RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5910
(225 letters)
>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 = 302 bits (775), Expect = e-103
Identities = 115/231 (49%), Positives = 160/231 (69%), Gaps = 12/231 (5%)
Query: 3 LDRHIIGQHETKKIVSVGVYNHYKRLFLLKSKN-IYLEKSNILLVGPTGCGKTLMVKTLA 61
LD ++IGQ + KK+++V VYNHYKRL + N + L KSNILL+GPTG GKTL+ +TLA
Sbjct: 13 LDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLA 72
Query: 62 KIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVELAEQSIIYIDEIDKISKKT 121
++++VP + DAT+ TEAGYVG+DVE+IIQKLL +CDYDV+ A++ I+YID+IDKIS+K+
Sbjct: 73 RLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQKAQRGIVYIDQIDKISRKS 132
Query: 122 DVVS-GKDVSGEGVQQSLLKLIEGVNLSITSLAEKKNPSQNPQVFNIDTTNILFIAGGAF 180
D S +DVSGEGVQQ+LLKLIEG ++ +K+P Q + +DT+ ILFI GGAF
Sbjct: 133 DNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQ--EFLQVDTSKILFICGGAF 190
Query: 181 SGIENFIINRI--------NQETNFLEKLNNNYNLICETNTEDLINFGIIP 223
+G++ I +R+ + L+ + EDLI FG+IP
Sbjct: 191 AGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKFGLIP 241
>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 = 296 bits (759), Expect = e-100
Identities = 106/242 (43%), Positives = 147/242 (60%), Gaps = 23/242 (9%)
Query: 3 LDRHIIGQHETKKIVSVGVYNHYKRLFLLKSKNIY----------------LEKSNILLV 46
LD ++IGQ + KK+ SV VYNHYKRL + L KSNILL+
Sbjct: 19 LDNYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLI 78
Query: 47 GPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVELAEQ 106
GPTG GKTLM +TLAK +++PI + DATS TEAGYVG+DVE+I+ +LL D++V+ A++
Sbjct: 79 GPTGSGKTLMAQTLAKHLDIPIAISDATSLTEAGYVGEDVENILTRLLQASDWNVQKAQK 138
Query: 107 SIIYIDEIDKISKKTDVVS-GKDVSGEGVQQSLLKLIEGVNLSITSLAEKKNPSQNPQVF 165
I++IDEIDKIS+ ++ S +DVSGEGVQQ+LLK++EG ++I +K+P
Sbjct: 139 GIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEGSLVNIPPKGGRKHPEG--NFI 196
Query: 166 NIDTTNILFIAGGAFSGIENFIINRINQET----NFLEKLNNNYNLICETNTEDLINFGI 221
IDT++ILFI GAF G+ I R Q ++ T DL+ +G+
Sbjct: 197 QIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDLVTYGL 256
Query: 222 IP 223
IP
Sbjct: 257 IP 258
>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 = 193 bits (492), Expect = 2e-61
Identities = 80/181 (44%), Positives = 114/181 (62%), Gaps = 15/181 (8%)
Query: 2 ELDRHIIGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLA 61
ELD+HIIGQ + K+ V++ + N ++R+ L + + NIL++GPTG GKT + + LA
Sbjct: 12 ELDQHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLA 71
Query: 62 KIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVELAEQS-IIYIDEIDKISKK 120
K+ N P I V+AT FTE GYVG +V+SII+ L ++ EQ+ I++IDEIDKI KK
Sbjct: 72 KLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKK 131
Query: 121 TDVVSGKDVSGEGVQQSLLKLIEGVNLSITSLAEKKNPSQNPQVFNIDTTNILFIAGGAF 180
+ SG DVS EGVQ+ LL L+EG ++++ K + T +ILFIA GAF
Sbjct: 132 GE-YSGADVSREGVQRDLLPLVEG-----STVSTKHGM--------VKTDHILFIASGAF 177
Query: 181 S 181
Sbjct: 178 Q 178
>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent
proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus
influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A*
1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E*
1ht1_E* 1ht2_E*
Length = 444
Score = 103 bits (260), Expect = 3e-26
Identities = 45/109 (41%), Positives = 70/109 (64%), Gaps = 14/109 (12%)
Query: 2 ELDRHIIGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKS--NILLVGPTGCGKTLMVKT 59
ELD+HIIGQ + K+ V++ + N ++R+ L + + E + NIL++GPTG GKT + +
Sbjct: 12 ELDQHIIGQADAKRAVAIALRNRWRRMQL--QEPLRHEVTPKNILMIGPTGVGKTEIARR 69
Query: 60 LAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVELAEQSI 108
LAK+ N P I V+AT FTE GYVG +V+SII+ +L + ++
Sbjct: 70 LAKLANAPFIKVEATKFTEVGYVGKEVDSIIR----------DLTDSAM 108
Score = 58.5 bits (142), Expect = 2e-10
Identities = 37/81 (45%), Positives = 47/81 (58%), Gaps = 15/81 (18%)
Query: 101 VELAEQ-SIIYIDEIDKISKKTDVVSGKDVSGEGVQQSLLKLIEGVNLSITSLAEKKNPS 159
++ EQ I++IDEIDKI KK + SG DVS EGVQ+ LL L+EG +S K
Sbjct: 245 IDAVEQNGIVFIDEIDKICKKGEY-SGADVSREGVQRDLLPLVEGSTVST-----KHGM- 297
Query: 160 QNPQVFNIDTTNILFIAGGAF 180
+ T +ILFIA GAF
Sbjct: 298 -------VKTDHILFIASGAF 311
>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic;
photosynthesis, rubisco activase, AAA+ protein; 2.95A
{Nicotiana tabacum} PDB: 3zw6_A
Length = 293
Score = 67.9 bits (166), Expect = 8e-14
Identities = 24/129 (18%), Positives = 57/129 (44%), Gaps = 4/129 (3%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVE 102
+ + G G GK+ + + + + + I++ A E+G G+ +I++ E +
Sbjct: 39 LGIWGGKGQGKSFQCELVFRKMGINPIMMSAGEL-ESGNAGEP-AKLIRQRYREAAEIIR 96
Query: 103 LAEQSIIYIDEIDKISKKTDVVSGKDVSGEGVQQSLLKLIEGVNLSITSLAEKKNPSQNP 162
++I+++D + + + V+ + V +L+ + + N + L N +N
Sbjct: 97 KGNMCCLFINDLDAGAGRMGGTTQYTVNNQMVNATLMNIAD--NPTNVQLPGMYNKQENA 154
Query: 163 QVFNIDTTN 171
+V I T N
Sbjct: 155 RVPIIVTGN 163
>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 = 66.0 bits (161), Expect = 7e-13
Identities = 38/132 (28%), Positives = 59/132 (44%), Gaps = 27/132 (20%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVE 102
ILL GP G GKTL+ + +A +++ + G + ES ++K E
Sbjct: 241 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM-SKLAG-ESESNLRKAFEE------ 292
Query: 103 LAEQ---SIIYIDEIDKISKKTDVVSGKDVSGEGVQQSLLKLIEGVNLSITSLAEKKNPS 159
AE+ +II+IDE+D I+ K + G +V V Q LL L++G+
Sbjct: 293 -AEKNAPAIIFIDELDAIAPKREKTHG-EVERRIVSQ-LLTLMDGL-------------K 336
Query: 160 QNPQVFNIDTTN 171
Q V + TN
Sbjct: 337 QRAHVIVMAATN 348
Score = 48.6 bits (116), Expect = 6e-07
Identities = 34/136 (25%), Positives = 57/136 (41%), Gaps = 28/136 (20%)
Query: 41 SNILLVGPTGCGKTLMVKTLAKIINVPIIVVD-ATSFTEAGYVGDDVESIIQKLLHECDY 99
+L GP GCGKTL+ K +A I + T + G+ E+ ++++ +
Sbjct: 512 KGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTM--WFGES-EANVREIFDK--- 565
Query: 100 DVELAEQ---SIIYIDEIDKISKKTDVVSGKDVS-GEGVQQSLLKLIEGVNLSITSLAEK 155
A Q +++ DE+D I+K G + V +L ++G++ K
Sbjct: 566 ----ARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMS-------TK 614
Query: 156 KNPSQNPQVFNIDTTN 171
KN VF I TN
Sbjct: 615 KN------VFIIGATN 624
>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 = 63.6 bits (155), Expect = 2e-12
Identities = 30/129 (23%), Positives = 54/129 (41%), Gaps = 20/129 (15%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVE 102
+LL GP GKT + +A+ N P I + + G+ ++K+ D
Sbjct: 67 VLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMI-GFSETAKCQAMKKIFD----DAY 121
Query: 103 LAEQSIIYIDEIDKISKKTDVVSGKDVSGEGVQQSLLKLIEGVNLSITSLAEKKNPSQNP 162
++ S + +D+I+++ + G S +Q LL L+ KK P Q
Sbjct: 122 KSQLSCVVVDDIERLLDYVPI--GPRFSNLVLQA-LLVLL------------KKAPPQGR 166
Query: 163 QVFNIDTTN 171
++ I TT+
Sbjct: 167 KLLIIGTTS 175
>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 = 60.2 bits (146), Expect = 7e-11
Identities = 38/132 (28%), Positives = 59/132 (44%), Gaps = 27/132 (20%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVE 102
ILL GP G GKTL+ + +A +++ + G+ ES ++K E
Sbjct: 241 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM-SKLAGES-ESNLRKAF-------E 291
Query: 103 LAEQ---SIIYIDEIDKISKKTDVVSGKDVSGEGVQQSLLKLIEGVNLSITSLAEKKNPS 159
AE+ +II+IDE+D I+ K + G +V V Q LL L++G+
Sbjct: 292 EAEKNAPAIIFIDELDAIAPKREKTHG-EVERRIVSQ-LLTLMDGLK------------- 336
Query: 160 QNPQVFNIDTTN 171
Q V + TN
Sbjct: 337 QRAHVIVMAATN 348
>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding,
nucleotide-binding, HY; HET: ADP; 3.11A
{Methanocaldococcus jannaschii}
Length = 285
Score = 53.0 bits (128), Expect = 1e-08
Identities = 37/104 (35%), Positives = 59/104 (56%), Gaps = 16/104 (15%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVE 102
ILL GP G GKTL+ K +A N I V + + ++G+ L+ + +
Sbjct: 54 ILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVKK-FIGEG-----ASLVKDI---FK 104
Query: 103 LAEQ---SIIYIDEIDKI-SKKTDVVSGKDVSGEGVQQSLLKLI 142
LA++ SII+IDEID I +K+TD ++G D VQ++L++L+
Sbjct: 105 LAKEKAPSIIFIDEIDAIAAKRTDALTGGDRE---VQRTLMQLL 145
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo
sapiens}
Length = 389
Score = 51.8 bits (124), Expect = 4e-08
Identities = 26/78 (33%), Positives = 41/78 (52%), Gaps = 12/78 (15%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVE 102
+LL GP G GKT++ K +A N + A S T YVG+ E +++ L
Sbjct: 151 LLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTS-KYVGEG-EKLVRALF-------A 201
Query: 103 LAEQ---SIIYIDEIDKI 117
+A + SII+ID++D +
Sbjct: 202 VARELQPSIIFIDQVDSL 219
>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding,
hydrolase; 2.70A {Drosophila melanogaster}
Length = 297
Score = 50.8 bits (122), Expect = 7e-08
Identities = 27/78 (34%), Positives = 41/78 (52%), Gaps = 12/78 (15%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVE 102
+LL GP G GKTL+ + +A + + + A S T YVGD E +++ L
Sbjct: 57 LLLFGPPGNGKTLLARAVATECSATFLNISAASLTS-KYVGDG-EKLVRALF-------A 107
Query: 103 LAEQ---SIIYIDEIDKI 117
+A SII+IDE+D +
Sbjct: 108 VARHMQPSIIFIDEVDSL 125
>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 = 50.5 bits (121), Expect = 1e-07
Identities = 26/78 (33%), Positives = 40/78 (51%), Gaps = 12/78 (15%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVE 102
ILL GP G GKTL+ K +A + A+S T +VG+ E +++ L
Sbjct: 120 ILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTS-KWVGEG-EKMVRALF-------A 170
Query: 103 LAEQ---SIIYIDEIDKI 117
+A ++I+IDEID +
Sbjct: 171 VARCQQPAVIFIDEIDSL 188
>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 = 45.8 bits (109), Expect = 3e-06
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 12/78 (15%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVE 102
ILL GP G GK+ + K +A N V ++ + ++G+ E ++++L
Sbjct: 54 ILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLV-SKWMGES-EKLVKQLF-------A 104
Query: 103 LAEQ---SIIYIDEIDKI 117
+A + SII+ID++D +
Sbjct: 105 MARENKPSIIFIDQVDAL 122
>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo
sapiens}
Length = 322
Score = 45.1 bits (107), Expect = 5e-06
Identities = 24/79 (30%), Positives = 41/79 (51%), Gaps = 13/79 (16%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPI-IVVDATSFTEAGYVGDDVESIIQKLLHECDYDV 101
ILL GP G GK+ + K +A N + ++ + ++G+ E +++ L
Sbjct: 48 ILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLV-SKWLGES-EKLVKNLF------- 98
Query: 102 ELAEQ---SIIYIDEIDKI 117
+LA + SII+IDEID +
Sbjct: 99 QLARENKPSIIFIDEIDSL 117
>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 = 44.4 bits (105), Expect = 1e-05
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 12/78 (15%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVE 102
ILL GP G GK+ + K +A N V ++ + ++G+ E ++++L
Sbjct: 87 ILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLV-SKWMGES-EKLVKQLF-------A 137
Query: 103 LAEQ---SIIYIDEIDKI 117
+A + SII+ID++D +
Sbjct: 138 MARENKPSIIFIDQVDAL 155
>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 = 43.8 bits (104), Expect = 2e-05
Identities = 35/150 (23%), Positives = 53/150 (35%), Gaps = 60/150 (40%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAG--------------YVGD---D 85
+L GP GCGKTL+ K +A E + G+ +
Sbjct: 52 VLFYGPPGCGKTLLAKAIA---------------NECQANFISIKGPELLTMWFGESEAN 96
Query: 86 VESIIQKLLHECDYDVELAEQS---IIYIDEIDKISKKTDVVSGKDVS-GEGVQQSLLKL 141
V I K A Q+ +++ DE+D I+K G + V +L
Sbjct: 97 VREIFDK-----------ARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTE 145
Query: 142 IEGVNLSITSLAEKKNPSQNPQVFNIDTTN 171
++G++ KKN VF I TN
Sbjct: 146 MDGMS-------TKKN------VFIIGATN 162
>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 = 43.4 bits (103), Expect = 2e-05
Identities = 28/90 (31%), Positives = 37/90 (41%), Gaps = 30/90 (33%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTE------AGYVGDDVESIIQKLLHE 96
LL+GP GCGKTL+ K +A VP + + F E A V
Sbjct: 42 ALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIGGLGAARVRS------------ 89
Query: 97 CDYDVELAEQ------SIIYIDEIDKISKK 120
L ++ I+YIDEID + KK
Sbjct: 90 ------LFKEARARAPCIVYIDEIDAVGKK 113
>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 = 43.4 bits (102), Expect = 2e-05
Identities = 24/79 (30%), Positives = 41/79 (51%), Gaps = 13/79 (16%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPI-IVVDATSFTEAGYVGDDVESIIQKLLHECDYDV 101
ILL GP G GK+ + K +A N + ++ + ++G+ E +++ L
Sbjct: 170 ILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLV-SKWLGES-EKLVKNLF------- 220
Query: 102 ELAEQ---SIIYIDEIDKI 117
+LA + SII+IDEID +
Sbjct: 221 QLARENKPSIIFIDEIDSL 239
>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 = 42.6 bits (101), Expect = 3e-05
Identities = 32/90 (35%), Positives = 39/90 (43%), Gaps = 30/90 (33%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTE------AGYVGDDVESIIQKLLHE 96
+LLVGP G GKTL+ K +A +VP + +SF E A V D
Sbjct: 47 VLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIEMFVGLGASRVRD------------ 94
Query: 97 CDYDVELAEQ------SIIYIDEIDKISKK 120
L E SII+IDEID I K
Sbjct: 95 ------LFETAKKQAPSIIFIDEIDAIGKS 118
>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 = 43.3 bits (101), Expect = 4e-05
Identities = 27/140 (19%), Positives = 57/140 (40%), Gaps = 18/140 (12%)
Query: 83 GDDVESIIQKLLHECD-YDVELAEQSIIYIDEIDKISKKTDVVSGKDV-------SGEGV 134
D + + D DV+ +SI+ +EID I D VSG E +
Sbjct: 19 KDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEM 78
Query: 135 QQSLLKLIEGVNLS--ITSLA-EKKNPSQNPQVFNIDTTNILFIAGGAFSGIENFIINR- 190
Q ++ + +N ++ + E++ PS +++ I+ + L+ F+ + ++R
Sbjct: 79 VQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMY-IEQRDRLYNDNQVFA---KYNVSRL 134
Query: 191 --INQETNFLEKLNNNYNLI 208
+ L +L N++
Sbjct: 135 QPYLKLRQALLELRPAKNVL 154
Score = 42.5 bits (99), Expect = 7e-05
Identities = 35/254 (13%), Positives = 70/254 (27%), Gaps = 93/254 (36%)
Query: 41 SNILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGY---VG-----DDVESIIQK 92
N+L+ G G GKT + + + + + + + V ++QK
Sbjct: 151 KNVLIDGVLGSGKTWVALDVCL--SYKVQ----CKMDFKIFWLNLKNCNSPETVLEMLQK 204
Query: 93 LLHECDYD-VELAEQSIIYIDEIDKISKK------------------------------- 120
LL++ D + ++ S I I +
Sbjct: 205 LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNL 264
Query: 121 -------------TDVVSG---KDVSGEGVQQSLLK------LIEGVNLSITSLAEKKNP 158
TD +S +S + +L L++ ++ L P
Sbjct: 265 SCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDL-----P 319
Query: 159 SQNPQVFNIDTTNILFIAGGAFSGIENFIINRINQETNFLEKLNNNYNLICETNTEDL-- 216
+ + TTN + S I I + + N+ + I E++ L
Sbjct: 320 RE------VLTTNPRRL-----SIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEP 368
Query: 217 -------INFGIIP 223
+ P
Sbjct: 369 AEYRKMFDRLSVFP 382
>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A
{Escherichia coli} SCOP: c.37.1.20
Length = 257
Score = 41.9 bits (99), Expect = 6e-05
Identities = 27/85 (31%), Positives = 36/85 (42%), Gaps = 30/85 (35%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTE------AGYVGDDVESIIQKLLHE 96
+L+VGP G GKTL+ K +A VP + + F E A V D
Sbjct: 48 VLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRD------------ 95
Query: 97 CDYDVELAEQS------IIYIDEID 115
+ EQ+ II+IDEID
Sbjct: 96 ------MFEQAKKAAPCIIFIDEID 114
>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
3.20A {Thermus thermophilus} SCOP: c.37.1.20
Length = 278
Score = 41.6 bits (98), Expect = 8e-05
Identities = 26/85 (30%), Positives = 34/85 (40%), Gaps = 30/85 (35%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTE------AGYVGDDVESIIQKLLHE 96
+LLVGP G GKT + + +A VP I + F E A V D
Sbjct: 76 VLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRD------------ 123
Query: 97 CDYDVELAEQS------IIYIDEID 115
L E + I++IDEID
Sbjct: 124 ------LFETAKRHAPCIVFIDEID 142
>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 = 41.2 bits (97), Expect = 1e-04
Identities = 26/85 (30%), Positives = 34/85 (40%), Gaps = 30/85 (35%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTE------AGYVGDDVESIIQKLLHE 96
+LLVGP G GKT + + +A VP I + F E A V D
Sbjct: 52 VLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRD------------ 99
Query: 97 CDYDVELAEQS------IIYIDEID 115
L E + I++IDEID
Sbjct: 100 ------LFETAKRHAPCIVFIDEID 118
>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 = 41.8 bits (98), Expect = 1e-04
Identities = 18/86 (20%), Positives = 37/86 (43%), Gaps = 5/86 (5%)
Query: 39 EKSNILLVGPTGCGKTLMVK-TLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHEC 97
E ++L GP G GKT+ + TL + ++ ++ +S T + + +
Sbjct: 1303 EHRPLILCGPPGSGKTMTLTSTLRAFPDFEVVSLNFSSATTPELLLKTFDHHCEYKRTPS 1362
Query: 98 DYDV----ELAEQSIIYIDEIDKISK 119
V +L + +++ DEI+ S
Sbjct: 1363 GETVLRPTQLGKWLVVFCDEINLPST 1388
Score = 32.2 bits (73), Expect = 0.16
Identities = 8/37 (21%), Positives = 18/37 (48%), Gaps = 3/37 (8%)
Query: 29 FLLKSKNIY---LEKSNILLVGPTGCGKTLMVKTLAK 62
++ K ++ +++VGP+G GKT + +
Sbjct: 892 WVEKILQLHQILNINHGVMMVGPSGGGKTTSWEVYLE 928
Score = 27.9 bits (62), Expect = 3.3
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 47 GPTGCGKTLMVKTLAKIINVPIIV 70
GP G GKT VK L + ++V
Sbjct: 611 GPAGTGKTETVKALGSQLGRFVLV 634
>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 = 41.0 bits (96), Expect = 1e-04
Identities = 11/30 (36%), Positives = 17/30 (56%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVD 72
L+ GPT GKT M +A+ P++ +D
Sbjct: 4 HLIYGPTCSGKTDMAIQIAQETGWPVVALD 33
>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET:
ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*
Length = 368
Score = 41.5 bits (97), Expect = 1e-04
Identities = 30/177 (16%), Positives = 62/177 (35%), Gaps = 17/177 (9%)
Query: 7 IIGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLAKIINV 66
++GQ ++ V L +++ + +L+ G G GKT + +A+ +
Sbjct: 46 MVGQLAARRAAGV-------VLEMIREG--KIAGRAVLIAGQPGTGKTAIAMGMAQALGP 96
Query: 67 PIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVELAEQSIIYID--EIDKISKKTDVV 124
E++ Q V + ++ + EID I+ +T
Sbjct: 97 DTPFTAIAGSEIFSLEMSKTEALTQAF--RRSIGVRIKAGAVHTVSLHEIDVINSRT--Q 152
Query: 125 SGKDVSGEGVQQSLLKLIEGVNLSITSLAEKKNPSQNPQVFNIDTTNILFIAGGAFS 181
+ + ++ E +N + E+ P V ID ++L I +FS
Sbjct: 153 GFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEIIPGVLFIDEVHMLDI--ESFS 207
>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 = 41.0 bits (97), Expect = 1e-04
Identities = 17/65 (26%), Positives = 28/65 (43%), Gaps = 16/65 (24%)
Query: 2 ELDRHIIGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLA 61
E+ + ++GQ + +G+ +ILL G G KTL V TLA
Sbjct: 24 EVGKVVVGQKYMINRLLIGI----------------CTGGHILLEGVPGLAKTLSVNTLA 67
Query: 62 KIINV 66
K +++
Sbjct: 68 KTMDL 72
>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein,
calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides}
PDB: 3syk_A 3zuh_A*
Length = 309
Score = 40.9 bits (95), Expect = 1e-04
Identities = 27/153 (17%), Positives = 56/153 (36%), Gaps = 27/153 (17%)
Query: 2 ELDRHIIGQHETKK----IVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMV 57
ELDR +IG K ++ + ++ L + L ++ G G GKT +
Sbjct: 28 ELDRELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTL---HMSFTGNPGTGKTTVA 84
Query: 58 KTLAKII-------NVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVELAEQSIIY 110
+A ++ ++ V Y+G + L + A +++
Sbjct: 85 LKMAGLLHRLGYVRKGHLVSVTRDDLVG-QYIGHTAPKTKEVL--------KRAMGGVLF 135
Query: 111 IDEIDKISKKTDVVSGKDVSGEGVQQSLLKLIE 143
IDE + + + G+ + LL+++E
Sbjct: 136 IDEAYYLYRPD----NERDYGQEAIEILLQVME 164
>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A
{Homo sapiens}
Length = 274
Score = 41.0 bits (97), Expect = 1e-04
Identities = 34/151 (22%), Positives = 54/151 (35%), Gaps = 65/151 (43%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAG--------------YVGD---D 85
+LL GP GCGKTL+ K +A E+G YVG+
Sbjct: 47 VLLAGPPGCGKTLLAKAVA---------------NESGLNFISVKGPELLNMYVGESERA 91
Query: 86 VESIIQKLLHECDYDVELAEQS---IIYIDEIDKISKKTDVVSGKDVSG--EGVQQSLLK 140
V + Q+ A+ S +I+ DE+D + + +G V LL
Sbjct: 92 VRQVFQR-----------AKNSAPCVIFFDEVDALCPR----RSDRETGASVRVVNQLLT 136
Query: 141 LIEGVNLSITSLAEKKNPSQNPQVFNIDTTN 171
++G+ ++ VF + TN
Sbjct: 137 EMDGLE-------ARQQ------VFIMAATN 154
>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 = 40.7 bits (96), Expect = 3e-04
Identities = 22/89 (24%), Positives = 39/89 (43%), Gaps = 28/89 (31%)
Query: 44 LLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTE-----------AGYVGDD-----VE 87
L GPTG GKT + L+K + + ++ D + + E GYVG D +
Sbjct: 492 LFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAPPGYVGFDQGGLLTD 551
Query: 88 SIIQKLLHECDYDVELAEQSIIYIDEIDK 116
++I+ +++ +DEI+K
Sbjct: 552 AVIKH------------PHAVLLLDEIEK 568
Score = 39.2 bits (92), Expect = 7e-04
Identities = 32/86 (37%), Positives = 46/86 (53%), Gaps = 16/86 (18%)
Query: 40 KSNILLVGPTGCGKTLMVKTLAKII---NVPIIVVDATSFT------EAG--YVGDDVES 88
K+N LLVG +G GKT + + LA I +VP ++ D T ++ AG Y G D E
Sbjct: 207 KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRG-DFEK 265
Query: 89 IIQKLLHECDYDVELAEQSIIYIDEI 114
+ LL + +E SI++IDEI
Sbjct: 266 RFKALLKQ----LEQDTNSILFIDEI 287
>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 = 39.8 bits (94), Expect = 4e-04
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDA 73
I L+GPT GKT + LA + +I VD+
Sbjct: 8 IFLMGPTAAGKTDLAMALADALPCELISVDS 38
>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 = 39.4 bits (93), Expect = 5e-04
Identities = 15/31 (48%), Positives = 20/31 (64%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDA 73
I L+GPT GKT + L KI+ V +I VD+
Sbjct: 13 IFLMGPTASGKTALAIELRKILPVELISVDS 43
>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 = 38.1 bits (88), Expect = 8e-04
Identities = 14/77 (18%), Positives = 31/77 (40%), Gaps = 11/77 (14%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVE 102
+LL G G GK+ + + LA + VP + DD+ I+ + + +
Sbjct: 12 LLLSGHPGSGKSTIAEALANLPGVPKVHFH----------SDDLWGYIKHGRID-PWLPQ 60
Query: 103 LAEQSIIYIDEIDKISK 119
+Q+ + + ++
Sbjct: 61 SHQQNRMIMQIAADVAG 77
>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET:
ADP; 3.90A {Thermus thermophilus}
Length = 499
Score = 38.3 bits (90), Expect = 0.001
Identities = 26/85 (30%), Positives = 33/85 (38%), Gaps = 30/85 (35%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTE------AGYVGDDVESIIQKLLHE 96
+LLVGP G GKT + + +A VP I + F E A V D
Sbjct: 67 VLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRD------------ 114
Query: 97 CDYDVELAEQ------SIIYIDEID 115
L E I++IDEID
Sbjct: 115 ------LFETAKRHAPCIVFIDEID 133
>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET:
ATP; 2.37A {Humulus lupulus}
Length = 339
Score = 38.4 bits (89), Expect = 0.001
Identities = 10/31 (32%), Positives = 17/31 (54%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDA 73
++L+G TG GK+ + LA + +I D
Sbjct: 43 LVLMGATGTGKSRLSIDLAAHFPLEVINSDK 73
>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta
protein, structural genomics, PSI-2; 2.70A
{Staphylococcus epidermidis atcc 12228}
Length = 340
Score = 37.9 bits (89), Expect = 0.001
Identities = 15/32 (46%), Positives = 21/32 (65%), Gaps = 2/32 (6%)
Query: 43 ILLVGPTGCGKT-LMVKTLAKIINVPIIVVDA 73
I++VGPT GKT L ++ +AK N II D+
Sbjct: 10 IVIVGPTASGKTELSIE-VAKKFNGEIISGDS 40
>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 = 38.1 bits (89), Expect = 0.002
Identities = 12/32 (37%), Positives = 20/32 (62%), Gaps = 2/32 (6%)
Query: 43 ILLVGPTGCGKT-LMVKTLAKIINVPIIVVDA 73
I++ G TG GK+ L ++ LA+ N +I D+
Sbjct: 5 IVIAGTTGVGKSQLSIQ-LAQKFNGEVINSDS 35
>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 = 37.9 bits (89), Expect = 0.002
Identities = 28/85 (32%), Positives = 35/85 (41%), Gaps = 30/85 (35%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTE------AGYVGDDVESIIQKLLHE 96
ILLVGP G GKTL+ + +A NVP + + F E A V D
Sbjct: 52 ILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVELFVGVGAARVRD------------ 99
Query: 97 CDYDVELAEQ------SIIYIDEID 115
L Q I++IDEID
Sbjct: 100 ------LFAQAKAHAPCIVFIDEID 118
>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 = 37.5 bits (88), Expect = 0.002
Identities = 14/32 (43%), Positives = 19/32 (59%), Gaps = 2/32 (6%)
Query: 43 ILLVGPTGCGKT-LMVKTLAKIINVPIIVVDA 73
+ +VGPT GKT V LAK +N +I D+
Sbjct: 6 VAIVGPTAVGKTKTSVM-LAKRLNGEVISGDS 36
>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 = 35.8 bits (83), Expect = 0.004
Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 2/53 (3%)
Query: 41 SNILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKL 93
+ I+L GP C K+ + L+K + P ++ +SF A + + KL
Sbjct: 2 TLIILEGPDCCFKSTVAAKLSKELKYP--IIKGSSFELAKSGNEKLFEHFNKL 52
>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 = 35.7 bits (83), Expect = 0.005
Identities = 16/42 (38%), Positives = 24/42 (57%), Gaps = 3/42 (7%)
Query: 31 LKSKNIYLEKS---NILLVGPTGCGKTLMVKTLAKIINVPII 69
L ++N+Y + + I L G G GKT + K A+ +NVP I
Sbjct: 13 LGTENLYFQSNAMVRIFLTGYMGAGKTTLGKAFARKLNVPFI 54
>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman
fold, hydro; HET: ADP; 2.91A {Escherichia coli}
Length = 500
Score = 35.9 bits (83), Expect = 0.008
Identities = 9/63 (14%), Positives = 22/63 (34%), Gaps = 16/63 (25%)
Query: 2 ELDRHIIGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLA 61
L++ + + ++ + L ++ L+GP G K+L+ + L
Sbjct: 19 SLEKGLYERSHAIRLCLLAA----------------LSGESVFLLGPPGIAKSLIARRLK 62
Query: 62 KII 64
Sbjct: 63 FAF 65
>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 = 35.7 bits (82), Expect = 0.009
Identities = 25/117 (21%), Positives = 43/117 (36%), Gaps = 23/117 (19%)
Query: 8 IGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLAKII--- 64
+GQ ++ V V L+KSK + +LL GP G GKT LA I
Sbjct: 40 VGQENAREACGVIVE-------LIKSKKMAGR--AVLLAGPPGTGKT----ALALAIAQE 86
Query: 65 ---NVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVELAEQSIIYIDEIDKIS 118
VP + + E +++ + + E +Y E+ +++
Sbjct: 87 LGSKVPFCPMVGSEVYSTEIKK--TEVLMENFRRA--IGLRIKETKEVYEGEVTELT 139
>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 = 35.0 bits (80), Expect = 0.013
Identities = 20/100 (20%), Positives = 32/100 (32%), Gaps = 18/100 (18%)
Query: 41 SNILLVGPTGCGKTLMVKTLAK------IINVPIIVVDATSFT-----------EAGYVG 83
+NI + G TG GKT +VK + + + ++
Sbjct: 46 NNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLLESLDVKV 105
Query: 84 DDVESIIQKLLHECDYDVELAEQS-IIYIDEIDKISKKTD 122
I +L V +I +DEID KK +
Sbjct: 106 PFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYN 145
>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H
RNA-binding helicase, innate immunity, IFIH1, S
genomics; 1.60A {Homo sapiens}
Length = 216
Score = 34.4 bits (79), Expect = 0.018
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 38 LEKSNILLVGPTGCGKTL 55
LE NI++ PTG GKT
Sbjct: 46 LEGKNIIICLPTGSGKTR 63
>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 = 34.1 bits (78), Expect = 0.019
Identities = 9/30 (30%), Positives = 17/30 (56%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVD 72
I++ G GKT + + LA + +P++ D
Sbjct: 8 IIVTGHPATGKTTLSQALATGLRLPLLSKD 37
>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 = 34.6 bits (80), Expect = 0.020
Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 1/54 (1%)
Query: 12 ETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNIL-LVGPTGCGKTLMVKTLAKII 64
E + +V F L+ + + K ++ +VGP G GKT VK LA +
Sbjct: 353 ERETLVEYPRLVKDYGSFKLEVEPGEIRKGEVIGIVGPNGIGKTTFVKMLAGVE 406
Score = 30.7 bits (70), Expect = 0.34
Identities = 10/23 (43%), Positives = 13/23 (56%), Gaps = 4/23 (17%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIIN 65
+ +VGP G GKT T KI+
Sbjct: 120 VGIVGPNGTGKT----TAVKILA 138
>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 = 34.3 bits (78), Expect = 0.023
Identities = 18/88 (20%), Positives = 36/88 (40%), Gaps = 2/88 (2%)
Query: 38 LEKSNILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHEC 97
L L++G GK+ ++K +N+P I +D F E Y+ + + +L E
Sbjct: 28 LRAPITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEERNYI--SYKDFLLELQKEI 85
Query: 98 DYDVELAEQSIIYIDEIDKISKKTDVVS 125
+ V+ + + I I + +
Sbjct: 86 NKLVKRLPSLLKALKNIQGIVIMGNEIK 113
>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 = 33.7 bits (78), Expect = 0.024
Identities = 14/31 (45%), Positives = 20/31 (64%)
Query: 39 EKSNILLVGPTGCGKTLMVKTLAKIINVPII 69
EK NI LVGP G GK+ + + LA+ +N+
Sbjct: 3 EKRNIFLVGPMGAGKSTIGRQLAQQLNMEFY 33
>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 = 34.5 bits (79), Expect = 0.025
Identities = 13/59 (22%), Positives = 20/59 (33%), Gaps = 3/59 (5%)
Query: 7 IIGQHETKKIVSV---GVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLAK 62
+ G + + N K F K+ +L GP G GKT +A+
Sbjct: 41 VCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQ 99
>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 = 33.7 bits (78), Expect = 0.031
Identities = 15/61 (24%), Positives = 25/61 (40%), Gaps = 14/61 (22%)
Query: 7 IIGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLAKIINV 66
++GQ E + + ++ KNI ++L GP G GKT LA+ +
Sbjct: 19 VVGQDEVIQRLKG----------YVERKNI----PHLLFSGPPGTGKTATAIALARDLFG 64
Query: 67 P 67
Sbjct: 65 E 65
>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A
{Coxiella burnetii}
Length = 185
Score = 33.3 bits (77), Expect = 0.033
Identities = 11/31 (35%), Positives = 16/31 (51%)
Query: 39 EKSNILLVGPTGCGKTLMVKTLAKIINVPII 69
+NI L+G G GKT + LAK+ +
Sbjct: 4 NLTNIYLIGLMGAGKTSVGSQLAKLTKRILY 34
>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase,
translation; HET: ADP; 2.05A {Sulfolobus solfataricus}
Length = 538
Score = 33.8 bits (78), Expect = 0.034
Identities = 12/37 (32%), Positives = 18/37 (48%), Gaps = 1/37 (2%)
Query: 29 FLLKSKNIYLEKSNIL-LVGPTGCGKTLMVKTLAKII 64
F L N ++ I+ ++GP G GKT + L I
Sbjct: 282 FQLVVDNGEAKEGEIIGILGPNGIGKTTFARILVGEI 318
Score = 30.4 bits (69), Expect = 0.55
Identities = 8/23 (34%), Positives = 13/23 (56%), Gaps = 4/23 (17%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIIN 65
+ ++G G GKT T+ KI+
Sbjct: 28 LGVLGKNGVGKT----TVLKILA 46
>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 = 33.7 bits (77), Expect = 0.035
Identities = 17/95 (17%), Positives = 36/95 (37%), Gaps = 17/95 (17%)
Query: 37 YLEKSNILLVGPTGCGKTLMVKTLAKIINV-----PIIVVDATS-FTEAGYVGDDV---- 86
E ++L+ G TG GK+++++ L +++VD D+
Sbjct: 50 DAEPRHLLVNGATGTGKSVLLREL--AYTGLLRGDRMVIVDPNGDMLSKFGRDKDIILNP 107
Query: 87 ---ESIIQKLLHEC--DYDVELAEQSIIYIDEIDK 116
+ +E DYD + S++ + D+
Sbjct: 108 YDQRTKGWSFFNEIRNDYDWQRYALSVVPRGKTDE 142
>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 = 33.6 bits (77), Expect = 0.036
Identities = 10/36 (27%), Positives = 18/36 (50%), Gaps = 1/36 (2%)
Query: 42 NILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFT 77
+L+ G G GK+ V+ LA ++ I V+ +
Sbjct: 47 GVLVFGDRGTGKSTAVRALAALLP-EIEAVEGCPVS 81
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 34.3 bits (78), Expect = 0.036
Identities = 41/199 (20%), Positives = 64/199 (32%), Gaps = 66/199 (33%)
Query: 17 VS---VGVYN--HYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLAKIINVPIIVV 71
+S +GV HY + K + L G TG + L+ A I
Sbjct: 236 ISCPLIGVIQLAHY--VVTAKLLGFTPGELRSYLKGATGHSQGLVT---AVAIAE---TD 287
Query: 72 DATSFTEAG--------YVGDDVES--------IIQKLLHECDYDVE------LA----- 104
SF + ++G V + +L + + E L+
Sbjct: 288 SWESFFVSVRKAITVLFFIG--VRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLT 345
Query: 105 -EQSIIYIDEIDKISKKTDVVS-----GKD---VSGEGVQQSLLKLIEGVNLSITSLAEK 155
EQ Y+++ + V G VSG QSL G+NL +L +
Sbjct: 346 QEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGP--PQSL----YGLNL---TLRKA 396
Query: 156 KNPSQNPQVFNIDTTNILF 174
K PS +D + I F
Sbjct: 397 KAPS------GLDQSRIPF 409
Score = 32.3 bits (73), Expect = 0.13
Identities = 21/110 (19%), Positives = 45/110 (40%), Gaps = 30/110 (27%)
Query: 47 GPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVELA-- 104
G M+ A IN P V A SF++ + ++ +++++ + VE+
Sbjct: 1800 DELGRSNYGMI---A--IN-PGRV--AASFSQ-----EALQYVVERVGKRTGWLVEIVNY 1846
Query: 105 ----EQSII--YIDEIDKIS--------KKTDVVS-GKDVSGEGVQQSLL 139
+Q + + +D ++ +K D++ K +S E V+ L
Sbjct: 1847 NVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKSLSLEEVEGHLF 1896
>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural
genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}
Length = 263
Score = 33.5 bits (77), Expect = 0.036
Identities = 11/35 (31%), Positives = 21/35 (60%), Gaps = 4/35 (11%)
Query: 31 LKSKNIYLEKSNILLVGPTGCGKTLMVKTLAKIIN 65
L++ N+ + ++++GP G GKT TL + I+
Sbjct: 21 LENINLEVNGEKVIILGPNGSGKT----TLLRAIS 51
>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 = 33.6 bits (76), Expect = 0.040
Identities = 11/100 (11%), Positives = 30/100 (30%), Gaps = 16/100 (16%)
Query: 41 SNILLVGPTGCGKTLMVKTLAKII----NVPIIVVDATSFTEAGYV------------GD 84
L+G G GKT+ ++ L ++ + ++ + +
Sbjct: 45 PRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIARSLNIPFPR 104
Query: 85 DVESIIQKLLHECDYDVELAEQSIIYIDEIDKISKKTDVV 124
S + L ++ E + +D+ ++
Sbjct: 105 RGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILST 144
>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 = 32.9 bits (76), Expect = 0.040
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 40 KSNILLVGPTGCGKTLMVKTLAKIINVPII 69
I +VG GCG T + + LA+ + +
Sbjct: 2 TEPIFMVGARGCGMTTVGRELARALGYEFV 31
>3t61_A Gluconokinase; PSI-biology, structural genomics, protein
structure initiati YORK structural genomics research
consortium, nysgrc; 2.20A {Sinorhizobium meliloti}
Length = 202
Score = 33.1 bits (75), Expect = 0.044
Identities = 10/31 (32%), Positives = 19/31 (61%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDA 73
I+++G +G GK+ + + +A+ P I DA
Sbjct: 21 IVVMGVSGSGKSSVGEAIAEACGYPFIEGDA 51
>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 = 32.8 bits (74), Expect = 0.047
Identities = 11/38 (28%), Positives = 19/38 (50%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAG 80
I+L G + GK+ +V+ L ++ P + S EA
Sbjct: 6 IILNGGSSAGKSGIVRCLQSVLPEPWLAFGVDSLIEAM 43
>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase,
shikimat ATP binding, chloroplast, transferase; 2.35A
{Arabidopsis thaliana}
Length = 250
Score = 32.8 bits (75), Expect = 0.054
Identities = 12/36 (33%), Positives = 18/36 (50%)
Query: 37 YLEKSNILLVGPTGCGKTLMVKTLAKIINVPIIVVD 72
YL ++ LVG G GKT + K +A+ + D
Sbjct: 45 YLNGRSMYLVGMMGSGKTTVGKIMARSLGYTFFDCD 80
>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A
{Brucella suis}
Length = 361
Score = 33.1 bits (76), Expect = 0.054
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 42 NILLVGPTGCGKTLMVKTLAKII 64
I++ G TG GKT ++K L + I
Sbjct: 177 VIVVAGETGSGKTTLMKALMQEI 199
>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 = 33.1 bits (76), Expect = 0.058
Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 14/56 (25%)
Query: 7 IIGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLAK 62
++GQ E + + ++ KNI ++L GP G GKT LA+
Sbjct: 19 VVGQDEVIQRLKG----------YVERKNI----PHLLFSGPPGTGKTATAIALAR 60
>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition
domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus
fulgidus} SCOP: c.37.1.19
Length = 237
Score = 32.7 bits (75), Expect = 0.064
Identities = 9/28 (32%), Positives = 15/28 (53%)
Query: 44 LLVGPTGCGKTLMVKTLAKIINVPIIVV 71
+V PTG GKT + ++ P ++V
Sbjct: 112 CIVLPTGSGKTHVAMAAINELSTPTLIV 139
>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid
biosynthesis, P-loop kinase, metal- binding, shikimate
pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis}
SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A*
2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A*
1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A*
3baf_A*
Length = 184
Score = 32.2 bits (74), Expect = 0.072
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 40 KSNILLVGPTGCGKTLMVKTLAKIINVP 67
+LVG G GK+ + + LAK + V
Sbjct: 2 APKAVLVGLPGSGKSTIGRRLAKALGVG 29
>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE;
1.57A {Campylobacter jejuni} SCOP: c.37.1.2
Length = 175
Score = 32.1 bits (74), Expect = 0.082
Identities = 9/30 (30%), Positives = 18/30 (60%)
Query: 40 KSNILLVGPTGCGKTLMVKTLAKIINVPII 69
NI+ +G G GK+ + + LAK +++ +
Sbjct: 4 AKNIVFIGFMGSGKSTLARALAKDLDLVFL 33
>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein
transport, biosynthetic protein; HET: GNP; 3.00A
{Bacillus subtilis} PDB: 2px3_A* 3syn_A*
Length = 296
Score = 32.4 bits (74), Expect = 0.084
Identities = 15/80 (18%), Positives = 26/80 (32%), Gaps = 32/80 (40%)
Query: 43 ILLVGPTGCGKT------------------LMV-------------KTLAKIINVPIIVV 71
I+L G TG GKT + KT A+++ P+ V
Sbjct: 108 IVLFGSTGAGKTTTLAKLAAISMLEKHKKIAFITTDTYRIAAVEQLKTYAELLQAPLEVC 167
Query: 72 -DATSFTEAGYVGDDVESII 90
F +A + + + +
Sbjct: 168 YTKEEFQQAKELFSEYDHVF 187
>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis,
hydrolyase/translation complex; HET: ADP; 1.90A
{Pyrococcus furiosus}
Length = 538
Score = 32.6 bits (75), Expect = 0.088
Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 3/56 (5%)
Query: 12 ETKKIVSVGVYNHYKRL--FLLKSKNIYLEKSNIL-LVGPTGCGKTLMVKTLAKII 64
E ++ V K F L+ + ++K ++ +VGP G GKT VK LA +
Sbjct: 281 EIERETLVTYPRLVKDYGSFRLEVEPGEIKKGEVIGIVGPNGIGKTTFVKMLAGVE 336
Score = 27.3 bits (61), Expect = 4.3
Identities = 19/70 (27%), Positives = 36/70 (51%), Gaps = 9/70 (12%)
Query: 27 RLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTE--AGYVGD 84
RL ++K + + +VGP G GK+ VK LA + +P + D S+ + G+
Sbjct: 40 RLPVVKEGMV------VGIVGPNGTGKSTAVKILAGQL-IPNLCGDNDSWDGVIRAFRGN 92
Query: 85 DVESIIQKLL 94
++++ +KL
Sbjct: 93 ELQNYFEKLK 102
>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET:
ATP; NMR {Saccharomyces cerevisiae}
Length = 608
Score = 32.7 bits (75), Expect = 0.091
Identities = 14/54 (25%), Positives = 23/54 (42%), Gaps = 1/54 (1%)
Query: 12 ETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNIL-LVGPTGCGKTLMVKTLAKII 64
+ S + F+L + S IL ++G G GKT ++K LA +
Sbjct: 349 SASRAFSYPSLKKTQGDFVLNVEEGEFSDSEILVMMGENGTGKTTLIKLLAGAL 402
Score = 31.9 bits (73), Expect = 0.14
Identities = 9/23 (39%), Positives = 12/23 (52%), Gaps = 4/23 (17%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIIN 65
+ LVG G GK+ T KI+
Sbjct: 106 LGLVGTNGIGKS----TALKILA 124
>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme
function initiative, EFI, STRU genomics, transferase;
1.60A {Janibacter SP}
Length = 200
Score = 32.0 bits (72), Expect = 0.095
Identities = 8/31 (25%), Positives = 16/31 (51%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDA 73
++++G +G GKT + +A + DA
Sbjct: 32 VVVMGVSGSGKTTIAHGVADETGLEFAEADA 62
>3pvs_A Replication-associated recombination protein A; maintenance of
genome stability Pro recombination; 2.50A {Escherichia
coli}
Length = 447
Score = 32.5 bits (75), Expect = 0.10
Identities = 19/78 (24%), Positives = 39/78 (50%), Gaps = 17/78 (21%)
Query: 41 SNILLVGPTGCGKTLMVKTLAKII----NVPIIVVDATSFTEAGYVGDDVESIIQKLLHE 96
+++L GP G GKT TLA++I N + + A + +G V ++ I++
Sbjct: 51 HSMILWGPPGTGKT----TLAEVIARYANADVERISAVT---SG-VK-EIREAIERARQN 101
Query: 97 CDYDVELAEQSIIYIDEI 114
+ ++I+++DE+
Sbjct: 102 RNAG----RRTILFVDEV 115
>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain
cytoplasmic; motor protein, AAA+ protein, ASCE protein,
P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma
japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A
Length = 2695
Score = 32.5 bits (74), Expect = 0.10
Identities = 10/18 (55%), Positives = 11/18 (61%)
Query: 45 LVGPTGCGKTLMVKTLAK 62
LVG GCGKT KT+
Sbjct: 928 LVGKAGCGKTATWKTVID 945
Score = 32.1 bits (73), Expect = 0.14
Identities = 11/56 (19%), Positives = 24/56 (42%), Gaps = 1/56 (1%)
Query: 39 EKSNILLVGPTGCGKTLMVK-TLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKL 93
K I+L GP G GKT+++ L ++ ++ + T ++ + +
Sbjct: 1266 SKRGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKDTTTEHILSALHRHTNYV 1321
Score = 28.3 bits (63), Expect = 2.5
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 47 GPTGCGKTLMVKTLAKIINVPIIV 70
GP G GKT VK + + ++V
Sbjct: 652 GPAGTGKTETVKAFGQNLGRVVVV 675
Score = 27.5 bits (61), Expect = 5.3
Identities = 11/57 (19%), Positives = 28/57 (49%), Gaps = 4/57 (7%)
Query: 41 SNILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHEC 97
+++L+G + GKT++ + +A + + I+ D + I++K + +C
Sbjct: 1610 GHMMLIGASRTGKTILTRFVAWLNGLKIVQPKIHR----HSNLSDFDMILKKAISDC 1662
>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 = 32.4 bits (73), Expect = 0.10
Identities = 8/22 (36%), Positives = 12/22 (54%)
Query: 41 SNILLVGPTGCGKTLMVKTLAK 62
+ L +G TG GKT + K +
Sbjct: 46 FSNLFLGLTGTGKTFVSKYIFN 67
>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion,
hydrolas binding complex; 2.40A {Helicobacter pylori}
SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A
Length = 330
Score = 32.0 bits (73), Expect = 0.11
Identities = 9/25 (36%), Positives = 16/25 (64%)
Query: 40 KSNILLVGPTGCGKTLMVKTLAKII 64
N+++ G TG GKT +K++ + I
Sbjct: 171 GKNVIVCGGTGSGKTTYIKSIMEFI 195
>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP,
replication; HET: ADP; 2.80A {Pyrococcus furiosus}
SCOP: a.80.1.1 c.37.1.20
Length = 327
Score = 32.0 bits (73), Expect = 0.11
Identities = 14/56 (25%), Positives = 23/56 (41%), Gaps = 14/56 (25%)
Query: 7 IIGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLAK 62
I+GQ K + +K+ ++ ++L GP G GKT LA+
Sbjct: 27 IVGQEHIVKRLKH----------YVKTGSM----PHLLFAGPPGVGKTTAALALAR 68
>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 = 32.1 bits (73), Expect = 0.13
Identities = 9/28 (32%), Positives = 15/28 (53%)
Query: 44 LLVGPTGCGKTLMVKTLAKIINVPIIVV 71
+V PTG GKT + ++ P ++V
Sbjct: 112 CIVLPTGSGKTHVAMAAINELSTPTLIV 139
>1y63_A LMAJ004144AAA protein; structural genomics, protein structure
initiative, PSI, SGPP structural genomics of pathogenic
protozoa consortium; HET: ADP; 1.70A {Leishmania major}
SCOP: c.37.1.1
Length = 184
Score = 31.2 bits (70), Expect = 0.15
Identities = 15/64 (23%), Positives = 26/64 (40%)
Query: 42 NILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDV 101
NIL+ G G GKT M + +A ++ + E + + + ++ E D D
Sbjct: 12 NILITGTPGTGKTSMAEMIAAELDGFQHLEVGKLVKENHFYTEYDTELDTHIIEEKDEDR 71
Query: 102 ELAE 105
L
Sbjct: 72 LLDF 75
>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase,
hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex
aeolicus} PDB: 2eww_A* 2gsz_A*
Length = 372
Score = 31.8 bits (73), Expect = 0.15
Identities = 11/23 (47%), Positives = 16/23 (69%), Gaps = 3/23 (13%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIIN 65
IL+ GPTG GK+ T+A +I+
Sbjct: 139 ILVTGPTGSGKS---TTIASMID 158
>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion
ATPase, ATP-binding, FIMB nucleotide-binding, transport;
HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB:
3jvu_A*
Length = 356
Score = 31.4 bits (72), Expect = 0.18
Identities = 10/23 (43%), Positives = 16/23 (69%), Gaps = 3/23 (13%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIIN 65
+L+ GPTG GK+ TLA +++
Sbjct: 126 VLVTGPTGSGKS---TTLAAMLD 145
>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop
kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex
aeolicus}
Length = 168
Score = 30.9 bits (71), Expect = 0.18
Identities = 10/31 (32%), Positives = 17/31 (54%)
Query: 42 NILLVGPTGCGKTLMVKTLAKIINVPIIVVD 72
I L+G GK+ + L++ +N+P VD
Sbjct: 2 RIYLIGFMCSGKSTVGSLLSRSLNIPFYDVD 32
>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 = 31.4 bits (72), Expect = 0.20
Identities = 26/81 (32%), Positives = 39/81 (48%), Gaps = 21/81 (25%)
Query: 43 ILLVGPTGCGKTLMVKTLAKII----NVPIIVVDATSFTEAGYVGDDVESIIQKLLHECD 98
+LL GP G GKT TLA +I V + V + + G D+ +I+ L E D
Sbjct: 41 LLLFGPPGLGKT----TLAHVIAHELGVNLRVTSGPAIEKPG----DLAAILANSLEEGD 92
Query: 99 YDVELAEQSIIYIDEIDKISK 119
I++IDEI ++S+
Sbjct: 93 ---------ILFIDEIHRLSR 104
>2eyu_A Twitching motility protein PILT; pilus retraction motor,
C-terminal domain PILT, protein transport; 1.87A
{Aquifex aeolicus}
Length = 261
Score = 31.0 bits (71), Expect = 0.23
Identities = 11/23 (47%), Positives = 16/23 (69%), Gaps = 3/23 (13%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIIN 65
IL+ GPTG GK+ T+A +I+
Sbjct: 28 ILVTGPTGSGKS---TTIASMID 47
>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein;
HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*
Length = 274
Score = 31.3 bits (70), Expect = 0.24
Identities = 6/19 (31%), Positives = 14/19 (73%)
Query: 42 NILLVGPTGCGKTLMVKTL 60
+++VG +G GK+ ++ +L
Sbjct: 10 TLMVVGESGLGKSTLINSL 28
>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A
{Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A*
3mrs_A 3n2e_A*
Length = 168
Score = 30.6 bits (70), Expect = 0.26
Identities = 7/36 (19%), Positives = 19/36 (52%)
Query: 37 YLEKSNILLVGPTGCGKTLMVKTLAKIINVPIIVVD 72
+ +++L+G G GK+ + + L + + ++ D
Sbjct: 4 HHHMQHLVLIGFMGSGKSSLAQELGLALKLEVLDTD 39
>2qgz_A Helicase loader, putative primosome component; structural genomics,
PSI-2, protein structure initiative; 2.40A
{Streptococcus pyogenes serotype M3}
Length = 308
Score = 31.0 bits (70), Expect = 0.29
Identities = 13/68 (19%), Positives = 22/68 (32%), Gaps = 8/68 (11%)
Query: 39 EKSNILLVGPTGCGKT----LMVKTLAKIINVPIIVVDATSFTE---AGYVGDDVESIIQ 91
E+ + L G G GK+ M L++ V ++ SF V+ I
Sbjct: 151 EQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHFPSFAIDVKNAISNGSVKEEID 210
Query: 92 KLLHECDY 99
+
Sbjct: 211 AVK-NVPV 217
>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A
{Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*
Length = 287
Score = 30.7 bits (68), Expect = 0.29
Identities = 11/36 (30%), Positives = 18/36 (50%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTE 78
LL G G GKT + + + +IV+D +F +
Sbjct: 36 FLLGGQPGSGKTSLRSAIFEETQGNVIVIDNDTFKQ 71
>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 = 30.4 bits (68), Expect = 0.32
Identities = 7/31 (22%), Positives = 16/31 (51%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDA 73
+L+G +G GK+ + +A ++ + D
Sbjct: 11 YVLMGVSGSGKSAVASEVAHQLHAAFLDGDF 41
>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 = 31.0 bits (71), Expect = 0.32
Identities = 20/73 (27%), Positives = 28/73 (38%), Gaps = 29/73 (39%)
Query: 2 ELDRHIIGQHETKKIVS-------VGVYNHYKR-----LFLLKSKNIYLEKSNILLVGPT 49
L +IGQ E V+ G+ + KR +FL GPT
Sbjct: 488 ILHSRVIGQDEAVVAVAKAVRRARAGLKDP-KRPIGSFIFL----------------GPT 530
Query: 50 GCGKTLMVKTLAK 62
G GKT + + LA+
Sbjct: 531 GVGKTELARALAE 543
>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative
iron chelatin ABC transporter, nucleotide binding
domain; 2.40A {Haemophilus influenzae}
Length = 253
Score = 30.6 bits (70), Expect = 0.34
Identities = 13/36 (36%), Positives = 20/36 (55%), Gaps = 1/36 (2%)
Query: 30 LLKSKNIYLEKSNIL-LVGPTGCGKTLMVKTLAKII 64
L + N L K +IL ++G GCGK+ ++ L I
Sbjct: 20 LFQQLNFDLNKGDILAVLGQNGCGKSTLLDLLLGIH 55
>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC,
mitosis, GDP, C cycle, cell division, GTP-binding,
nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB:
2qa5_A* 3ftq_A*
Length = 301
Score = 30.5 bits (68), Expect = 0.34
Identities = 6/19 (31%), Positives = 14/19 (73%)
Query: 42 NILLVGPTGCGKTLMVKTL 60
+++VG +G GK+ ++ +L
Sbjct: 20 TLMVVGESGLGKSTLINSL 38
>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function;
HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*
Length = 359
Score = 30.8 bits (69), Expect = 0.35
Identities = 11/60 (18%), Positives = 23/60 (38%), Gaps = 2/60 (3%)
Query: 32 KSKNIYLEKSNILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQ 91
+ ++ Y + ++LVG G GK+ + + L +IIN + +
Sbjct: 18 RIEDNY--RVCVILVGSPGSGKSTIAEELCQIINEKYHTFLSEHPNVIEVNDRLKPMVNL 75
>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family;
helicase, MCM homolog, DNA replication, ATP-binding,
DNA-binding; 1.90A {Methanopyrus kandleri AV19}
Length = 506
Score = 30.6 bits (69), Expect = 0.38
Identities = 10/88 (11%), Positives = 28/88 (31%), Gaps = 14/88 (15%)
Query: 42 NILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAG---YVGDDVESIIQK--LLHE 96
++LL G ++ L + + V + + +D ++ +
Sbjct: 241 HVLLAGYPVVCSEILHHVLDHLAPRGVYVDLRRT-ELTDLTAVLKEDRGWALRAGAAV-- 297
Query: 97 CDYDVELAEQSIIYIDEIDKISKKTDVV 124
LA+ I+ +D ++ +
Sbjct: 298 ------LADGGILAVDHLEGAPEPHRWA 319
>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics,
structural genomics consortium, SGC, unknown function;
1.70A {Plasmodium falciparum}
Length = 187
Score = 30.0 bits (68), Expect = 0.40
Identities = 38/113 (33%), Positives = 58/113 (51%), Gaps = 22/113 (19%)
Query: 40 KSNILLVGPTGCGKTLMVKTLA-KIIN--VP-------IIVVDATSFTE-AGYVGDDVES 88
K+N +L+G G GKT +V+ LA KI+ VP ++ +D +S A Y G D E
Sbjct: 43 KNNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVSLDLSSLIAGAKYRG-DFEE 101
Query: 89 IIQKLLHECDYDVELAE-QSIIYIDEIDKISKKTDVVSGKDVSGEGVQQSLLK 140
++ +L E V+ AE Q +++IDEI T V +G G ++LK
Sbjct: 102 RLKSILKE----VQDAEGQVVMFIDEI-----HTVVGAGAVAEGALDAGNILK 145
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 30.9 bits (70), Expect = 0.41
Identities = 14/34 (41%), Positives = 18/34 (52%), Gaps = 5/34 (14%)
Query: 34 KNIYLEKSNILLVGPTGCGKTL-----MVKTLAK 62
K LE + +LL PTG GKTL ++ L K
Sbjct: 40 KKGLLEGNRLLLTSPTGSGKTLIAEMGIISFLLK 73
>2jlq_A Serine protease subunit NS3; ribonucleoprotein, nucleotide-binding,
viral nucleoprotein, endoplasmic reticulum, helicase,
hydrolase; 1.67A {Dengue virus 4} PDB: 2jly_A* 2jls_A*
2jlu_A 2jlv_A* 2jlw_A 2jlx_A* 2jlz_A* 2jlr_A* 2bmf_A
2bhr_A
Length = 451
Score = 30.6 bits (69), Expect = 0.42
Identities = 18/105 (17%), Positives = 34/105 (32%), Gaps = 26/105 (24%)
Query: 35 NIYLEKSNILLVGPTGCGKT------LMVKTLAKIINVPII---VVDATSFTEA------ 79
+I+ +K ++ G GKT ++ + L + + I+ V A EA
Sbjct: 14 DIFRKKRLTIMDLHPGAGKTKRILPSIVREALLRRLRTLILAPTRVVAAEMEEALRGLPI 73
Query: 80 GYVGDDVESIIQK-----------LLHECDYDVELAEQSIIYIDE 113
Y V+S + ++I +DE
Sbjct: 74 RYQTPAVKSDHTGREIVDLMCHATFTTRLLSSTRVPNYNLIVMDE 118
>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288;
multidrug transporter, transport protein; HET: ANP;
2.90A {Thermotoga maritima}
Length = 598
Score = 30.6 bits (70), Expect = 0.44
Identities = 11/16 (68%), Positives = 12/16 (75%)
Query: 45 LVGPTGCGKTLMVKTL 60
LVGPTG GKT +V L
Sbjct: 386 LVGPTGSGKTTIVNLL 401
>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 = 30.6 bits (69), Expect = 0.45
Identities = 18/104 (17%), Positives = 29/104 (27%), Gaps = 27/104 (25%)
Query: 38 LEKSNIL-LVGPTGCGKT------LMVKTLAKIINV----PIIVVDATSFTE-AGY-VGD 84
L K + L G GKT ++ + + + P VV A G V
Sbjct: 18 LRKRQMTVLDLHPGSGKTRKILPQIIKDAIQQRLRTAVLAPTRVVAAEMAEALRGLPVRY 77
Query: 85 DV---------ESIIQ-----KLLHECDYDVELAEQSIIYIDEI 114
I+ L H + ++ +DE
Sbjct: 78 QTSAVQREHQGNEIVDVMCHATLTHRLMSPNRVPNYNLFVMDEA 121
>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 = 30.0 bits (67), Expect = 0.46
Identities = 14/31 (45%), Positives = 16/31 (51%)
Query: 42 NILLVGPTGCGKTLMVKTLAKIINVPIIVVD 72
NILL G G GKT + K LA + I V
Sbjct: 13 NILLTGTPGVGKTTLGKELASKSGLKYINVG 43
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 30.4 bits (69), Expect = 0.47
Identities = 11/63 (17%), Positives = 27/63 (42%), Gaps = 16/63 (25%)
Query: 7 IIGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLAKIINV 66
+IGQ +++ K ++LL+G G GK+++ + +A+++
Sbjct: 43 VIGQEHAVEVIKTAANQ----------------KRHVLLIGEPGTGKSMLGQAMAELLPT 86
Query: 67 PII 69
+
Sbjct: 87 ETL 89
>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase,
HEL helix motif, transcription regulator; 3.20A
{Streptococcus pneumoniae}
Length = 253
Score = 29.9 bits (66), Expect = 0.56
Identities = 13/34 (38%), Positives = 19/34 (55%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSF 76
ILL G +G GKT + + K I+++D SF
Sbjct: 35 ILLGGQSGAGKTTIHRIKQKEFQGNIVIIDGDSF 68
>4a2p_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily
2 RNA helicase, ATP and dsRNA binding antiviral
signalling pathway; 3.00A {Anas platyrhynchos} PDB:
4a36_A*
Length = 556
Score = 30.3 bits (67), Expect = 0.56
Identities = 8/25 (32%), Positives = 13/25 (52%)
Query: 38 LEKSNILLVGPTGCGKTLMVKTLAK 62
+ N L+ PTG GKT + + +
Sbjct: 20 INGKNALICAPTGSGKTFVSILICE 44
>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 = 29.9 bits (67), Expect = 0.57
Identities = 9/36 (25%), Positives = 15/36 (41%)
Query: 40 KSNILLVGPTGCGKTLMVKTLAKIINVPIIVVDATS 75
++ I L GP GKT + + +A + V
Sbjct: 104 RNTIWLFGPATTGKTNIAEAIAHTVPFYGCVNWTNE 139
>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 = 0.59
Identities = 4/23 (17%), Positives = 11/23 (47%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIIN 65
+L+ G G ++ L++ +
Sbjct: 27 LLIQALPGMGDDALIYALSRYLL 49
>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding
domain, ABC motor domain, ferric iron transport, cell
inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}
Length = 359
Score = 29.8 bits (68), Expect = 0.61
Identities = 8/20 (40%), Positives = 13/20 (65%), Gaps = 4/20 (20%)
Query: 45 LVGPTGCGKTLMVKTLAKII 64
++G +GCGKT TL + +
Sbjct: 35 IIGASGCGKT----TLLRCL 50
>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop,
transferase; HET: ADP; 2.33A {Enterobacteria phage T4}
SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A*
2ia5_A
Length = 301
Score = 29.7 bits (66), Expect = 0.67
Identities = 8/22 (36%), Positives = 11/22 (50%), Gaps = 4/22 (18%)
Query: 43 ILLVGPTGCGKTLMVKTLAKII 64
IL +G G GK+ T A+
Sbjct: 5 ILTIGCPGSGKS----TWAREF 22
>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding,
nucleoside kinase, nucleotide-binding; 2.50A {Homo
sapiens} PDB: 2uvq_A*
Length = 245
Score = 29.7 bits (67), Expect = 0.68
Identities = 7/38 (18%), Positives = 19/38 (50%), Gaps = 3/38 (7%)
Query: 33 SKNIYLEKSN---ILLVGPTGCGKTLMVKTLAKIINVP 67
++N+Y + I + G T GK+ + + + +++
Sbjct: 15 TENLYFQSMRPFLIGVSGGTASGKSTVCEKIMELLGQN 52
>2w58_A DNAI, primosome component (helicase loader); ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.50A
{Geobacillus kaustophilus HTA426}
Length = 202
Score = 29.3 bits (66), Expect = 0.69
Identities = 10/66 (15%), Positives = 22/66 (33%), Gaps = 7/66 (10%)
Query: 39 EKSNILLVGPTGCGKTLMVKTLAKII---NVPIIVVDATSFTE---AGYVGDDVESIIQK 92
+ + L G G GKT ++ +A + NV ++V + +
Sbjct: 53 KMKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVYVPELFRELKHSLQDQTMNEKLDY 112
Query: 93 LLHECD 98
+ +
Sbjct: 113 IK-KVP 117
>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A
{Enterobacteria phage T4} SCOP: c.37.1.1
Length = 181
Score = 29.4 bits (66), Expect = 0.70
Identities = 8/20 (40%), Positives = 11/20 (55%), Gaps = 4/20 (20%)
Query: 43 ILLVGPTGCGKTLMVKTLAK 62
IL +G G GK+ T A+
Sbjct: 5 ILTIGCPGSGKS----TWAR 20
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 29.9 bits (66), Expect = 0.71
Identities = 8/25 (32%), Positives = 15/25 (60%)
Query: 38 LEKSNILLVGPTGCGKTLMVKTLAK 62
++ N ++ PTGCGKT + + +
Sbjct: 26 MKGKNTIICAPTGCGKTFVSLLICE 50
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase;
HET: ANP; 2.14A {Mus musculus}
Length = 555
Score = 29.9 bits (66), Expect = 0.71
Identities = 8/25 (32%), Positives = 14/25 (56%)
Query: 38 LEKSNILLVGPTGCGKTLMVKTLAK 62
+ N ++ PTGCGKT + + +
Sbjct: 17 KKGKNTIICAPTGCGKTFVSLLICE 41
>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase,
winged-helix domain, ATP hydrolysis, walker A, walker
B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga
maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A*
1in8_A* 1in7_A* 1j7k_A*
Length = 334
Score = 29.5 bits (67), Expect = 0.77
Identities = 13/22 (59%), Positives = 14/22 (63%), Gaps = 4/22 (18%)
Query: 43 ILLVGPTGCGKTLMVKTLAKII 64
+LL GP G GKT TLA II
Sbjct: 54 VLLAGPPGLGKT----TLAHII 71
>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET:
GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*
Length = 270
Score = 29.5 bits (66), Expect = 0.81
Identities = 19/94 (20%), Positives = 32/94 (34%), Gaps = 22/94 (23%)
Query: 32 KSKNIYLEKSNILLVGPTGCGK-----TLM-----------------VKTLAKIINVPII 69
K + IL++G G GK +++ V +
Sbjct: 31 NLKQEDVNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAGFTLN 90
Query: 70 VVDATSFTEAGYVGDDVESIIQKLLHECDYDVEL 103
++D E GY+ D +II+ L + DV L
Sbjct: 91 IIDTPGLIEGGYINDMALNIIKSFLLDKTIDVLL 124
>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable
holliday junction DNA helicase; HET: ADP; 2.69A
{Campylobacter jejuni subsp}
Length = 338
Score = 29.5 bits (67), Expect = 0.81
Identities = 13/22 (59%), Positives = 13/22 (59%), Gaps = 4/22 (18%)
Query: 43 ILLVGPTGCGKTLMVKTLAKII 64
IL GP G GKT TLA II
Sbjct: 58 ILFSGPAGLGKT----TLANII 75
>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 340
Score = 29.3 bits (66), Expect = 0.83
Identities = 14/61 (22%), Positives = 22/61 (36%), Gaps = 14/61 (22%)
Query: 7 IIGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLAKIINV 66
+ GQ+E V + + ++L GP G GKT + LA+ I
Sbjct: 27 VYGQNEVITTVRK----------FVDEGKL----PHLLFYGPPGTGKTSTIVALAREIYG 72
Query: 67 P 67
Sbjct: 73 K 73
>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 = 29.1 bits (65), Expect = 0.89
Identities = 8/28 (28%), Positives = 14/28 (50%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIV 70
++ GP G GK+ K LA ++ +
Sbjct: 5 YIITGPAGVGKSTTCKRLAAQLDNSAYI 32
>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase,
ATP-binding cassette, ATPase, transport protein; 1.45A
{Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB:
1oxs_C 1oxt_A 1oxu_A* 1oxv_A*
Length = 353
Score = 29.5 bits (67), Expect = 0.90
Identities = 7/19 (36%), Positives = 13/19 (68%)
Query: 43 ILLVGPTGCGKTLMVKTLA 61
++GP+G GKT ++ +A
Sbjct: 34 FGILGPSGAGKTTFMRIIA 52
>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport,
maltose uptake and regulation, sugar binding protein;
1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3
c.37.1.12 PDB: 2d62_A
Length = 372
Score = 29.5 bits (67), Expect = 0.95
Identities = 8/12 (66%), Positives = 12/12 (100%)
Query: 43 ILLVGPTGCGKT 54
++L+GP+GCGKT
Sbjct: 32 MILLGPSGCGKT 43
>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active
transport, sugar uptake and regulation, transport
protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3
b.40.6.3 c.37.1.12 PDB: 1vci_A*
Length = 372
Score = 29.1 bits (66), Expect = 0.98
Identities = 8/12 (66%), Positives = 12/12 (100%)
Query: 43 ILLVGPTGCGKT 54
++L+GP+GCGKT
Sbjct: 40 LVLLGPSGCGKT 51
>2it1_A 362AA long hypothetical maltose/maltodextrin transport
ATP-binding protein; structural genomics, NPPSFA; 1.94A
{Pyrococcus horikoshii}
Length = 362
Score = 29.1 bits (66), Expect = 1.00
Identities = 6/12 (50%), Positives = 10/12 (83%)
Query: 43 ILLVGPTGCGKT 54
+ L+GP+G GK+
Sbjct: 32 MALLGPSGSGKS 43
>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli}
SCOP: c.37.1.20
Length = 195
Score = 28.8 bits (65), Expect = 1.00
Identities = 27/87 (31%), Positives = 47/87 (54%), Gaps = 17/87 (19%)
Query: 40 KSNILLVGPTGCGKTLMVKTLA-KIIN--VP-------IIVVDATSFTE-AGYVGDDVES 88
K+N +L+G G GKT +V+ LA +IIN VP ++ +D + A Y G + E
Sbjct: 43 KNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRG-EFEE 101
Query: 89 IIQKLLHECDYDVELAE-QSIIYIDEI 114
++ +L++ + E I++IDE+
Sbjct: 102 RLKGVLND----LAKQEGNVILFIDEL 124
>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 = 1.0
Identities = 12/18 (66%), Positives = 14/18 (77%)
Query: 44 LLVGPTGCGKTLMVKTLA 61
L +GPTG GKT + KTLA
Sbjct: 51 LFLGPTGVGKTELAKTLA 68
>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 = 29.1 bits (65), Expect = 1.1
Identities = 11/65 (16%), Positives = 31/65 (47%), Gaps = 4/65 (6%)
Query: 5 RHIIGQHETKKIVSVGVYNHYKRLFLLKSKNIYLE----KSNILLVGPTGCGKTLMVKTL 60
+ G+ K I++ Y + + + + + ++L+ K+ + +GP GK+++ +L
Sbjct: 87 KLATGEGSWKSILTFFNYQNIELITFINALKLWLKGIPKKNCLAFIGPPNTGKSMLCNSL 146
Query: 61 AKIIN 65
+
Sbjct: 147 IHFLG 151
>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication,
DNA repair, DNA recombina hydrolase; 2.90A {Pyrococcus
furiosus} SCOP: c.37.1.19 c.37.1.19
Length = 494
Score = 29.4 bits (65), Expect = 1.2
Identities = 11/23 (47%), Positives = 17/23 (73%)
Query: 40 KSNILLVGPTGCGKTLMVKTLAK 62
++N L+V PTG GKTL+ +A+
Sbjct: 23 ETNCLIVLPTGLGKTLIAMMIAE 45
>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport,
alpha and beta proteins (A/B) TM0421, structural
genomics, NPPSFA; 2.11A {Thermotoga maritima}
Length = 359
Score = 29.1 bits (66), Expect = 1.2
Identities = 8/12 (66%), Positives = 11/12 (91%)
Query: 43 ILLVGPTGCGKT 54
+ L+GP+GCGKT
Sbjct: 32 VALLGPSGCGKT 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 = 29.2 bits (65), Expect = 1.3
Identities = 9/35 (25%), Positives = 16/35 (45%), Gaps = 3/35 (8%)
Query: 41 SNILLVGPTGCGKTLMVKTLAK---IINVPIIVVD 72
SN ++ G GK+ K L + +I++D
Sbjct: 36 SNWTILAKPGAGKSFTAKMLLLREYMQGSRVIIID 70
>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane,
membrane, transmembrane, transport, ATP- binding,
hydrolase, nucleotide-binding, periplasm; HET: 1PE;
2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C
Length = 249
Score = 28.7 bits (65), Expect = 1.3
Identities = 8/17 (47%), Positives = 12/17 (70%)
Query: 45 LVGPTGCGKTLMVKTLA 61
LVGP G GK+ ++ +A
Sbjct: 31 LVGPNGAGKSTLLARMA 47
>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 353
Score = 29.0 bits (65), Expect = 1.3
Identities = 14/56 (25%), Positives = 21/56 (37%), Gaps = 14/56 (25%)
Query: 7 IIGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLAK 62
+ Q ++ LKS N+ ++L GP G GKT + L K
Sbjct: 39 VTAQDHAVTVLKK----------TLKSANL----PHMLFYGPPGTGKTSTILALTK 80
>2v1u_A Cell division control protein 6 homolog; DNA replication,
nucleotide-binding, replication, archaea; HET: ADP;
3.10A {Aeropyrum pernix}
Length = 387
Score = 29.0 bits (64), Expect = 1.4
Identities = 24/103 (23%), Positives = 35/103 (33%), Gaps = 21/103 (20%)
Query: 41 SNILLVGPTGCGKTLMVKTL---------AKIINVPIIVVDATSFTEA------------ 79
SN LL G TG GKT + + + + + V I V+A
Sbjct: 45 SNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVASAIAEAVG 104
Query: 80 GYVGDDVESIIQKLLHECDYDVELAEQSIIYIDEIDKISKKTD 122
V S+ + L II +DEID + K+
Sbjct: 105 VRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPG 147
>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein;
ATP-binding, nucleotide-binding, membrane,
transmembrane, transport protein; 3.00A {Methanosarcina
acetivorans} SCOP: b.40.6.3 c.37.1.12
Length = 348
Score = 28.7 bits (65), Expect = 1.5
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 45 LVGPTGCGKTLMVKTLA 61
++GPTG GKTL ++ +A
Sbjct: 31 ILGPTGAGKTLFLELIA 47
>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral
membrane protein, ATPase, ABC transporter, membrane
transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia
coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A*
3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A*
1q1b_A
Length = 381
Score = 28.7 bits (65), Expect = 1.5
Identities = 9/15 (60%), Positives = 13/15 (86%), Gaps = 1/15 (6%)
Query: 43 ILLVGPTGCGK-TLM 56
++ VGP+GCGK TL+
Sbjct: 32 VVFVGPSGCGKSTLL 46
>2qag_C Septin-7; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 418
Score = 28.6 bits (63), Expect = 1.6
Identities = 6/19 (31%), Positives = 14/19 (73%)
Query: 42 NILLVGPTGCGKTLMVKTL 60
+++VG +G GK+ ++ +L
Sbjct: 33 TLMVVGESGLGKSTLINSL 51
>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding
HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens}
SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A*
1xrj_A*
Length = 252
Score = 28.7 bits (64), Expect = 1.6
Identities = 5/24 (20%), Positives = 12/24 (50%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINV 66
I + G T GK+ + + +++
Sbjct: 25 IGVSGGTASGKSSVCAKIVQLLGQ 48
>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 = 28.1 bits (63), Expect = 1.6
Identities = 7/16 (43%), Positives = 8/16 (50%)
Query: 39 EKSNILLVGPTGCGKT 54
E + VG G GKT
Sbjct: 37 EGKGLTFVGSPGVGKT 52
>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex,
transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}
Length = 460
Score = 28.6 bits (63), Expect = 1.7
Identities = 8/35 (22%), Positives = 17/35 (48%), Gaps = 4/35 (11%)
Query: 43 ILLVGPTGCGKTLMVKTLA----KIINVPIIVVDA 73
+++VG + GKT + +TL K + ++
Sbjct: 141 VVIVGGSQTGKTSLSRTLCSYALKFNAYQPLYINL 175
>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 427
Score = 28.6 bits (63), Expect = 1.7
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 42 NILLVGPTGCGKTLMVKTL 60
NIL VG TG GK+ ++ TL
Sbjct: 44 NILCVGETGLGKSTLMDTL 62
>3lu0_C DNA-directed RNA polymerase subunit beta; E. coli RNA polymerase,
nucleotidyltransferase, transcription, transferase;
11.20A {Escherichia coli} PDB: 3iyd_C*
Length = 1342
Score = 28.9 bits (65), Expect = 1.7
Identities = 13/88 (14%), Positives = 28/88 (31%), Gaps = 8/88 (9%)
Query: 69 IVVDATSFTEAGYVGDDVESIIQKLLHECDYDVELAEQSIIYIDEIDKISKKTDVVSGKD 128
V+D FT G D I++ ++L + +E+ +
Sbjct: 927 TVIDVQVFTRDGVEKDKRALEIEE--------MQLKQAKKDLSEELQILEAGLFSRIRAV 978
Query: 129 VSGEGVQQSLLKLIEGVNLSITSLAEKK 156
+ GV+ L + L +++
Sbjct: 979 LVAGGVEAEKLDKLPRDRWLELGLTDEE 1006
>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 = 28.7 bits (64), Expect = 1.7
Identities = 11/17 (64%), Positives = 12/17 (70%)
Query: 41 SNILLVGPTGCGKTLMV 57
S IL G TG GKTL+V
Sbjct: 282 SIILATGATGTGKTLLV 298
>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI,
protein structure initiative; 1.90A {Geobacillus
stearothermophilus} SCOP: c.37.1.6
Length = 201
Score = 28.1 bits (63), Expect = 1.7
Identities = 7/29 (24%), Positives = 14/29 (48%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVV 71
+ + G + GKT + L++ + I V
Sbjct: 25 LGIDGLSRSGKTTLANQLSQTLREQGISV 53
>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein;
membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP:
c.37.1.12
Length = 240
Score = 28.3 bits (64), Expect = 1.8
Identities = 8/20 (40%), Positives = 12/20 (60%), Gaps = 4/20 (20%)
Query: 45 LVGPTGCGKTLMVKTLAKII 64
L+GPTG GK+ ++I
Sbjct: 29 LLGPTGAGKS----VFLELI 44
>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 = 1.8
Identities = 12/18 (66%), Positives = 14/18 (77%)
Query: 44 LLVGPTGCGKTLMVKTLA 61
L +GPTG GKT + KTLA
Sbjct: 592 LFLGPTGVGKTELAKTLA 609
>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta
motif, beta sandwich, ligand binding protein; 1.90A
{Alicyclobacillus acidocaldarius}
Length = 355
Score = 28.4 bits (64), Expect = 1.8
Identities = 9/20 (45%), Positives = 14/20 (70%), Gaps = 4/20 (20%)
Query: 45 LVGPTGCGKTLMVKTLAKII 64
L+GP+G GKT T+ ++I
Sbjct: 46 LLGPSGSGKT----TILRLI 61
>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A
{Rhodobacter sphaeroides} SCOP: c.37.1.6
Length = 290
Score = 28.5 bits (63), Expect = 1.8
Identities = 8/37 (21%), Positives = 17/37 (45%), Gaps = 3/37 (8%)
Query: 43 ILLVGPTGCGKTLMVKTLAKII---NVPIIVVDATSF 76
I + G +G G + + T +I V + ++ +F
Sbjct: 8 ISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAF 44
>1nlf_A Regulatory protein REPA; replicative DNA helicase structural
changes, replication; 1.95A {Escherichia coli} SCOP:
c.37.1.11 PDB: 1g8y_A 1olo_A
Length = 279
Score = 28.1 bits (62), Expect = 1.9
Identities = 9/28 (32%), Positives = 14/28 (50%)
Query: 37 YLEKSNILLVGPTGCGKTLMVKTLAKII 64
+ + LV P G GK+++ LA I
Sbjct: 27 MVAGTVGALVSPGGAGKSMLALQLAAQI 54
>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 = 28.1 bits (63), Expect = 2.1
Identities = 14/61 (22%), Positives = 23/61 (37%), Gaps = 14/61 (22%)
Query: 7 IIGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLAKIINV 66
I+G ET + + K N+ ++++ G G GKT V LA +
Sbjct: 23 IVGNKETIDRLQQ----------IAKDGNM----PHMIISGMPGIGKTTSVHCLAHELLG 68
Query: 67 P 67
Sbjct: 69 R 69
>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 = 27.8 bits (62), Expect = 2.1
Identities = 8/34 (23%), Positives = 14/34 (41%)
Query: 27 RLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTL 60
S + +I++ GP GKT ++ L
Sbjct: 35 EKLGGGSGGGGSYQPSIIIAGPQNSGKTSLLTLL 68
>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 = 27.8 bits (62), Expect = 2.1
Identities = 9/30 (30%), Positives = 17/30 (56%), Gaps = 3/30 (10%)
Query: 31 LKSKNIYLEKSNILLVGPTGCGKTLMVKTL 60
+K K+ + +I++ GP GKT ++ L
Sbjct: 6 IKQKS---YQPSIIIAGPQNSGKTSLLTLL 32
>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION
channel, transport protein, casse protein; 2.00A {Homo
sapiens} PDB: 2onj_A* 2hyd_A
Length = 578
Score = 28.3 bits (64), Expect = 2.2
Identities = 8/21 (38%), Positives = 11/21 (52%), Gaps = 4/21 (19%)
Query: 45 LVGPTGCGKTLMVKTLAKIIN 65
VG +G GK+ TL +I
Sbjct: 372 FVGMSGGGKS----TLINLIP 388
>1e2k_A Thymidine kinase; transferase, antiviral drug, enzyme-prodrug
gene therapy, sugar ring pucker; HET: TMC; 1.7A {Herpes
simplex virus} SCOP: c.37.1.1 PDB: 1e2i_A* 1e2h_A*
1e2m_A* 1e2n_A* 1e2p_A* 1ki2_A* 1ki3_A* 1ki4_A* 1ki6_B*
1ki7_A* 1ki8_A* 3rdp_A* 2ki5_A* 1kim_A* 1qhi_A* 1p7c_A*
1vtk_A* 2vtk_A* 3vtk_A* 3f0t_A* ...
Length = 331
Score = 28.2 bits (62), Expect = 2.2
Identities = 10/36 (27%), Positives = 16/36 (44%), Gaps = 7/36 (19%)
Query: 36 IYLEKSNILLVGPTGCGKTLMVKTLAKIINVPIIVV 71
+Y++ GP G GKT + L + + IV
Sbjct: 7 VYID-------GPHGMGKTTTTQLLVALGSRDDIVY 35
>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 = 27.7 bits (61), Expect = 2.4
Identities = 14/82 (17%), Positives = 30/82 (36%), Gaps = 6/82 (7%)
Query: 42 NILLVGPTGCGKTLMVKTLAKIINVPII------VVDATSFTEAGYVGDDVESIIQKLLH 95
I++ G G GKT +VK + + + I V D + G+ E +
Sbjct: 2 KIIITGEPGVGKTTLVKKIVERLGKRAIGFWTEEVRDPETKKRTGFRIITTEGKKKIFSS 61
Query: 96 ECDYDVELAEQSIIYIDEIDKI 117
+ +L + + +++
Sbjct: 62 KFFTSKKLVGSYGVNVQYFEEL 83
>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P;
2.25A {Thermus thermophilus} PDB: 3asy_A*
Length = 211
Score = 28.0 bits (63), Expect = 2.4
Identities = 10/32 (31%), Positives = 18/32 (56%), Gaps = 2/32 (6%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIIN--VPIIVVD 72
I + G T GKT + + LA+ + V ++ +D
Sbjct: 9 IGIAGGTASGKTTLAQALARTLGERVALLPMD 40
>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt
transport, TM02 hydrolase, inner membrane, membrane,
nucleotide-binding; 2.30A {Thermotoga maritima}
Length = 266
Score = 27.9 bits (63), Expect = 2.6
Identities = 9/23 (39%), Positives = 14/23 (60%), Gaps = 4/23 (17%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIIN 65
+L+ G TG GK+ TL +I+
Sbjct: 36 LLVAGNTGSGKS----TLLQIVA 54
>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus
abyssi}
Length = 350
Score = 28.1 bits (62), Expect = 2.6
Identities = 7/64 (10%), Positives = 19/64 (29%)
Query: 34 KNIYLEKSNILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKL 93
+ LL+G GK+ +++ +I +++ +Q
Sbjct: 25 EESLENYPLTLLLGIRRVGKSSLLRAFLNERPGILIDCRELYAERGHITREELIKELQST 84
Query: 94 LHEC 97
+
Sbjct: 85 ISPF 88
>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics,
cell membrane, cobalt transport, hydrolase, ION
transport; 2.30A {Clostridium perfringens atcc 13124}
Length = 275
Score = 27.9 bits (63), Expect = 2.6
Identities = 7/21 (33%), Positives = 11/21 (52%), Gaps = 4/21 (19%)
Query: 45 LVGPTGCGKTLMVKTLAKIIN 65
++G G GK+ TL + N
Sbjct: 39 ILGGNGVGKS----TLFQNFN 55
>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 = 27.7 bits (61), Expect = 2.8
Identities = 16/92 (17%), Positives = 26/92 (28%), Gaps = 17/92 (18%)
Query: 43 ILLVGPTGCGKTL-MVKTLAK---------------IINVPIIVVDATSFTEAGYVGDDV 86
L+ G G GKTL MV +A N+ + + T
Sbjct: 8 CLITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIKGLKIPHTYIETDAKKLPKS 67
Query: 87 ESIIQKLLHECDY-DVELAEQSIIYIDEIDKI 117
++ SI+ +DE +
Sbjct: 68 TDEQLSAHDMYEWIKKPENIGSIVIVDEAQDV 99
>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop,
phenylalanine mutant, hydrolase; 2.35A {Pyrococcus
horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A
3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A
3sdz_A
Length = 588
Score = 28.2 bits (63), Expect = 2.9
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 42 NILLVGPTGCGKTLMVKTLAKIINVPIIVV 71
+ GP G GKT+ LAK + +++
Sbjct: 229 TAAIPGPAGSGKTVTQHQLAKWSDAQVVIY 258
>2vl7_A XPD; helicase, unknown function; 2.25A {Sulfolobus tokodaii}
Length = 540
Score = 28.0 bits (62), Expect = 3.0
Identities = 11/49 (22%), Positives = 21/49 (42%)
Query: 26 KRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLAKIINVPIIVVDAT 74
+ L ++ N +LL G GKT+ V+ L + +++ T
Sbjct: 12 QAEKLGEAINALKHGKTLLLNAKPGLGKTVFVEVLGMQLKKKVLIFTRT 60
>3pdi_B Nitrogenase MOFE cofactor biosynthesis protein NI; nitrogenase
cofactor maturation, NIFB, nifdk, NIFH; HET: CZL; 2.40A
{Azotobacter vinelandii}
Length = 458
Score = 27.8 bits (62), Expect = 3.0
Identities = 8/37 (21%), Positives = 18/37 (48%), Gaps = 2/37 (5%)
Query: 57 VKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKL 93
+KT+ + N +I + T +E G D+ + + +
Sbjct: 84 LKTICERQNPSVIGLLTTGLSET--QGCDLHTALHEF 118
>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase,
transferase; NMR {Streptococcus pneumoniae} SCOP:
c.37.1.1
Length = 236
Score = 27.4 bits (62), Expect = 3.0
Identities = 14/96 (14%), Positives = 31/96 (32%), Gaps = 26/96 (27%)
Query: 47 GPTGCGKTLMVKTLAKIINVPIIVVD--------ATSFTEAGYVGDDVESIIQKLLHECD 98
GP GK+ + K +AK +D + ++VE+++ LL +
Sbjct: 23 GPASSGKSTVAKIIAKDFG--FTYLDTGAMYRAATYMALKNQLGVEEVEALL-ALLDQHP 79
Query: 99 YDVELAEQSI--IYIDEIDKISKKTDVVSGKDVSGE 132
+E +++ D++
Sbjct: 80 ISFGRSETGDQLVFVG-------------DVDITHP 102
>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial
GTPase, bacterial POL motility, POLE localisation,
alpha/beta protein; HET: GDP; 1.90A {Thermus
thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*
Length = 198
Score = 27.4 bits (61), Expect = 3.3
Identities = 10/48 (20%), Positives = 17/48 (35%), Gaps = 1/48 (2%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAG-YVGDDVESI 89
I+ GP GKT +K + + + TE + D +
Sbjct: 17 IVYYGPGLSGKTTNLKWIYSKVPEGRKGEMVSLATEDERTLFFDFLPL 64
>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic
peptide, membrane protein; 3.80A {Mus musculus} PDB:
3g61_A* 3g60_A*
Length = 1284
Score = 28.1 bits (63), Expect = 3.4
Identities = 8/14 (57%), Positives = 12/14 (85%)
Query: 45 LVGPTGCGKTLMVK 58
LVG +GCGK+ +V+
Sbjct: 1064 LVGSSGCGKSTVVQ 1077
>2fh5_B SR-beta, signal recognition particle receptor beta subunit;
endomembrane targeting, GTPase, GAP, longin domain,
SEDL, transport protein; HET: GTP; 2.45A {Mus musculus}
SCOP: c.37.1.8 PDB: 2go5_2
Length = 214
Score = 27.4 bits (61), Expect = 3.5
Identities = 9/30 (30%), Positives = 14/30 (46%), Gaps = 3/30 (10%)
Query: 31 LKSKNIYLEKSNILLVGPTGCGKTLMVKTL 60
+ K+ + +L VG GKTL+ L
Sbjct: 1 MARKS---SQRAVLFVGLCDSGKTLLFVRL 27
>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P,
MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces
cerevisiae}
Length = 307
Score = 27.7 bits (61), Expect = 3.5
Identities = 8/21 (38%), Positives = 13/21 (61%)
Query: 40 KSNILLVGPTGCGKTLMVKTL 60
S +LL+G +G GK+ M +
Sbjct: 3 GSKLLLMGRSGSGKSSMRSII 23
>1yks_A Genome polyprotein [contains: flavivirin protease NS3 catalytic
subunit]; helicase, flavivirus, DEAD-BOX, ATPase,
rtpase, hydrolase; 1.80A {Yellow fever virus} SCOP:
c.37.1.14 c.37.1.14 PDB: 1ymf_A*
Length = 440
Score = 27.5 bits (61), Expect = 3.6
Identities = 5/23 (21%), Positives = 9/23 (39%)
Query: 35 NIYLEKSNILLVGPTGCGKTLMV 57
++ + +L G GKT
Sbjct: 3 HMLKKGMTTVLDFHPGAGKTRRF 25
>1p9r_A General secretion pathway protein E; bacterial type II secretion
system cytoplasmic protein - GSPE, putative ATPase/ ATP
binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11
PDB: 1p9w_A*
Length = 418
Score = 27.5 bits (62), Expect = 3.8
Identities = 8/12 (66%), Positives = 10/12 (83%)
Query: 43 ILLVGPTGCGKT 54
IL+ GPTG GK+
Sbjct: 170 ILVTGPTGSGKS 181
>2xdq_A Light-independent protochlorophyllide reductase S; oxidoreductase,
DPOR, (bacterio)chlorophyll biosynthesis,
photosynthesis; 2.40A {Thermosynechococcus elongatus}
Length = 460
Score = 27.4 bits (60), Expect = 3.9
Identities = 11/45 (24%), Positives = 18/45 (40%), Gaps = 2/45 (4%)
Query: 57 VKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDV 101
+ + N +IV T TE + D+E + KL E +
Sbjct: 89 CLEIKRDRNPSVIVWIGTCTTEI--IKMDLEGLAPKLEAEIGIPI 131
>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1,
nicotinic acid riboside kinase activity, NAD
biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB:
2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*
Length = 207
Score = 27.1 bits (60), Expect = 3.9
Identities = 12/31 (38%), Positives = 16/31 (51%), Gaps = 1/31 (3%)
Query: 43 ILLVGPTGCGKTLMVKTLAKII-NVPIIVVD 72
I + G T GKT + K L K + N +I D
Sbjct: 24 IGISGVTNSGKTTLAKNLQKHLPNCSVISQD 54
>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette,
hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}
Length = 279
Score = 27.2 bits (61), Expect = 4.0
Identities = 10/21 (47%), Positives = 11/21 (52%), Gaps = 4/21 (19%)
Query: 45 LVGPTGCGKTLMVKTLAKIIN 65
L G G GKT TL I+N
Sbjct: 52 LYGLNGAGKT----TLLNILN 68
>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase
domains, sensor 1, sensor 2, transferase; HET: DNA;
2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*
Length = 250
Score = 27.2 bits (61), Expect = 4.2
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 44 LLVGPTGCGKTLMVKTLAKIIN 65
L G G GKT + + LAK +N
Sbjct: 49 LFSGTRGVGKTSIARLLAKGLN 70
>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold,
ATP-binding, hydrolase, nucleotide- binding; 2.00A
{Pyrococcus furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*
Length = 720
Score = 27.5 bits (61), Expect = 4.5
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 34 KNIYLEKSNILLVGPTGCGKTLM 56
K+ LE N L+ PT GKTL+
Sbjct: 33 KSGILEGKNALISIPTASGKTLI 55
>3bij_A Uncharacterized protein GSU0716; alpha-beta protein, structural
genomics, PSI-2, protein structure initiative; 2.50A
{Geobacter sulfurreducens pca}
Length = 285
Score = 27.1 bits (59), Expect = 4.7
Identities = 12/55 (21%), Positives = 19/55 (34%), Gaps = 10/55 (18%)
Query: 127 KDVSGEGVQQSLLKLIEGVNLSITSLAEKKNPSQNPQVFNIDTTNILFIAGGAFS 181
K+ +G +S K I + P Q P F T + F+ F+
Sbjct: 232 KNGLYKGSYRSFHKAI----------VRRMPPDQTPNFFTAGTPDPAFLKQRPFT 276
>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 = 27.2 bits (59), Expect = 4.7
Identities = 8/103 (7%), Positives = 22/103 (21%), Gaps = 22/103 (21%)
Query: 41 SNILLVGPTGCGKTLMVKTLAK----------IINVPIIVVDATSFTEA----------- 79
+ K +V + + I +DA
Sbjct: 46 KLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKIWFAI 105
Query: 80 -GYVGDDVESIIQKLLHECDYDVELAEQSIIYIDEIDKISKKT 121
S+ + + +++I I + + +
Sbjct: 106 SKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLLSEK 148
>2eby_A Putative HTH-type transcriptional regulator YBAQ; hypothetical
protein, JW0472, structural genomics, NPPSFA; 2.25A
{Escherichia coli}
Length = 113
Score = 26.3 bits (58), Expect = 4.7
Identities = 4/31 (12%), Positives = 15/31 (48%)
Query: 98 DYDVELAEQSIIYIDEIDKISKKTDVVSGKD 128
D+ E ++ +E+ +I + ++ ++
Sbjct: 76 AVDLWEVENNMRTQEELGRIETVAEYLARRE 106
>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein
biosynthesis, nucleotide-binding, phosphorylation, RNA-
binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces
cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A
Length = 986
Score = 27.3 bits (60), Expect = 4.9
Identities = 16/86 (18%), Positives = 36/86 (41%), Gaps = 4/86 (4%)
Query: 45 LVGPTGCGKTLMVKTLA--KIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVE 102
+ GP GCGK+ +++ +A ++ P T + E G ++ + + E +
Sbjct: 466 ICGPNGCGKSTLMRAIANGQVDGFPTQEECRTVYVEHDIDGTHSDTSVLDFVFESGVGTK 525
Query: 103 LAEQSII--YIDEIDKISKKTDVVSG 126
A + + + + I+ +SG
Sbjct: 526 EAIKDKLIEFGFTDEMIAMPISALSG 551
Score = 27.3 bits (60), Expect = 5.1
Identities = 9/33 (27%), Positives = 15/33 (45%), Gaps = 1/33 (3%)
Query: 30 LLKSKNIYLEK-SNILLVGPTGCGKTLMVKTLA 61
+ N S I ++GP G GK+ ++ L
Sbjct: 688 QITDINFQCSLSSRIAVIGPNGAGKSTLINVLT 720
>2ehv_A Hypothetical protein PH0186; KAIC, RECA ATPase, unknown function;
HET: ADP; 2.07A {Pyrococcus horikoshii} PDB: 2zts_A*
Length = 251
Score = 26.8 bits (59), Expect = 5.0
Identities = 8/16 (50%), Positives = 10/16 (62%)
Query: 41 SNILLVGPTGCGKTLM 56
+ +LL G TG GKT
Sbjct: 31 TTVLLTGGTGTGKTTF 46
>3gqb_A V-type ATP synthase alpha chain; A3B3, V-ATPase, ATP synthesis,
ATP-binding, hydrogen ION TRA hydrolase, ION transport;
2.80A {Thermus thermophilus HB8} PDB: 3a5c_A* 3a5d_A
3j0j_A* 1um2_C
Length = 578
Score = 27.4 bits (61), Expect = 5.0
Identities = 10/25 (40%), Positives = 16/25 (64%)
Query: 47 GPTGCGKTLMVKTLAKIINVPIIVV 71
GP G GK++ ++LAK N ++V
Sbjct: 228 GPFGSGKSVTQQSLAKWSNADVVVY 252
>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance
regulator, residues 1193-1427...; CFTR, ABC
transporter, nucleotide binding domain, NBD; HET: B44;
2.70A {Homo sapiens}
Length = 390
Score = 27.0 bits (60), Expect = 5.1
Identities = 5/19 (26%), Positives = 12/19 (63%)
Query: 46 VGPTGCGKTLMVKTLAKII 64
+G TG GK+ ++ +++
Sbjct: 53 LGRTGSGKSTLLSAFLRLL 71
>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 = 26.9 bits (59), Expect = 5.4
Identities = 9/36 (25%), Positives = 14/36 (38%)
Query: 40 KSNILLVGPTGCGKTLMVKTLAKIINVPIIVVDATS 75
K L GP GKT + L ++ + V+
Sbjct: 169 KRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPL 204
>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 = 27.1 bits (61), Expect = 5.6
Identities = 13/24 (54%), Positives = 16/24 (66%), Gaps = 1/24 (4%)
Query: 40 KSNIL-LVGPTGCGKTLMVKTLAK 62
K IL L GP G GKT + K++AK
Sbjct: 107 KGPILCLAGPPGVGKTSLAKSIAK 130
>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle,
G-protein, prokaryote, GTP-BIND nucleotide-binding,
metal transport; 2.70A {Pyrococcus furiosus}
Length = 271
Score = 26.9 bits (60), Expect = 5.7
Identities = 20/118 (16%), Positives = 50/118 (42%), Gaps = 9/118 (7%)
Query: 52 GKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVELAEQSIIYI 111
G + +K + K + VP+I +A G+ VE + + + + V Y
Sbjct: 126 GAKIDIKKMRKELGVPVIPTNAKK-------GEGVEELKRMIALMAEGKVTTNPIIPRYD 178
Query: 112 DEIDK-ISKKTDVVSGKDVSGEGVQQSL-LKLIEGVNLSITSLAEKKNPSQNPQVFNI 167
++I++ I ++++ G ++ + + L LKL++ I + + + ++
Sbjct: 179 EDIEREIKHISELLRGTPLAEKYPIRWLALKLLQRDEEVIKLVLKYLGQEKMDEILKH 236
>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB;
ABC-transporter, transport protein; HET: ADP; 1.60A
{Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A*
2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*
Length = 247
Score = 26.7 bits (60), Expect = 5.8
Identities = 9/20 (45%), Positives = 13/20 (65%), Gaps = 4/20 (20%)
Query: 45 LVGPTGCGKTLMVKTLAKII 64
+VG +G GK+ TL K+I
Sbjct: 40 IVGRSGSGKS----TLTKLI 55
>1qgu_B Protein (nitrogenase molybdenum iron protein); biological nitrogen
fixation, nitrogen metabolism, molybdoenzymes, electron
transfer; HET: HCA CFM CLF; 1.60A {Klebsiella
pneumoniae} SCOP: c.92.2.3 PDB: 1h1l_B* 1qh1_B* 1qh8_B*
Length = 519
Score = 27.0 bits (60), Expect = 6.2
Identities = 11/56 (19%), Positives = 23/56 (41%), Gaps = 5/56 (8%)
Query: 57 VKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVELAEQSIIYID 112
++ + + II V T E +GDD+++ I + D +A + +
Sbjct: 133 LQNASALYKPEIIAVSTTCMAEV--IGDDLQAFIANAKKDGFVDSSIA---VPHAH 183
>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter,
ABCB6, nucleotide binding domain, heme BIOS transport
protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A*
3nhb_A*
Length = 306
Score = 26.8 bits (60), Expect = 6.2
Identities = 8/20 (40%), Positives = 14/20 (70%), Gaps = 4/20 (20%)
Query: 45 LVGPTGCGKTLMVKTLAKII 64
LVGP+G GK+ T+ +++
Sbjct: 85 LVGPSGAGKS----TILRLL 100
>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 361
Score = 26.7 bits (58), Expect = 6.7
Identities = 6/19 (31%), Positives = 14/19 (73%)
Query: 42 NILLVGPTGCGKTLMVKTL 60
+++VG +G GK+ ++ +L
Sbjct: 39 TLMVVGESGLGKSTLINSL 57
>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 = 26.3 bits (58), Expect = 6.9
Identities = 6/26 (23%), Positives = 11/26 (42%)
Query: 40 KSNILLVGPTGCGKTLMVKTLAKIIN 65
K+ ++ GP GK+ + I
Sbjct: 58 KNCLVFCGPANTGKSYFGMSFIHFIQ 83
>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus
P2}
Length = 235
Score = 26.5 bits (59), Expect = 6.9
Identities = 7/16 (43%), Positives = 8/16 (50%)
Query: 41 SNILLVGPTGCGKTLM 56
I L G G GKT+
Sbjct: 24 FFIALTGEPGTGKTIF 39
>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 = 26.1 bits (58), Expect = 6.9
Identities = 6/20 (30%), Positives = 11/20 (55%)
Query: 43 ILLVGPTGCGKTLMVKTLAK 62
+ L G G GKT + + + +
Sbjct: 36 VYLNGDLGAGKTTLTRGMLQ 55
>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural
genomics, structural genomics consortium, SGC,
activator, ATP-binding, DNA-binding; HET: ADP; 2.80A
{Homo sapiens}
Length = 235
Score = 26.5 bits (59), Expect = 7.6
Identities = 7/12 (58%), Positives = 10/12 (83%)
Query: 43 ILLVGPTGCGKT 54
+++ G TGCGKT
Sbjct: 79 VIIRGATGCGKT 90
>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 = 26.4 bits (58), Expect = 7.8
Identities = 14/33 (42%), Positives = 20/33 (60%), Gaps = 3/33 (9%)
Query: 43 ILLVGPTGCGKTLMVKTLAKII---NVPIIVVD 72
I+L G G GK+ K LAKI+ N+ +IV+
Sbjct: 7 IILTGLPGVGKSTFSKNLAKILSKNNIDVIVLG 39
>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer,
structural genomics; HET: ADP; 2.00A {Pyrococcus
horikoshii}
Length = 247
Score = 26.2 bits (58), Expect = 7.9
Identities = 7/16 (43%), Positives = 10/16 (62%)
Query: 41 SNILLVGPTGCGKTLM 56
+ +LL G G GKT+
Sbjct: 24 NVVLLSGGPGTGKTIF 39
>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG,
structural genomics, midwest center for structural
genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB:
3h0k_A
Length = 179
Score = 26.0 bits (57), Expect = 8.2
Identities = 16/76 (21%), Positives = 27/76 (35%), Gaps = 3/76 (3%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQ--KLLHECDYD 100
IL+ G G GK+ K L + +IV+ E ++ K L E D
Sbjct: 4 ILITGMPGSGKSEFAKLLKE-RGAKVIVMSDVVRKRYSIEAKPGERLMDFAKRLREIYGD 62
Query: 101 VELAEQSIIYIDEIDK 116
+A + + +
Sbjct: 63 GVVARLCVEELGTSNH 78
>1jr3_A DNA polymerase III subunit gamma; processivity, processivity
clamp, clamp loader, AAA+ ATPase, transferase; HET:
DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20
PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*
Length = 373
Score = 26.4 bits (59), Expect = 8.3
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 44 LLVGPTGCGKTLMVKTLAKIIN 65
L G G GKT + + LAK +N
Sbjct: 42 LFSGTRGVGKTSIARLLAKGLN 63
>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P,
MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces
cerevisiae}
Length = 331
Score = 26.6 bits (58), Expect = 8.5
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 43 ILLVGPTGCGKTLMVKTL 60
+LL+G CGK+ + K +
Sbjct: 2 VLLMGVRRCGKSSICKVV 19
>2l2q_A PTS system, cellobiose-specific IIB component (CE;
cellobiose-specific phosphotransferase IIB component,
struct genomics; NMR {Borrelia burgdorferi}
Length = 109
Score = 25.5 bits (56), Expect = 8.6
Identities = 5/36 (13%), Positives = 19/36 (52%)
Query: 37 YLEKSNILLVGPTGCGKTLMVKTLAKIINVPIIVVD 72
+++ +++L+ P ++ + K +PI +++
Sbjct: 48 VVDRFDVVLLAPQSRFNKKRLEEITKPKGIPIEIIN 83
>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter,
lipid flippase, hydrolase, inner membrane, lipid
transport, membrane; 5.50A {Vibrio cholerae}
Length = 582
Score = 26.4 bits (59), Expect = 8.8
Identities = 8/20 (40%), Positives = 12/20 (60%), Gaps = 4/20 (20%)
Query: 45 LVGPTGCGKTLMVKTLAKII 64
LVG +G GK+ T+A +
Sbjct: 374 LVGRSGSGKS----TIANLF 389
>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane,
prenylation, hydrolase, nucleotide-binding,
methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A
{Homo sapiens}
Length = 214
Score = 26.3 bits (58), Expect = 9.0
Identities = 14/53 (26%), Positives = 22/53 (41%)
Query: 10 QHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPTGCGKTLMVKTLAK 62
H V +G N Y + + + ++LVG GCGKT ++ A
Sbjct: 4 HHHHSSGVDLGTENLYFQSMAGEEAPPGVRSVKVVLVGDGGCGKTSLLMVFAD 56
>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and
permease protein; asymmetric dimer, tetramer,
P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus
lactis} SCOP: c.37.1.12
Length = 243
Score = 26.3 bits (59), Expect = 9.2
Identities = 6/20 (30%), Positives = 11/20 (55%), Gaps = 4/20 (20%)
Query: 45 LVGPTGCGKTLMVKTLAKII 64
GP+G GK+ T+ ++
Sbjct: 33 FAGPSGGGKS----TIFSLL 48
>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter,
lipid flippase, hydrolase, inner membrane, lipid
transport, membrane; HET: ANP; 3.70A {Salmonella
typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A*
3b5z_A* 3b5w_A
Length = 582
Score = 26.4 bits (59), Expect = 9.5
Identities = 9/20 (45%), Positives = 13/20 (65%), Gaps = 4/20 (20%)
Query: 45 LVGPTGCGKTLMVKTLAKII 64
LVG +G GK+ T+A +I
Sbjct: 374 LVGRSGSGKS----TIASLI 389
>3ch4_B Pmkase, phosphomevalonate kinase; parallel beta-sheet with the
strand order 23145, walker A motif, cholesterol
biosynthesis, lipid synthesis; 1.76A {Homo sapiens}
Length = 202
Score = 26.1 bits (57), Expect = 9.7
Identities = 13/72 (18%), Positives = 23/72 (31%)
Query: 43 ILLVGPTGCGKTLMVKTLAKIINVPIIVVDATSFTEAGYVGDDVESIIQKLLHECDYDVE 102
+L G GK + + L + + V S + Q+LL Y
Sbjct: 14 LLFSGKRKSGKDFVTEALQSRLGADVCAVLRLSGPLKEQYAQEHGLNFQRLLDTSTYKEA 73
Query: 103 LAEQSIIYIDEI 114
+ I + +E
Sbjct: 74 FRKDMIRWGEEK 85
>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 = 25.9 bits (58), Expect = 9.8
Identities = 19/95 (20%), Positives = 32/95 (33%), Gaps = 25/95 (26%)
Query: 47 GPTGCGKTLMVKTLAKIINVPIIVVD--------ATSFTEAGYVGDDVESIIQKLLHECD 98
GP G GK+ + + LA+ + +D + AG D +I K + +
Sbjct: 16 GPAGTGKSSVSRGLARALG--ARYLDTGAMYRIATLAVLRAGADLTDPAAIE-KAAADAE 72
Query: 99 YDVELAEQSI-IYIDEIDKISKKTDVVSGKDVSGE 132
V ++ G+DVS E
Sbjct: 73 IGVGSDPDVDAAFLA-------------GEDVSSE 94
>2w00_A HSDR, R.ECOR124I; ATP-binding, DNA-binding, restriction system,
helicase, HYDR R.ECOR124I, nucleotide-binding; HET: ATP;
2.6A {Escherichia coli} PDB: 2y3t_A* 2w74_B*
Length = 1038
Score = 26.4 bits (58), Expect = 9.9
Identities = 10/30 (33%), Positives = 13/30 (43%), Gaps = 6/30 (20%)
Query: 49 TGCGKTL-MVKT---LAKIINVP--IIVVD 72
TG GKTL K ++ + VVD
Sbjct: 309 TGSGKTLTSFKAARLATELDFIDKVFFVVD 338
>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 = 26.1 bits (58), Expect = 9.9
Identities = 14/68 (20%), Positives = 24/68 (35%), Gaps = 15/68 (22%)
Query: 7 IIGQHETKKIVSVGVYNHYKRLFLLKSKNIYLEKSNILLVGPT-GCGKTLMVKTLAKIIN 65
I K+ + I +I+L P+ G GKT + K L +N
Sbjct: 28 CILPAFDKETFKS----------ITSKGKI----PHIILHSPSPGTGKTTVAKALCHDVN 73
Query: 66 VPIIVVDA 73
++ V+
Sbjct: 74 ADMMFVNG 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
0.317 0.138 0.380
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: 3,339,708
Number of extensions: 195943
Number of successful extensions: 1018
Number of sequences better than 10.0: 1
Number of HSP's gapped: 983
Number of HSP's successfully gapped: 260
Length of query: 225
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 135
Effective length of database: 4,188,903
Effective search space: 565501905
Effective search space used: 565501905
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (24.8 bits)