKAVANQTSATFLRV 74
PK +++ GP G GKT +A+ +A +A F++V
Sbjct: 49 TPKNILMIGPTGVGKTEIARRLAKLANAPFIKV 81
>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A
{Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20
c.37.1.20
Length = 854
Score = 28.7 bits (65), Expect = 0.30
Identities = 10/16 (62%), Positives = 11/16 (68%)
Query: 50 GPPGTGKTLLAKAVAN 65
GP G GKT LAK +A
Sbjct: 595 GPTGVGKTELAKTLAA 610
>1tib_A Lipase; hydrolase(carboxylic esterase); 1.84A {Thermomyces
lanuginosus} SCOP: c.69.1.17 PDB: 1dt3_A 1dt5_A 1du4_A
1ein_A* 1dte_A 4dyh_A* 4ea6_A 1gt6_A*
Length = 269
Score = 28.7 bits (64), Expect = 0.31
Identities = 10/34 (29%), Positives = 13/34 (38%)
Query: 42 PPKGVILYGPPGTGKTLLAKAVANQTSATFLRVV 75
V YG P G A+ + QT T R+
Sbjct: 164 YDIDVFSYGAPRVGNRAFAEFLTVQTGGTLYRIT 197
>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation,
nucleotide metab transferase; HET: C5P; 1.50A {Thermus
thermophilus} PDB: 3akc_A* 3akd_A*
Length = 208
Score = 28.2 bits (64), Expect = 0.32
Identities = 14/59 (23%), Positives = 23/59 (38%), Gaps = 8/59 (13%)
Query: 50 GPPGTGKTLLAKAVANQTSATFL------RVVGSELIQK--YLGDGPKLVRVALVPEVR 100
GP +GK+ +A+ VA +L R ++ GD L+ + VR
Sbjct: 9 GPSASGKSSVARRVAAALGVPYLSSGLLYRAAAFLALRAGVDPGDEEGLLALLEGLGVR 67
>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 = 28.3 bits (64), Expect = 0.32
Identities = 11/55 (20%), Positives = 21/55 (38%), Gaps = 10/55 (18%)
Query: 48 LYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGDGPKLVRVALVPEVRNG 102
L+GP +G+T L A + + R Y+ P + ++ + G
Sbjct: 57 LWGPVKSGRTHLIHAACARANELERRSF-------YI---PLGIHASISTALLEG 101
>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI,
protein structure initiative; 1.90A {Geobacillus
stearothermophilus} SCOP: c.37.1.6
Length = 201
Score = 28.5 bits (64), Expect = 0.33
Identities = 7/26 (26%), Positives = 11/26 (42%)
Query: 50 GPPGTGKTLLAKAVANQTSATFLRVV 75
G +GKT LA ++ + V
Sbjct: 29 GLSRSGKTTLANQLSQTLREQGISVC 54
>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 = 0.37
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 43 PKGVILYGPPGTGKTLLAKA 62
K ++ G PG+GK+ A+
Sbjct: 2 KKIILTIGCPGSGKSTWARE 21
>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 = 28.0 bits (63), Expect = 0.38
Identities = 8/24 (33%), Positives = 11/24 (45%)
Query: 41 KPPKGVILYGPPGTGKTLLAKAVA 64
+ V L G G GKT L + +
Sbjct: 31 EKAIMVYLNGDLGAGKTTLTRGML 54
>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase;
1.90A {Tomato mosaic virus}
Length = 446
Score = 28.2 bits (62), Expect = 0.43
Identities = 9/27 (33%), Positives = 12/27 (44%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFL 72
V++ G PG GKT + N L
Sbjct: 164 VLVDGVPGCGKTKEILSRVNFEEDLIL 190
>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 = 28.1 bits (62), Expect = 0.45
Identities = 14/60 (23%), Positives = 19/60 (31%), Gaps = 17/60 (28%)
Query: 42 PPKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGDGPKLVRVALVPEVRN 101
V+ G G+GKT L +YL D K+ V L V+
Sbjct: 13 ASMIVVFVGTAGSGKTTLTGE-----------------FGRYLEDNYKVAYVNLDTGVKE 55
>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 = 27.9 bits (63), Expect = 0.45
Identities = 8/29 (27%), Positives = 15/29 (51%)
Query: 44 KGVILYGPPGTGKTLLAKAVANQTSATFL 72
+ ++L G G+GK+ LA+ + L
Sbjct: 8 QHLVLIGFMGSGKSSLAQELGLALKLEVL 36
>3ney_A 55 kDa erythrocyte membrane protein; structural genomics
consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A
{Homo sapiens}
Length = 197
Score = 27.9 bits (63), Expect = 0.45
Identities = 8/35 (22%), Positives = 16/35 (45%), Gaps = 3/35 (8%)
Query: 31 HPEYY---EEMGIKPPKGVILYGPPGTGKTLLAKA 62
H + E + + K ++L G G G++ + A
Sbjct: 4 HHHHSSGRENLYFQGRKTLVLIGASGVGRSHIKNA 38
>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 = 28.0 bits (62), Expect = 0.46
Identities = 13/77 (16%), Positives = 26/77 (33%), Gaps = 17/77 (22%)
Query: 21 IKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSELI 80
I ++ ++ G + P + + G GK+ A+ ++
Sbjct: 58 ISSNLRRQAVLEQFLGTNGQRIPYIISIAGSVAVGKSTTAR-----------------VL 100
Query: 81 QKYLGDGPKLVRVALVP 97
Q L P+ RV L+
Sbjct: 101 QALLSRWPEHRRVELIT 117
>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 = 28.0 bits (63), Expect = 0.46
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 44 KGVILYGPPGTGKTLLAKAVANQTSATFL 72
+ L G G GKT L KA A + + F+
Sbjct: 26 VRIFLTGYMGAGKTTLGKAFARKLNVPFI 54
>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 = 27.9 bits (62), Expect = 0.50
Identities = 6/19 (31%), Positives = 13/19 (68%), Gaps = 2/19 (10%)
Query: 26 ELPLTHPEY--YEEMGIKP 42
E+P+THP+ + ++ +K
Sbjct: 194 EVPITHPDIEAFSDLELKW 212
>2fna_A Conserved hypothetical protein; structural genomics, joint center
for structural genomics, J protein structure
initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus
solfataricus} SCOP: a.4.5.11 c.37.1.20
Length = 357
Score = 28.1 bits (62), Expect = 0.52
Identities = 8/46 (17%), Positives = 18/46 (39%), Gaps = 7/46 (15%)
Query: 28 PLTHPEYY-------EEMGIKPPKGVILYGPPGTGKTLLAKAVANQ 66
P + + + E++ ++ G TGK+ + K N+
Sbjct: 8 PKDNRKDFFDREKEIEKLKGLRAPITLVLGLRRTGKSSIIKIGINE 53
>2vli_A Antibiotic resistance protein; transferase, tunicamycin,
phosphotransferase; 1.95A {Deinococcus radiodurans}
Length = 183
Score = 27.6 bits (61), Expect = 0.65
Identities = 7/19 (36%), Positives = 10/19 (52%)
Query: 46 VILYGPPGTGKTLLAKAVA 64
+ + GP G GKT A +
Sbjct: 8 IWINGPFGVGKTHTAHTLH 26
>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 = 27.6 bits (61), Expect = 0.66
Identities = 6/15 (40%), Positives = 11/15 (73%)
Query: 43 PKGVILYGPPGTGKT 57
P+ +++ G GTGK+
Sbjct: 53 PRHLLVNGATGTGKS 67
>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 = 27.3 bits (60), Expect = 0.74
Identities = 7/31 (22%), Positives = 13/31 (41%)
Query: 44 KGVILYGPPGTGKTLLAKAVANQTSATFLRV 74
K V++ G PG G T ++ + +
Sbjct: 4 KVVVVTGVPGVGSTTSSQLAMDNLRKEGVNY 34
>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide
monophosphate kinase,, transferase; 1.75A {Escherichia
coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A*
1kdt_A* 2cmk_A* 2fem_A 2feo_A*
Length = 227
Score = 27.0 bits (61), Expect = 0.84
Identities = 15/53 (28%), Positives = 21/53 (39%), Gaps = 8/53 (15%)
Query: 50 GPPGTGKTLLAKAVANQTSATFL------RVVGSELIQKY--LGDGPKLVRVA 94
GP G GK L KA+A L RV+ + + + LV +A
Sbjct: 12 GPSGAGKGTLCKAMAEALQWHLLDSGAIYRVLALAALHHHVDVASEDALVPLA 64
>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 = 27.3 bits (60), Expect = 0.87
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 46 VILYGPPGTGKTLLAKAVANQ 66
+I+ G PG GKT L K + +
Sbjct: 3 IIITGEPGVGKTTLVKKIVER 23
>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4;
2.30A {Staphylococcus aureus}
Length = 219
Score = 27.0 bits (61), Expect = 0.91
Identities = 10/51 (19%), Positives = 22/51 (43%), Gaps = 8/51 (15%)
Query: 50 GPPGTGKTLLAKAVANQTSATFL------RVVGSELIQKYLGDGPKLVRVA 94
GP GK+ +AK VA++ S ++ R + + ++ ++
Sbjct: 10 GPAAAGKSTIAKRVASELSMIYVDTGAMYRALTYKYLKL--NKTEDFAKLV 58
>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 = 27.2 bits (60), Expect = 0.91
Identities = 8/26 (30%), Positives = 12/26 (46%)
Query: 39 GIKPPKGVILYGPPGTGKTLLAKAVA 64
GI+ +G TGKT L+ +
Sbjct: 118 GIESMAITEAFGEFRTGKTQLSHTLC 143
>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 = 26.9 bits (59), Expect = 0.92
Identities = 7/25 (28%), Positives = 9/25 (36%)
Query: 50 GPPGTGKTLLAKAVANQTSATFLRV 74
G +GKT L + RV
Sbjct: 11 GYKHSGKTTLMEKWVAAAVREGWRV 35
>1l8q_A Chromosomal replication initiator protein DNAA; AAA+,
helix-turn-helix, nucleotide-binding, DNA binding, REP
initiation, DNA binding protein; HET: ADP; 2.70A
{Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB:
3r8f_A* 2hcb_A*
Length = 324
Score = 27.1 bits (61), Expect = 0.96
Identities = 12/33 (36%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 48 LYGPPGTGKTLLAKAVANQTSATFLRV--VGSE 78
+YG GTGKT L +A N+ RV ++
Sbjct: 42 IYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSAD 74
>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 = 27.1 bits (60), Expect = 0.97
Identities = 5/19 (26%), Positives = 10/19 (52%), Gaps = 2/19 (10%)
Query: 26 ELPLTHPEY--YEEMGIKP 42
E+P+ H Y ++ +K
Sbjct: 182 EVPIEHNHYPKLRKLNLKW 200
>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A
{Sulfolobus acidocaldarius} SCOP: c.37.1.1
Length = 194
Score = 27.0 bits (59), Expect = 1.0
Identities = 8/31 (25%), Positives = 12/31 (38%)
Query: 44 KGVILYGPPGTGKTLLAKAVANQTSATFLRV 74
K I+ G PG GK+ + V +
Sbjct: 2 KIGIVTGIPGVGKSTVLAKVKEILDNQGINN 32
>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase,
transferase; NMR {Streptococcus pneumoniae} SCOP:
c.37.1.1
Length = 236
Score = 27.0 bits (61), Expect = 1.0
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 50 GPPGTGKTLLAKAVANQTSATFL 72
GP +GK+ +AK +A T+L
Sbjct: 23 GPASSGKSTVAKIIAKDFGFTYL 45
>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 = 27.0 bits (61), Expect = 1.1
Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 8/53 (15%)
Query: 50 GPPGTGKTLLAKAVANQTSATFL------RVVGSELIQKY--LGDGPKLVRVA 94
GP GTGK+ +++ +A A +L R+ +++ L D + + A
Sbjct: 16 GPAGTGKSSVSRGLARALGARYLDTGAMYRIATLAVLRAGADLTDPAAIEKAA 68
>3ice_A Transcription termination factor RHO; transcription, ATPase,
hexamer, helicase, RNA, RECA, OB fold ATP-binding,
hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli
k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A
Length = 422
Score = 27.2 bits (61), Expect = 1.1
Identities = 7/15 (46%), Positives = 10/15 (66%)
Query: 51 PPGTGKTLLAKAVAN 65
PP GKT+L + +A
Sbjct: 182 PPKAGKTMLLQNIAQ 196
>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 = 26.7 bits (60), Expect = 1.2
Identities = 8/19 (42%), Positives = 10/19 (52%)
Query: 38 MGIKPPKGVILYGPPGTGK 56
M P V + G PG+GK
Sbjct: 1 MEKSKPNVVFVLGGPGSGK 19
>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation,
ADP, nucleotide binding, CARD, apoptosis; HET: ADP;
2.21A {Homo sapiens}
Length = 591
Score = 27.1 bits (60), Expect = 1.2
Identities = 7/22 (31%), Positives = 12/22 (54%), Gaps = 1/22 (4%)
Query: 45 GVI-LYGPPGTGKTLLAKAVAN 65
G + ++G G GK++LA
Sbjct: 148 GWVTIHGMAGCGKSVLAAEAVR 169
>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 = 1.2
Identities = 5/27 (18%), Positives = 12/27 (44%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFL 72
+ L G +GK+ + ++ + F
Sbjct: 3 IYLIGFMCSGKSTVGSLLSRSLNIPFY 29
>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 = 26.7 bits (59), Expect = 1.2
Identities = 9/35 (25%), Positives = 16/35 (45%), Gaps = 3/35 (8%)
Query: 23 ESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKT 57
++ P E E++ + + I+ PG GKT
Sbjct: 2 SAMGEPD--YEVDEDI-FRKKRLTIMDLHPGAGKT 33
>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA
capture mechanism, ATP-binding, hydrolase,
nucleotide-binding, RN binding; 2.35A {Thermotoga
maritima}
Length = 427
Score = 26.8 bits (60), Expect = 1.3
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 51 PPGTGKTLLAKAVAN 65
PP GKT + K +AN
Sbjct: 183 PPKAGKTTILKEIAN 197
>2flq_A Nitric oxide synthase; thermostable enzyme, oxidoreductase; HET:
ARG HEM; 3.20A {Geobacillus stearothermophilus}
Length = 375
Score = 26.8 bits (59), Expect = 1.4
Identities = 6/18 (33%), Positives = 13/18 (72%), Gaps = 2/18 (11%)
Query: 26 ELPLTHPEY--YEEMGIK 41
E+P+ HPE+ + ++ +K
Sbjct: 199 EVPIEHPEFPWFRDLQLK 216
>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 = 26.7 bits (60), Expect = 1.4
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 43 PKGVILYGPPGTGKTLLAKAVA 64
P + L GP GKT LA A+A
Sbjct: 5 PPAIFLMGPTAAGKTDLAMALA 26
>1d0c_A Bovine endothelial nitric oxide synthase heme DOM; alpha-beta fold,
oxidoreductase; HET: HEM INE; 1.65A {Bos taurus} SCOP:
d.174.1.1 PDB: 1d0o_A* 1d1v_A* 1d1w_A* 1d1x_A* 1d1y_A*
1dm6_A* 1dm7_A* 1dm8_A* 1dmi_A* 1dmj_A* 1dmk_A* 1ed4_A*
1ed5_A* 1ed6_A* 1foi_A* 1foj_A* 1fol_A* 1foo_A* 1fop_A*
1nse_A* ...
Length = 444
Score = 26.8 bits (59), Expect = 1.5
Identities = 6/18 (33%), Positives = 11/18 (61%), Gaps = 2/18 (11%)
Query: 26 ELPLTHPEY--YEEMGIK 41
E+PL HP + +G++
Sbjct: 276 EVPLEHPTLEWFAALGLR 293
>3n5w_A Nitric oxide synthase; heme enzyme, substrate inhibitor, Zn
oxidoreductase, oxidoreductase-oxidoreductase inhibitor
COM; HET: HEM XFJ; 1.73A {Rattus norvegicus} PDB:
2hx3_A* 2hx4_A* 3b3m_A* 3b3n_A* 3b3o_A* 3b3p_A* 3hsn_A*
3hso_A* 3hsp_A* 3jt3_A* 3jt4_A* 3jt5_A* 3jt6_A* 3jt7_A*
3jt8_A* 3jt9_A* 3jta_A* 3n2r_A* 3n5v_A* 1om4_A* ...
Length = 422
Score = 26.4 bits (58), Expect = 1.6
Identities = 6/18 (33%), Positives = 15/18 (83%), Gaps = 2/18 (11%)
Query: 26 ELPLTHPEY--YEEMGIK 41
E+P+ HP++ ++++G+K
Sbjct: 247 EVPIRHPKFDWFKDLGLK 264
>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain
III (ATPase domain), ATP-binding, cytoplasm, DNA
replication; HET: ADP; 3.00A {Thermotoga maritima} PDB:
2z4r_A*
Length = 440
Score = 26.5 bits (59), Expect = 1.6
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 48 LYGPPGTGKTLLAKAVANQ 66
+YG G GKT L +++ N
Sbjct: 135 IYGGVGLGKTHLLQSIGNY 153
>3e7m_A Nitric oxide synthase, inducible; NOS, heme, tetrahydrobiopterin,
oxido calmodulin-binding, FAD, FMN, iron, metal-binding,
NADP, oxidoreductase; HET: HEM H4B AT2; 2.00A {Mus
musculus} SCOP: d.174.1.1 PDB: 2y37_A* 1r35_A* 3e67_A*
3e68_A* 3e6l_A* 3e6n_A* 3e6o_A* 3e6t_A* 3e7i_A* 3e65_A*
3e7t_A* 3eai_A* 3ebd_A* 3ebf_A* 3nqs_A* 1m8d_A* 1m8e_A*
1m8h_A* 1m8i_A* 1m9t_A* ...
Length = 433
Score = 26.4 bits (58), Expect = 1.6
Identities = 7/18 (38%), Positives = 14/18 (77%), Gaps = 2/18 (11%)
Query: 26 ELPLTHPEY--YEEMGIK 41
E+ + HP+Y ++E+G+K
Sbjct: 257 EVTMEHPKYEWFQELGLK 274
>2k54_A Protein ATU0742; protein of unknown function, structural genomics,
PSI-2, Pro structure initiative; NMR {Agrobacterium
tumefaciens str} SCOP: d.17.4.29
Length = 123
Score = 26.1 bits (57), Expect = 1.6
Identities = 14/73 (19%), Positives = 21/73 (28%), Gaps = 16/73 (21%)
Query: 46 VILYGPPGT----GKTLLAKAVANQTSATFLR------------VVGSELIQKYLGDGPK 89
Y P T + + L V+ E + + +G
Sbjct: 32 CQYYAFPATLLAGNAAEIRVRHIERFKEPDLYGELLTRVIVGNVVIDHETVTRNFPEGKG 91
Query: 90 LVRVALVPEVRNG 102
V VA + EV NG
Sbjct: 92 EVDVACIYEVENG 104
>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 = 26.5 bits (58), Expect = 1.6
Identities = 11/54 (20%), Positives = 21/54 (38%), Gaps = 2/54 (3%)
Query: 13 SLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVI--LYGPPGTGKTLLAKAVA 64
D +++ + + +G I ++G G+GKT LA +A
Sbjct: 99 RADEYLKKRATIGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLA 152
>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 = 26.3 bits (59), Expect = 1.7
Identities = 6/17 (35%), Positives = 10/17 (58%)
Query: 40 IKPPKGVILYGPPGTGK 56
+K + + G PG+GK
Sbjct: 6 LKKTNIIFVVGGPGSGK 22
>2ort_A Nitric oxide synthase, inducible; L-arginine monooxygenase, heme,
dimerization, inhibitor, NOS, oxidoreductase; HET: HEM
342; 1.87A {Mus musculus} PDB: 1dd7_A* 2oro_A* 2orq_A*
2orr_A* 2ors_A* 2orp_A* 1nos_A* 1noc_A* 2nos_A* 1df1_A*
1nod_A* 2nod_A* 3nod_A* 3nw2_A* 2bhj_A* 1dwv_A* 1dww_A*
1dwx_A* 1n2n_A* 1qw4_A* ...
Length = 389
Score = 26.4 bits (58), Expect = 1.8
Identities = 7/18 (38%), Positives = 14/18 (77%), Gaps = 2/18 (11%)
Query: 26 ELPLTHPEY--YEEMGIK 41
E+ + HP+Y ++E+G+K
Sbjct: 209 EVTMEHPKYEWFQELGLK 226
>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase;
HET: AMP; 2.3A {Homo sapiens}
Length = 199
Score = 26.3 bits (59), Expect = 1.8
Identities = 6/17 (35%), Positives = 11/17 (64%)
Query: 40 IKPPKGVILYGPPGTGK 56
++ K + + G PG+GK
Sbjct: 9 LRKCKIIFIIGGPGSGK 25
>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding,
human, structura genomics, structural genomics
consortium, SGC, transferase; HET: GP5; 2.05A {Homo
sapiens} PDB: 2ar7_A* 3ndp_A
Length = 246
Score = 26.1 bits (58), Expect = 1.8
Identities = 9/23 (39%), Positives = 15/23 (65%), Gaps = 1/23 (4%)
Query: 34 YYEEMGIKPPKGVILYGPPGTGK 56
Y++ M K + ++ GPPG+GK
Sbjct: 19 YFQSMASKLLR-AVILGPPGSGK 40
>3io5_A Recombination and repair protein; storage dimer, inactive
conformation, RECA like core domain, binding, DNA
damage, DNA recombination; 2.40A {Enterobacteria phage
T4}
Length = 333
Score = 26.3 bits (58), Expect = 1.9
Identities = 6/19 (31%), Positives = 9/19 (47%), Gaps = 1/19 (5%)
Query: 43 PKG-VILYGPPGTGKTLLA 60
G +IL GP + K+
Sbjct: 27 QSGLLILAGPSKSFKSNFG 45
>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 = 26.3 bits (59), Expect = 2.0
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 43 PKGVILYGPPGTGKTLLAKAVA 64
PK + L GP +GKT LA +
Sbjct: 10 PKAIFLMGPTASGKTALAIELR 31
>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription,
multi-protein complex, DNA- binding, magnesium; 3.65A
{Schizosaccharomyces pombe}
Length = 1752
Score = 26.2 bits (57), Expect = 2.1
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 19 QEIKESVELPLTHPEYYEEMGIKPPKGVIL 48
+EI+ + PE +E G +P G +L
Sbjct: 27 EEIRSMSVAKIEFPETMDESGQRPRVGGLL 56
>3co5_A Putative two-component system transcriptional RES regulator;
structural genomics, APC89341.1; 2.40A {Neisseria
gonorrhoeae}
Length = 143
Score = 25.6 bits (57), Expect = 2.2
Identities = 5/18 (27%), Positives = 8/18 (44%)
Query: 46 VILYGPPGTGKTLLAKAV 63
V L G G+ +A+
Sbjct: 30 VFLTGEAGSPFETVARYF 47
>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase,
shikimat ATP binding, chloroplast, transferase; 2.35A
{Arabidopsis thaliana}
Length = 250
Score = 25.9 bits (57), Expect = 2.3
Identities = 10/29 (34%), Positives = 15/29 (51%)
Query: 44 KGVILYGPPGTGKTLLAKAVANQTSATFL 72
+ + L G G+GKT + K +A TF
Sbjct: 49 RSMYLVGMMGSGKTTVGKIMARSLGYTFF 77
>2z83_A Helicase/nucleoside triphosphatase; hydrolase, membrane,
nucleotide-binding, RNA replication, transmembrane,
viral protein; 1.80A {Japanese encephalitis virus} PDB:
2v8o_A 2qeq_A
Length = 459
Score = 25.9 bits (57), Expect = 2.4
Identities = 7/31 (22%), Positives = 11/31 (35%), Gaps = 1/31 (3%)
Query: 46 VILYGPPGTGK-TLLAKAVANQTSATFLRVV 75
+L PG+GK + + LR
Sbjct: 24 TVLDLHPGSGKTRKILPQIIKDAIQQRLRTA 54
>3stj_A Protease DEGQ; serine protease, PDZ domain, protease, chaperone,
DEGP, DEGQ hydrolase; 2.60A {Escherichia coli}
Length = 345
Score = 25.7 bits (57), Expect = 2.7
Identities = 6/38 (15%), Positives = 13/38 (34%), Gaps = 9/38 (23%)
Query: 10 KRGSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVI 47
KRG L ++ E+ + + + +G
Sbjct: 238 KRGLLGIKGTEMS---------ADIAKAFNLDVQRGAF 266
>3gir_A Aminomethyltransferase; glycine cleavage system, aminotransferase,
structural genomics; 1.60A {Bartonella henselae}
Length = 393
Score = 25.6 bits (57), Expect = 2.9
Identities = 9/26 (34%), Positives = 13/26 (50%)
Query: 75 VGSELIQKYLGDGPKLVRVALVPEVR 100
G++ + L GP RV L P+ R
Sbjct: 293 YGAKAFLESLQKGPSRCRVGLKPQTR 318
>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 = 25.6 bits (57), Expect = 2.9
Identities = 9/21 (42%), Positives = 11/21 (52%), Gaps = 4/21 (19%)
Query: 47 ILYGPPGTGKT----LLAKAV 63
+ G G GKT LLAK +
Sbjct: 42 LFSGTRGVGKTSIARLLAKGL 62
>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 = 2.9
Identities = 9/18 (50%), Positives = 15/18 (83%)
Query: 46 VILYGPPGTGKTLLAKAV 63
V+++G GTGK L+A+A+
Sbjct: 28 VLIHGDSGTGKELVARAL 45
>3tlx_A Adenylate kinase 2; structural genomics, structural genomics
consortium, SGC, RO fold, transferase, ATP binding,
phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium
falciparum}
Length = 243
Score = 25.6 bits (57), Expect = 3.0
Identities = 8/17 (47%), Positives = 9/17 (52%)
Query: 40 IKPPKGVILYGPPGTGK 56
KP I G PG+GK
Sbjct: 26 SKPDGRYIFLGAPGSGK 42
>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 = 25.6 bits (56), Expect = 3.1
Identities = 9/26 (34%), Positives = 15/26 (57%)
Query: 44 KGVILYGPPGTGKTLLAKAVANQTSA 69
++YGP +GKT +A +A +T
Sbjct: 2 LLHLIYGPTCSGKTDMAIQIAQETGW 27
>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 = 25.5 bits (57), Expect = 3.4
Identities = 6/18 (33%), Positives = 12/18 (66%)
Query: 46 VILYGPPGTGKTLLAKAV 63
V++ G G GK ++A+ +
Sbjct: 163 VLITGESGVGKEVVARLI 180
>1twf_A B220, DNA-directed RNA polymerase II largest subunit;
transcription, mRNA, multiprotein complex; HET: UTP;
2.30A {Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB:
1i3q_A 1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A
1r9s_A* 1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A*
1twh_A* 1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ...
Length = 1733
Score = 25.8 bits (56), Expect = 3.4
Identities = 5/27 (18%), Positives = 11/27 (40%)
Query: 19 QEIKESVELPLTHPEYYEEMGIKPPKG 45
+E++ + PE +E + G
Sbjct: 25 EEVRAISVAKIRFPETMDETQTRAKIG 51
>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET:
ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*
Length = 368
Score = 25.7 bits (56), Expect = 3.4
Identities = 14/43 (32%), Positives = 19/43 (44%), Gaps = 2/43 (4%)
Query: 50 GPPGTGKTLLAKAVAN--QTSATFLRVVGSELIQKYLGDGPKL 90
G PGTGKT +A +A F + GSE+ + L
Sbjct: 77 GQPGTGKTAIAMGMAQALGPDTPFTAIAGSEIFSLEMSKTEAL 119
>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 = 25.5 bits (56), Expect = 3.6
Identities = 6/24 (25%), Positives = 11/24 (45%), Gaps = 2/24 (8%)
Query: 43 PKGVI--LYGPPGTGKTLLAKAVA 64
+ +G G+GKT L ++
Sbjct: 105 ETRTMTEFFGEFGSGKTQLCHQLS 128
>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 = 3.6
Identities = 13/48 (27%), Positives = 20/48 (41%), Gaps = 2/48 (4%)
Query: 40 IKPPKGVILYGPPGTGKTLLAKAVANQTSATFLR--VVGSELIQKYLG 85
+K V + GP GTGK+ K +A Q +I+ + G
Sbjct: 44 VKEGMVVGIVGPNGTGKSTAVKILAGQLIPNLCGDNDSWDGVIRAFRG 91
>1wsr_A Aminomethyltransferase; glycine-cleavage sytem; 2.00A {Homo
sapiens} PDB: 1wsv_A*
Length = 375
Score = 25.5 bits (57), Expect = 3.8
Identities = 8/31 (25%), Positives = 14/31 (45%), Gaps = 3/31 (9%)
Query: 75 VGSELIQKYLGDGPKLVRVALVPE---VRNG 102
G+++I L + RV L+ E +R
Sbjct: 275 PGAKVIVPQLKGRVQRRRVGLMCEGAPMRAH 305
>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 = 25.2 bits (54), Expect = 3.9
Identities = 9/26 (34%), Positives = 11/26 (42%)
Query: 50 GPPGTGKTLLAKAVANQTSATFLRVV 75
GTGKT L K + A +R
Sbjct: 13 AWSGTGKTTLLKKLIPALCARGIRPG 38
>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 = 25.2 bits (56), Expect = 4.0
Identities = 9/21 (42%), Positives = 11/21 (52%), Gaps = 4/21 (19%)
Query: 47 ILYGPPGTGKT----LLAKAV 63
+ G G GKT LLAK +
Sbjct: 49 LFSGTRGVGKTSIARLLAKGL 69
>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 = 25.4 bits (54), Expect = 4.1
Identities = 9/34 (26%), Positives = 16/34 (47%)
Query: 31 HPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVA 64
+ + E G K P + GP G+GK+ + +
Sbjct: 19 YIPEWFETGNKCPLFIFFSGPQGSGKSFTSIQIY 52
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA
replication, viral replication, nucleotide-binding;
2.10A {Kokobera virus} PDB: 2v6j_A
Length = 431
Score = 25.2 bits (55), Expect = 4.2
Identities = 8/31 (25%), Positives = 12/31 (38%), Gaps = 1/31 (3%)
Query: 46 VILYGPPGTGK-TLLAKAVANQTSATFLRVV 75
+L PG GK + + + LR V
Sbjct: 5 TVLDLHPGAGKTRRVLPQLVREAVKKRLRTV 35
>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 = 25.2 bits (55), Expect = 4.2
Identities = 14/32 (43%), Positives = 19/32 (59%), Gaps = 1/32 (3%)
Query: 44 KGVILYGPPGTGKTLLAKAVANQTSATFLRVV 75
+G I+ P G+GKT +A A N+ S L VV
Sbjct: 110 RGCIV-LPTGSGKTHVAMAAINELSTPTLIVV 140
>3rmi_A Chorismate mutase protein; emerald biostructures, structural
genomics, seattle structur genomics center for
infectious disease, ssgcid; 2.40A {Bartonella henselae}
Length = 114
Score = 24.7 bits (54), Expect = 4.4
Identities = 7/31 (22%), Positives = 10/31 (32%)
Query: 8 LKKRGSLDVQIQEIKESVELPLTHPEYYEEM 38
L +R I +K LP P +
Sbjct: 32 LAERFRCTQAIGRLKARYNLPAVDPLREQYQ 62
>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces
cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*
Length = 203
Score = 24.8 bits (55), Expect = 4.6
Identities = 5/19 (26%), Positives = 7/19 (36%)
Query: 38 MGIKPPKGVILYGPPGTGK 56
+ + G PG GK
Sbjct: 10 FSPDQVSVIFVLGGPGAGK 28
>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 = 25.1 bits (56), Expect = 4.6
Identities = 7/18 (38%), Positives = 13/18 (72%)
Query: 46 VILYGPPGTGKTLLAKAV 63
V++ G GTGK ++A+ +
Sbjct: 155 VLITGESGTGKEIVARLI 172
>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 = 25.2 bits (56), Expect = 4.6
Identities = 8/22 (36%), Positives = 11/22 (50%)
Query: 43 PKGVILYGPPGTGKTLLAKAVA 64
K V + GP GKT + +A
Sbjct: 3 EKLVAIVGPTAVGKTKTSVMLA 24
>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 = 25.2 bits (56), Expect = 4.7
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 46 VILYGPPGTGKTLLAKAV 63
V++ G GTGK L+A +
Sbjct: 32 VLIIGERGTGKELIASRL 49
>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 = 25.2 bits (55), Expect = 4.8
Identities = 7/31 (22%), Positives = 12/31 (38%), Gaps = 1/31 (3%)
Query: 46 VILYGPPGTGK-TLLAKAVANQTSATFLRVV 75
+L PG GK + + + LR +
Sbjct: 11 TVLDFHPGAGKTRRFLPQILAECARRRLRTL 41
>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding
protein; 2.30A {Archaeoglobus fulgidus}
Length = 221
Score = 24.9 bits (55), Expect = 5.0
Identities = 7/10 (70%), Positives = 8/10 (80%)
Query: 50 GPPGTGKTLL 59
G G+GKTLL
Sbjct: 37 GAIGSGKTLL 46
>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta
protein, structural genomics, PSI-2; 2.70A
{Staphylococcus epidermidis atcc 12228}
Length = 340
Score = 25.2 bits (56), Expect = 5.0
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 43 PKGVILYGPPGTGKTLLAKAVANQ 66
P +++ GP +GKT L+ VA +
Sbjct: 7 PFLIVIVGPTASGKTELSIEVAKK 30
>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 = 5.0
Identities = 5/11 (45%), Positives = 10/11 (90%)
Query: 46 VILYGPPGTGK 56
++++GP G+GK
Sbjct: 3 ILIFGPNGSGK 13
>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and
beta protein; HET: GSP; 1.90A {Methanocaldococcus
jannaschii} PDB: 2hf8_A*
Length = 226
Score = 24.9 bits (55), Expect = 5.2
Identities = 7/10 (70%), Positives = 8/10 (80%)
Query: 50 GPPGTGKTLL 59
G G+GKTLL
Sbjct: 45 GAIGSGKTLL 54
>2vkl_A RV0948C/MT0975; helical, intracellular, chorismate mutase,
isomerase; 1.65A {Mycobacterium tuberculosis} PDB:
2qbv_A 2w19_C 2w1a_C*
Length = 90
Score = 24.3 bits (53), Expect = 5.4
Identities = 3/33 (9%), Positives = 11/33 (33%)
Query: 6 KALKKRGSLDVQIQEIKESVELPLTHPEYYEEM 38
+K+R + I + + + ++
Sbjct: 30 ALVKRRAEVSKAIGKARMASGGTRLVHSREMKV 62
>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide
biosynthesis, nucleotide-binding, transferase,
structural genomics; 1.80A {Thermus thermophilus}
Length = 186
Score = 24.8 bits (55), Expect = 5.5
Identities = 8/11 (72%), Positives = 8/11 (72%)
Query: 46 VILYGPPGTGK 56
VI GPPG GK
Sbjct: 7 VIFLGPPGAGK 17
>1te0_A Protease DEGS; two domains, serine protease, PDZ, alpha-beta
protein, hydro; 2.20A {Escherichia coli} SCOP: b.36.1.4
b.47.1.1 PDB: 3gdv_A* 3gcn_A* 3gds_A* 3gdu_A* 3gco_A*
1sot_A 1soz_A 1vcw_A 2r3y_A
Length = 318
Score = 24.8 bits (55), Expect = 5.6
Identities = 8/38 (21%), Positives = 16/38 (42%), Gaps = 9/38 (23%)
Query: 10 KRGSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVI 47
RG + + +EI P + + GI +G++
Sbjct: 219 IRGYIGIGGREIA---------PLHAQGGGIDQLQGIV 247
>1osn_A Thymidine kinase, VZV-TK; chickenpox, BVDU-MP, transferase; HET:
BVP ADP; 3.20A {Human herpesvirus 3} SCOP: c.37.1.1
Length = 341
Score = 25.1 bits (54), Expect = 5.6
Identities = 9/35 (25%), Positives = 15/35 (42%)
Query: 41 KPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVV 75
+ L G G GKT A+ + + T R++
Sbjct: 10 MGVLRIYLDGAYGIGKTTAAEEFLHHFAITPNRIL 44
>4a8c_A Periplasmic PH-dependent serine endoprotease DEGQ; chaperone,
hydrolase; 7.50A {Escherichia coli} PDB: 4a8a_A 4a8b_A
4a9g_A
Length = 436
Score = 24.9 bits (55), Expect = 5.8
Identities = 6/38 (15%), Positives = 13/38 (34%), Gaps = 9/38 (23%)
Query: 10 KRGSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVI 47
KRG L ++ E+ + + + +G
Sbjct: 238 KRGLLGIKGTEMS---------ADIAKAFNLDVQRGAF 266
>4b4c_A Chromodomain-helicase-DNA-binding protein 1;
chromatin-remodeling, histone acetylation COMP
chromatin regulation, transcription; 1.62A {Homo
sapiens}
Length = 211
Score = 24.7 bits (53), Expect = 5.8
Identities = 8/35 (22%), Positives = 12/35 (34%)
Query: 5 YKALKKRGSLDVQIQEIKESVELPLTHPEYYEEMG 39
K+ KK G ++ I EL +G
Sbjct: 19 IKSYKKFGGPLERLDAIARDAELVDKSETDLRRLG 53
>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 = 25.0 bits (55), Expect = 5.9
Identities = 7/23 (30%), Positives = 14/23 (60%)
Query: 44 KGVILYGPPGTGKTLLAKAVANQ 66
K +++ G G GK+ L+ +A +
Sbjct: 3 KVIVIAGTTGVGKSQLSIQLAQK 25
>1ky9_A Protease DO, DEGP, HTRA; protein quality control, serine protease,
trypsin, chaperone, PDZ, ATP-independent,
temperature-regulated, periplasm; 2.80A {Escherichia
coli} SCOP: b.36.1.4 b.47.1.1 PDB: 3ou0_A 4a8d_A 3otp_A
3mh7_A 3mh4_A 3mh5_A* 3mh6_A* 3cs0_A 2zle_A
Length = 448
Score = 25.0 bits (55), Expect = 6.1
Identities = 8/38 (21%), Positives = 13/38 (34%), Gaps = 9/38 (23%)
Query: 10 KRGSLDVQIQEIKESVELPLTHPEYYEEMGIKPPKGVI 47
KRG L + E+ E + M + +G
Sbjct: 261 KRGELGIMGTELN---------SELAKAMKVDAQRGAF 289
>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism,
ATP-binding, nucleotide biosynthesis,
nucleotide-binding, transferase; HET: ADP; 1.9A
{Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A
Length = 201
Score = 24.8 bits (55), Expect = 6.2
Identities = 8/11 (72%), Positives = 9/11 (81%)
Query: 46 VILYGPPGTGK 56
V+L GPPG GK
Sbjct: 23 VLLLGPPGAGK 33
>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 = 24.5 bits (54), Expect = 6.4
Identities = 6/17 (35%), Positives = 10/17 (58%)
Query: 40 IKPPKGVILYGPPGTGK 56
+ P V++ G P +GK
Sbjct: 2 LADPLKVMISGAPASGK 18
>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region,
conformational changes, transferase; 2.10A {Homo
sapiens} SCOP: c.37.1.1
Length = 196
Score = 24.4 bits (54), Expect = 6.5
Identities = 7/14 (50%), Positives = 8/14 (57%)
Query: 43 PKGVILYGPPGTGK 56
P V + G PG GK
Sbjct: 3 PLVVFVLGGPGAGK 16
>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 = 24.4 bits (54), Expect = 6.7
Identities = 6/11 (54%), Positives = 8/11 (72%)
Query: 46 VILYGPPGTGK 56
++L G PG GK
Sbjct: 3 LVLMGLPGAGK 13
>2o5v_A DNA replication and repair protein RECF; ABC ATPase, walker A
motif, P-loop, signature motif,
replication/recombination complex; HET: DNA; 1.61A
{Deinococcus radiodurans}
Length = 359
Score = 24.9 bits (55), Expect = 6.7
Identities = 9/24 (37%), Positives = 12/24 (50%), Gaps = 1/24 (4%)
Query: 35 YEEMGIKPPKGV-ILYGPPGTGKT 57
+ P+GV +YG G GKT
Sbjct: 17 LAPGTLNFPEGVTGIYGENGAGKT 40
>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding,
nucleotide-binding, transferase; HET: AP5; 2.00A
{Marinibacillus marinus}
Length = 216
Score = 24.4 bits (54), Expect = 6.8
Identities = 6/11 (54%), Positives = 8/11 (72%)
Query: 46 VILYGPPGTGK 56
++L G PG GK
Sbjct: 3 IVLMGLPGAGK 13
>2xb0_X Chromo domain-containing protein 1; hydrolase, DNA-binding
protein, transcription, chromatin REG; HET: GOL; 2.00A
{Saccharomyces cerevisiae} PDB: 3ted_A
Length = 270
Score = 24.8 bits (53), Expect = 6.8
Identities = 12/34 (35%), Positives = 17/34 (50%)
Query: 5 YKALKKRGSLDVQIQEIKESVELPLTHPEYYEEM 38
YKA+ K G+L + E+ LP+ E Y E
Sbjct: 15 YKAILKFGNLKEILDELIADGTLPVKSFEKYGET 48
>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 = 24.4 bits (54), Expect = 6.8
Identities = 7/23 (30%), Positives = 11/23 (47%), Gaps = 2/23 (8%)
Query: 46 VILYGPPGTGKT--LLAKAVANQ 66
+YGP +GKT L + +
Sbjct: 23 TQVYGPYASGKTTLALQTGLLSG 45
>2rgx_A Adenylate kinase; transferase(phosphotransferase), ATP-binding,
nucleo binding, transferase; HET: AP5; 1.90A {Aquifex
aeolicus} PDB: 2rh5_A
Length = 206
Score = 24.5 bits (54), Expect = 7.1
Identities = 6/11 (54%), Positives = 8/11 (72%)
Query: 46 VILYGPPGTGK 56
++ GPPG GK
Sbjct: 3 LVFLGPPGAGK 13
>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase;
HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A*
2jas_A*
Length = 205
Score = 24.6 bits (53), Expect = 7.2
Identities = 4/23 (17%), Positives = 10/23 (43%)
Query: 50 GPPGTGKTLLAKAVANQTSATFL 72
G G GK+ ++ ++ +
Sbjct: 7 GTVGAGKSTISAEISKKLGYEIF 29
>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex,
transferase; HET: DTP; 2.80A {Homo sapiens} SCOP:
c.37.1.1
Length = 241
Score = 24.7 bits (53), Expect = 7.2
Identities = 5/24 (20%), Positives = 10/24 (41%)
Query: 43 PKGVILYGPPGTGKTLLAKAVANQ 66
P+ + + G GK+ K +
Sbjct: 2 PRRLSIEGNIAVGKSTFVKLLTKT 25
>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 = 24.4 bits (53), Expect = 7.4
Identities = 8/18 (44%), Positives = 13/18 (72%)
Query: 44 KGVILYGPPGTGKTLLAK 61
K +++ G PG+GK+ AK
Sbjct: 2 KVILITGMPGSGKSEFAK 19
>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 = 24.6 bits (54), Expect = 7.5
Identities = 9/20 (45%), Positives = 12/20 (60%), Gaps = 2/20 (10%)
Query: 45 GVILYGPPGTGKTLLAKAVA 64
G++ GP G GKT K +A
Sbjct: 386 GIV--GPNGIGKTTFVKMLA 403
>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex,
transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}
Length = 460
Score = 24.8 bits (53), Expect = 7.5
Identities = 9/33 (27%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 33 EYYEEMGIKPPKGVILYGPPGTGKTLLAKAVAN 65
E + P+ V++ G TGKT L++ + +
Sbjct: 129 EKIRMSNFEGPR-VVIVGGSQTGKTSLSRTLCS 160
>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 = 24.6 bits (53), Expect = 7.6
Identities = 6/19 (31%), Positives = 12/19 (63%)
Query: 46 VILYGPPGTGKTLLAKAVA 64
+++ G P GKT ++K +
Sbjct: 42 IVMVGLPARGKTYISKKLT 60
>2odr_C Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 701
Score = 24.6 bits (53), Expect = 7.7
Identities = 7/30 (23%), Positives = 8/30 (26%), Gaps = 10/30 (33%)
Query: 31 HPEYYEEMGIKPPK-----GV-----ILYG 50
P + GI P GV I
Sbjct: 321 SPVALSKYGIDVPVMNLGLGVERLAMISGN 350
>2ged_A SR-beta, signal recognition particle receptor beta subunit;
protein transport, G protein, proline isomerization,
circular permutation; 2.20A {Saccharomyces cerevisiae}
Length = 193
Score = 24.3 bits (53), Expect = 7.9
Identities = 9/27 (33%), Positives = 13/27 (48%), Gaps = 1/27 (3%)
Query: 46 VILYGPPGTGKT-LLAKAVANQTSATF 71
+I+ GP +GKT LL + T
Sbjct: 51 IIIAGPQNSGKTSLLTLLTTDSVRPTV 77
>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB);
structural genomics, PSI, protein structure initiative;
2.10A {Archaeoglobus fulgidus}
Length = 171
Score = 24.2 bits (52), Expect = 8.0
Identities = 8/25 (32%), Positives = 10/25 (40%)
Query: 50 GPPGTGKTLLAKAVANQTSATFLRV 74
G +GKT L + LRV
Sbjct: 9 GTSDSGKTTLITRMMPILRERGLRV 33
>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 = 24.7 bits (53), Expect = 8.2
Identities = 6/19 (31%), Positives = 12/19 (63%)
Query: 46 VILYGPPGTGKTLLAKAVA 64
+++ G P GKT ++K +
Sbjct: 38 IVMVGLPARGKTYISKKLT 56
>3r1j_A Alpha-ketoglutarate-dependent taurine dioxygenase; ssgcid,
oxidoreductase, structural genomics; 2.05A
{Mycobacterium avium} PDB: 3swt_A
Length = 301
Score = 24.5 bits (54), Expect = 8.3
Identities = 9/32 (28%), Positives = 11/32 (34%), Gaps = 7/32 (21%)
Query: 41 KPPKGVILYG---PPGTGKTLLAKAVANQTSA 69
P IL P G TL A+ +A
Sbjct: 111 NYPAASILRAVTLPSYGGSTLW----ASTVAA 138
>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 = 8.4
Identities = 6/11 (54%), Positives = 7/11 (63%)
Query: 46 VILYGPPGTGK 56
+IL G P GK
Sbjct: 3 IILLGAPVAGK 13
>2odr_D Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 685
Score = 24.6 bits (53), Expect = 8.5
Identities = 7/30 (23%), Positives = 8/30 (26%), Gaps = 10/30 (33%)
Query: 31 HPEYYEEMGIKPPK-----GV-----ILYG 50
P + GI P GV I
Sbjct: 321 SPVALSKYGIDVPVMNLGLGVERLAMISGN 350
>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase;
2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A*
2anb_A* 2anc_A 2f3r_A* 2f3t_A*
Length = 219
Score = 24.4 bits (54), Expect = 8.7
Identities = 8/29 (27%), Positives = 13/29 (44%)
Query: 46 VILYGPPGTGKTLLAKAVANQTSATFLRV 74
I+ P G GK+ L +A+ +V
Sbjct: 19 YIVSAPSGAGKSSLIQALLKTQPLYDTQV 47
>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase,
transferase (phosphotransferase); HET: AP5; 1.63A
{Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB:
2aky_A* 3aky_A* 1dvr_A*
Length = 220
Score = 24.4 bits (54), Expect = 8.8
Identities = 7/11 (63%), Positives = 9/11 (81%)
Query: 46 VILYGPPGTGK 56
++L GPPG GK
Sbjct: 7 MVLIGPPGAGK 17
>1nrj_B SR-beta, signal recognition particle receptor beta subunit;
transmembrane, endoplasmic reticulum, GTP-binding; HET:
GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8
Length = 218
Score = 24.3 bits (53), Expect = 8.8
Identities = 9/27 (33%), Positives = 13/27 (48%), Gaps = 1/27 (3%)
Query: 46 VILYGPPGTGKT-LLAKAVANQTSATF 71
+I+ GP +GKT LL + T
Sbjct: 15 IIIAGPQNSGKTSLLTLLTTDSVRPTV 41
>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide
biosynthesis, nucleotide-BIND transferase, structural
genomics; 2.10A {Burkholderia pseudomallei 1710B}
Length = 230
Score = 24.1 bits (53), Expect = 9.2
Identities = 7/11 (63%), Positives = 8/11 (72%)
Query: 46 VILYGPPGTGK 56
+IL G PG GK
Sbjct: 11 LILLGAPGAGK 21
>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding,
cytoplasm, damage, DNA recombination, DNA repair,
DNA-binding; 1.95A {Thermotoga maritima}
Length = 356
Score = 24.2 bits (53), Expect = 9.3
Identities = 9/20 (45%), Positives = 13/20 (65%), Gaps = 2/20 (10%)
Query: 43 PKGVI--LYGPPGTGKTLLA 60
P+G I ++G +GKT LA
Sbjct: 59 PRGRIVEIFGQESSGKTTLA 78
>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants,
DNA-repair, ATP-binding, DNA DA recombination, DNA
repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium
smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A*
1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A
2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A*
2zrp_A* 2zre_A* ...
Length = 349
Score = 24.2 bits (53), Expect = 9.5
Identities = 9/20 (45%), Positives = 14/20 (70%), Gaps = 2/20 (10%)
Query: 43 PKGVI--LYGPPGTGKTLLA 60
P+G + +YGP +GKT +A
Sbjct: 59 PRGRVIEIYGPESSGKTTVA 78
>3pvj_A Alpha-ketoglutarate-dependent taurine dioxygenase; jelly roll
motif, Fe(II) binding, oxidoreductas; 1.85A {Pseudomonas
putida KT2440} PDB: 3v15_A 3v17_A*
Length = 277
Score = 24.1 bits (53), Expect = 9.9
Identities = 9/32 (28%), Positives = 12/32 (37%), Gaps = 7/32 (21%)
Query: 41 KPPKGVILYG---PPGTGKTLLAKAVANQTSA 69
P G +L P G TL A+ +A
Sbjct: 105 TPALGAVLSAKQLPAYGGDTLW----ASGIAA 132
>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein
inhibitors, nucleotide-binding, transferase; HET: AP5;
1.60A {Cryptosporidium parvum iowa II}
Length = 217
Score = 24.0 bits (53), Expect = 9.9
Identities = 7/11 (63%), Positives = 9/11 (81%)
Query: 46 VILYGPPGTGK 56
+IL G PG+GK
Sbjct: 8 LILIGAPGSGK 18
>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding,
carbohydrate metabolism, magnesium, metal-binding,
multifunctional enzyme; 2.60A {Lactobacillus casei}
PDB: 1jb1_A 1kkl_A 1kkm_A*
Length = 205
Score = 24.2 bits (52), Expect = 10.0
Identities = 12/51 (23%), Positives = 22/51 (43%), Gaps = 4/51 (7%)
Query: 44 KGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGDGPKLVRVA 94
GV++ G G GK+ A + + R++ + + Y D +V A
Sbjct: 35 LGVLITGDSGVGKSETALELVQRGH----RLIADDRVDVYQQDEQTIVGAA 81
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
0.315 0.136 0.388
Gapped
Lambda K H
0.267 0.0797 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,587,109
Number of extensions: 86225
Number of successful extensions: 562
Number of sequences better than 10.0: 1
Number of HSP's gapped: 551
Number of HSP's successfully gapped: 274
Length of query: 102
Length of database: 6,701,793
Length adjustment: 67
Effective length of query: 35
Effective length of database: 4,831,086
Effective search space: 169088010
Effective search space used: 169088010
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 51 (23.3 bits)