RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6098
(378 letters)
>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding,
nucleotide-binding, HY; HET: ADP; 3.11A
{Methanocaldococcus jannaschii}
Length = 285
Score = 293 bits (751), Expect = 2e-98
Identities = 91/182 (50%), Positives = 125/182 (68%), Gaps = 29/182 (15%)
Query: 197 VSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGT 256
M V++ P+ YE +GGL+ Q++EI+EV+ELP+KHPELF+ +GI PKG+LLYGPPGT
Sbjct: 3 AKAMEVDERPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGT 62
Query: 257 GKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMASLKKLAFAHHPLLFWS 316
GKTLLA+AVA T TFIRV GSELV+KFIGEG+ +V+++F +A
Sbjct: 63 GKTLLAKAVATETNATFIRVVGSELVKKFIGEGASLVKDIFKLA---------------- 106
Query: 317 LLTILTNTIVCNFREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEA 376
+E APSIIF+DEID+I + R ++ +GGD EVQRT+++LL ++DGF+A
Sbjct: 107 -------------KEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDA 153
Query: 377 TK 378
Sbjct: 154 RG 155
Score = 96.6 bits (241), Expect = 4e-23
Identities = 29/45 (64%), Positives = 38/45 (84%)
Query: 13 GKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAR 57
GKTLLA+AVA T TFIRV GSELV+KFIGEG+ +V+++F +A+
Sbjct: 63 GKTLLAKAVATETNATFIRVVGSELVKKFIGEGASLVKDIFKLAK 107
>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 = 186 bits (474), Expect = 1e-54
Identities = 71/265 (26%), Positives = 127/265 (47%), Gaps = 41/265 (15%)
Query: 117 KVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVKVHPEGKFVVDIDKN---IDINDVTPN 173
++ +L + + G+ +KP + + F+V + + P+
Sbjct: 113 RIHVLPIDDTVEGITGNLFEVYLKPYFLEAYRP-IRKGDIFLVHGGMRAVEFKVVETDPS 171
Query: 174 CRVALRNESYTLHKILPNKVDPLVSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKH 233
+ ++ ++ + +P+ E + + Y+ +GG Q+ +IKE++ELP++H
Sbjct: 172 PYCIVAPDT-----VIHCEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRH 226
Query: 234 PELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMV 293
P LF A+G+ P+G+LLYGPPGTGKTL+ARAVA+ T F ++G E++ K GE +
Sbjct: 227 PALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNL 286
Query: 294 RELFVMASLKKLAFAHHPLLFWSLLTILTNTIVCNFREHAPSIIFMDEIDSIGSSRIESG 353
R+ F A ++AP+IIF+DE+D+I R
Sbjct: 287 RKAFEEA-----------------------------EKNAPAIIFIDELDAIAPKR--EK 315
Query: 354 SGGDSEVQRTMLELLNQLDGFEATK 378
+ G+ E +R + +LL +DG +
Sbjct: 316 THGEVE-RRIVSQLLTLMDGLKQRA 339
Score = 63.7 bits (155), Expect = 3e-11
Identities = 19/46 (41%), Positives = 28/46 (60%)
Query: 12 SGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAR 57
+GKTL+ARAVA+ T F ++G E++ K GE +R+ F A
Sbjct: 249 TGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAE 294
>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 = 176 bits (449), Expect = 6e-53
Identities = 60/175 (34%), Positives = 93/175 (53%), Gaps = 29/175 (16%)
Query: 204 KVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLAR 263
+VP T+E +GGL++ +E++E+++ PV+HP+ F G+ KGVL YGPPG GKTLLA+
Sbjct: 8 EVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAK 67
Query: 264 AVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMASLKKLAFAHHPLLFWSLLTILTN 323
A+A+ + FI + G EL+ + GE VRE+F A
Sbjct: 68 AIANECQANFISIKGPELLTMWFGESEANVREIFDKA----------------------- 104
Query: 324 TIVCNFREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEATK 378
R+ AP ++F DE+DSI +R + G R + ++L ++DG K
Sbjct: 105 ------RQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKK 153
Score = 62.7 bits (153), Expect = 3e-11
Identities = 21/45 (46%), Positives = 29/45 (64%)
Query: 13 GKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAR 57
GKTLLA+A+A+ + FI + G EL+ + GE VRE+F AR
Sbjct: 61 GKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIFDKAR 105
>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A
{Homo sapiens}
Length = 274
Score = 173 bits (440), Expect = 7e-52
Identities = 61/175 (34%), Positives = 92/175 (52%), Gaps = 34/175 (19%)
Query: 205 VPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARA 264
VP+ T+ +G L++ +E+ I PV++P+ F ALG+ P GVLL GPPG GKTLLA+A
Sbjct: 4 VPNVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKA 63
Query: 265 VAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMASLKKLAFAHHPLLFWSLLTILTNT 324
VA+ + FI V G EL+ ++GE R VR++F A
Sbjct: 64 VANESGLNFISVKGPELLNMYVGESERAVRQVFQRA------------------------ 99
Query: 325 IVCNFREHAPSIIFMDEIDSIGSSRIESGSGGDSEV-QRTMLELLNQLDGFEATK 378
+ AP +IF DE+D++ R S ++ R + +LL ++DG EA +
Sbjct: 100 -----KNSAPCVIFFDEVDALCPRR----SDRETGASVRVVNQLLTEMDGLEARQ 145
Score = 61.4 bits (150), Expect = 7e-11
Identities = 22/45 (48%), Positives = 31/45 (68%)
Query: 13 GKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAR 57
GKTLLA+AVA+ + FI V G EL+ ++GE R VR++F A+
Sbjct: 56 GKTLLAKAVANESGLNFISVKGPELLNMYVGESERAVRQVFQRAK 100
>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 = 172 bits (439), Expect = 3e-51
Identities = 68/182 (37%), Positives = 99/182 (54%), Gaps = 37/182 (20%)
Query: 193 VDPLVSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYG 252
+DP + ++ EK P+ +E V GL+ + +KE + LPVK P LF G+LLYG
Sbjct: 2 IDPF-TAILSEK-PNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYG 58
Query: 253 PPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMASLKKLAFAHHPL 312
PPGTGK+ LA+AVA TF VS S+LV K++GE ++V++LF MA
Sbjct: 59 PPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMA------------ 106
Query: 313 LFWSLLTILTNTIVCNFREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTML-ELLNQL 371
RE+ PSIIF+D++D++ +R G+SE R + ELL Q+
Sbjct: 107 -----------------RENKPSIIFIDQVDALTGTR----GEGESEASRRIKTELLVQM 145
Query: 372 DG 373
+G
Sbjct: 146 NG 147
Score = 72.8 bits (179), Expect = 2e-14
Identities = 23/47 (48%), Positives = 32/47 (68%)
Query: 13 GKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMARCK 59
GK+ LA+AVA TF VS S+LV K++GE ++V++LF MAR
Sbjct: 63 GKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMAREN 109
>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 = 181 bits (460), Expect = 7e-51
Identities = 62/188 (32%), Positives = 98/188 (52%), Gaps = 29/188 (15%)
Query: 191 NKVDPLVSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLL 250
++ +P V +VP T+E +GGL++ +E++E+++ PV+HP+ F G+ KGVL
Sbjct: 457 SQSNPSALRETVVEVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLF 516
Query: 251 YGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMASLKKLAFAHH 310
YGPPG GKTLLA+A+A+ + FI + G EL+ + GE VRE+F A
Sbjct: 517 YGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIFDKA---------- 566
Query: 311 PLLFWSLLTILTNTIVCNFREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQ 370
R+ AP ++F DE+DSI +R + G R + ++L +
Sbjct: 567 -------------------RQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTE 607
Query: 371 LDGFEATK 378
+DG K
Sbjct: 608 MDGMSTKK 615
Score = 154 bits (391), Expect = 2e-41
Identities = 65/187 (34%), Positives = 100/187 (53%), Gaps = 34/187 (18%)
Query: 192 KVDPLVSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLY 251
+ +P+ E + + Y+ VGG Q+ +IKE++ELP++HP LF A+G+ P+G+LLY
Sbjct: 185 EGEPIKREDEEESLNEVGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLY 244
Query: 252 GPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMASLKKLAFAHHP 311
GPPGTGKTL+ARAVA+ T F ++G E++ K GE +R+ F A
Sbjct: 245 GPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA----------- 293
Query: 312 LLFWSLLTILTNTIVCNFREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLE-LLNQ 370
++AP+IIF+DE+D+I R EV+R ++ LL
Sbjct: 294 ------------------EKNAPAIIFIDELDAIAPKR----EKTHGEVERRIVSQLLTL 331
Query: 371 LDGFEAT 377
+DG +
Sbjct: 332 MDGLKQR 338
Score = 65.6 bits (160), Expect = 1e-11
Identities = 21/45 (46%), Positives = 29/45 (64%)
Query: 13 GKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAR 57
GKTLLA+A+A+ + FI + G EL+ + GE VRE+F AR
Sbjct: 523 GKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIFDKAR 567
Score = 53.6 bits (129), Expect = 6e-08
Identities = 19/46 (41%), Positives = 28/46 (60%)
Query: 12 SGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAR 57
+GKTL+ARAVA+ T F ++G E++ K GE +R+ F A
Sbjct: 249 TGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAE 294
Score = 39.0 bits (91), Expect = 0.002
Identities = 2/50 (4%), Positives = 11/50 (22%)
Query: 209 TYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGK 258
+ + + + +++ + G +G
Sbjct: 748 SDNDIRKYEMFAQTLQQSRGFGSFRFPSGNQGGAGPSQGSGGGTGGSVYT 797
>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo
sapiens}
Length = 322
Score = 171 bits (435), Expect = 1e-50
Identities = 67/182 (36%), Positives = 94/182 (51%), Gaps = 42/182 (23%)
Query: 202 VEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQP-KGVLLYGPPGTGKTL 260
V + P+ + V GL+ + +KE + LP+K P LF G P +G+LL+GPPGTGK+
Sbjct: 3 VIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFT--GKRTPWRGILLFGPPGTGKSY 60
Query: 261 LARAVAHHTEC---TFIRVSGSELVQKFIGEGSRMVRELFVMASLKKLAFAHHPLLFWSL 317
LA+AVA TE TF +S S+LV K++GE ++V+ LF +A
Sbjct: 61 LAKAVA--TEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLA----------------- 101
Query: 318 LTILTNTIVCNFREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTML-ELLNQLDGFEA 376
RE+ PSIIF+DEIDS+ SR S +SE R + E L Q+ G
Sbjct: 102 ------------RENKPSIIFIDEIDSLCGSR----SENESEAARRIKTEFLVQMQGVGV 145
Query: 377 TK 378
Sbjct: 146 DN 147
Score = 69.3 bits (170), Expect = 2e-13
Identities = 23/50 (46%), Positives = 33/50 (66%), Gaps = 5/50 (10%)
Query: 13 GKTLLARAVAHHTEC---TFIRVSGSELVQKFIGEGSRMVRELFVMARCK 59
GK+ LA+AVA TE TF +S S+LV K++GE ++V+ LF +AR
Sbjct: 57 GKSYLAKAVA--TEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLAREN 104
>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding,
hydrolase; 2.70A {Drosophila melanogaster}
Length = 297
Score = 170 bits (433), Expect = 1e-50
Identities = 63/188 (33%), Positives = 90/188 (47%), Gaps = 35/188 (18%)
Query: 192 KVDPLVSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLY 251
K+ L+ +VE + + G D + ++E++ LP PELF L KG+LL+
Sbjct: 2 KLVQLILDEIVEGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAP-AKGLLLF 60
Query: 252 GPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMASLKKLAFAHHP 311
GPPG GKTLLARAVA TF+ +S + L K++G+G ++VR LF +A
Sbjct: 61 GPPGNGKTLLARAVATECSATFLNISAASLTSKYVGDGEKLVRALFAVA----------- 109
Query: 312 LLFWSLLTILTNTIVCNFREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTML-ELLNQ 370
R PSIIF+DE+DS+ S R S + E R + E L +
Sbjct: 110 ------------------RHMQPSIIFIDEVDSLLSER----SSSEHEASRRLKTEFLVE 147
Query: 371 LDGFEATK 378
DG
Sbjct: 148 FDGLPGNP 155
Score = 70.8 bits (174), Expect = 5e-14
Identities = 23/46 (50%), Positives = 32/46 (69%)
Query: 13 GKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMARC 58
GKTLLARAVA TF+ +S + L K++G+G ++VR LF +AR
Sbjct: 66 GKTLLARAVATECSATFLNISAASLTSKYVGDGEKLVRALFAVARH 111
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo
sapiens}
Length = 389
Score = 169 bits (430), Expect = 3e-49
Identities = 57/185 (30%), Positives = 91/185 (49%), Gaps = 35/185 (18%)
Query: 191 NKVDPLVSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLL 250
+ + L+ +V+ ++ + G D + ++E++ LP PELF L +G+LL
Sbjct: 95 SNLANLIMNEIVDNGTAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAP-ARGLLL 153
Query: 251 YGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMASLKKLAFAHH 310
+GPPG GKT+LA+AVA + TF +S + L K++GEG ++VR LF +A
Sbjct: 154 FGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKLVRALFAVA---------- 203
Query: 311 PLLFWSLLTILTNTIVCNFREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTML-ELLN 369
RE PSIIF+D++DS+ R G+ + R + E L
Sbjct: 204 -------------------RELQPSIIFIDQVDSLLCER----REGEHDASRRLKTEFLI 240
Query: 370 QLDGF 374
+ DG
Sbjct: 241 EFDGV 245
Score = 71.0 bits (174), Expect = 8e-14
Identities = 22/46 (47%), Positives = 32/46 (69%)
Query: 13 GKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMARC 58
GKT+LA+AVA + TF +S + L K++GEG ++VR LF +AR
Sbjct: 160 GKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKLVRALFAVARE 205
>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 = 168 bits (427), Expect = 4e-49
Identities = 64/190 (33%), Positives = 95/190 (50%), Gaps = 35/190 (18%)
Query: 187 KILPNKVDPLVSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPK 246
K L K+ L+ +++ P +E + G++ IKE++ P+ P++F L PK
Sbjct: 60 KNLEPKMIELIMNEIMDHGPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGP-PK 118
Query: 247 GVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMASLKKLA 306
G+LL+GPPGTGKTL+ + +A + TF +S S L K++GEG +MVR LF +A
Sbjct: 119 GILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSKWVGEGEKMVRALFAVA------ 172
Query: 307 FAHHPLLFWSLLTILTNTIVCNFREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTML- 365
R P++IF+DEIDS+ S R G+ E R +
Sbjct: 173 -----------------------RCQQPAVIFIDEIDSLLSQR----GDGEHESSRRIKT 205
Query: 366 ELLNQLDGFE 375
E L QLDG
Sbjct: 206 EFLVQLDGAT 215
Score = 72.1 bits (177), Expect = 3e-14
Identities = 22/46 (47%), Positives = 31/46 (67%)
Query: 13 GKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMARC 58
GKTL+ + +A + TF +S S L K++GEG +MVR LF +ARC
Sbjct: 129 GKTLIGKCIASQSGATFFSISASSLTSKWVGEGEKMVRALFAVARC 174
>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic;
photosynthesis, rubisco activase, AAA+ protein; 2.95A
{Nicotiana tabacum} PDB: 3zw6_A
Length = 293
Score = 160 bits (407), Expect = 8e-47
Identities = 25/174 (14%), Positives = 56/174 (32%), Gaps = 34/174 (19%)
Query: 212 MVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHHTEC 271
+ G + +++ K I P + ++G G GK+ V
Sbjct: 5 KLDGFYIAPAFMDKLVVHITK--NFLKLPNIKVPLILGIWGGKGQGKSFQCELVFRKMGI 62
Query: 272 TFIRVSGSELVQKFIGEGSRMVRELFVMASLKKLAFAHHPLLFWSLLTILTNTIVCNFRE 331
I +S EL GE ++++R+ + A+ R+
Sbjct: 63 NPIMMSAGELESGNAGEPAKLIRQRYREAAEII-------------------------RK 97
Query: 332 HAPSIIFMDEIDSIGSSRIESGSGG--DSEVQRTMLELLN-----QLDGFEATK 378
+F++++D+ + + V T++ + + QL G +
Sbjct: 98 GNMCCLFINDLDAGAGRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNKQ 151
Score = 74.1 bits (182), Expect = 4e-15
Identities = 11/44 (25%), Positives = 19/44 (43%)
Query: 13 GKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMA 56
GK+ V I +S EL GE ++++R+ + A
Sbjct: 48 GKSFQCELVFRKMGINPIMMSAGELESGNAGEPAKLIRQRYREA 91
>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 = 159 bits (404), Expect = 7e-46
Identities = 66/184 (35%), Positives = 98/184 (53%), Gaps = 35/184 (19%)
Query: 192 KVDPLVSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLY 251
K+ +S ++ + P+ +E V GL+ + +KE + LPVK P LF G+LLY
Sbjct: 32 KLRGALSSAILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLF-KGNRKPTSGILLY 90
Query: 252 GPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMASLKKLAFAHHP 311
GPPGTGK+ LA+AVA TF VS S+LV K++GE ++V++LF MA
Sbjct: 91 GPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMA----------- 139
Query: 312 LLFWSLLTILTNTIVCNFREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTML-ELLNQ 370
RE+ PSIIF+D++D++ +R G+SE R + ELL Q
Sbjct: 140 ------------------RENKPSIIFIDQVDALTGTR----GEGESEASRRIKTELLVQ 177
Query: 371 LDGF 374
++G
Sbjct: 178 MNGV 181
Score = 67.9 bits (166), Expect = 8e-13
Identities = 23/48 (47%), Positives = 33/48 (68%)
Query: 12 SGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMARCK 59
+GK+ LA+AVA TF VS S+LV K++GE ++V++LF MAR
Sbjct: 95 TGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMAREN 142
>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 = 160 bits (405), Expect = 4e-45
Identities = 79/327 (24%), Positives = 130/327 (39%), Gaps = 69/327 (21%)
Query: 62 SRGTEFFTMDVDEAIKSSEGFK--------PYYVTKIEELQLIVAEKEQNLRRLQAQRNE 113
+ +D A K+++ K Y ++ +V + Q +
Sbjct: 2 ASTNTNLQKAIDLASKAAQEDKAGNYEEALQLYQHAVQYFLHVVKYEAQG----DKAKQS 57
Query: 114 LNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVKVHPEGKFVVDIDKNIDINDVTPN 173
+ AK + + L+E + + K++ V +G ++ D
Sbjct: 58 IRAKCTEYLDRAEKLKEYLKKKEKKPQKPVKEEQSGPVDEKGNDSDGEAESDDPEK---- 113
Query: 174 CRVALRNESYTLHKILPNKVDPLVSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKH 233
K+ + +V + P+ + V GL+ + +KE + LP+K
Sbjct: 114 -----------------KKLQNQLQGAIVIERPNVKWSDVAGLEGAKEALKEAVILPIKF 156
Query: 234 PELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHHTE-CTFIRVSGSELVQKFIGEGSRM 292
P LF +G+LL+GPPGTGK+ LA+AVA TF +S S+LV K++GE ++
Sbjct: 157 PHLFTGK-RTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKL 215
Query: 293 VRELFVMASLKKLAFAHHPLLFWSLLTILTNTIVCNFREHAPSIIFMDEIDSIGSSRIES 352
V+ LF +A RE+ PSIIF+DEIDS+ SR
Sbjct: 216 VKNLFQLA-----------------------------RENKPSIIFIDEIDSLCGSR--- 243
Query: 353 GSGGDSEVQRTML-ELLNQLDGFEATK 378
S +SE R + E L Q+ G
Sbjct: 244 -SENESEAARRIKTEFLVQMQGVGVDN 269
Score = 63.8 bits (155), Expect = 2e-11
Identities = 21/48 (43%), Positives = 32/48 (66%), Gaps = 1/48 (2%)
Query: 12 SGKTLLARAVAHHTE-CTFIRVSGSELVQKFIGEGSRMVRELFVMARC 58
+GK+ LA+AVA TF +S S+LV K++GE ++V+ LF +AR
Sbjct: 178 TGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARE 225
>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A
{Escherichia coli} SCOP: c.37.1.20
Length = 257
Score = 135 bits (342), Expect = 1e-37
Identities = 63/178 (35%), Positives = 95/178 (53%), Gaps = 30/178 (16%)
Query: 200 MMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKT 259
M+ E +T+ V G D +E+ E++E ++ P F LG PKGVL+ GPPGTGKT
Sbjct: 1 MLTEDQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKT 59
Query: 260 LLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMASLKKLAFAHHPLLFWSLLT 319
LLA+A+A + F +SGS+ V+ F+G G+ VR++F A
Sbjct: 60 LLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQA------------------- 100
Query: 320 ILTNTIVCNFREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEAT 377
++ AP IIF+DEID++G R GG E ++T+ ++L ++DGFE
Sbjct: 101 ----------KKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGN 148
Score = 51.2 bits (123), Expect = 1e-07
Identities = 20/46 (43%), Positives = 32/46 (69%)
Query: 12 SGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAR 57
+GKTLLA+A+A + F +SGS+ V+ F+G G+ VR++F A+
Sbjct: 56 TGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAK 101
>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 = 134 bits (339), Expect = 2e-37
Identities = 66/177 (37%), Positives = 96/177 (54%), Gaps = 30/177 (16%)
Query: 200 MMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKT 259
++ + P T++ V G + +E+KE++E +K+P F +G PKGVLL GPPG GKT
Sbjct: 5 SVLTEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKT 63
Query: 260 LLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMASLKKLAFAHHPLLFWSLLT 319
LARAVA FI SGS+ V+ F+G G+ VR+LF A
Sbjct: 64 HLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETA------------------- 104
Query: 320 ILTNTIVCNFREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEA 376
+ HAP I+F+DEID++G R GG+ E ++T+ +LL ++DGFE
Sbjct: 105 ----------KRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK 151
Score = 50.8 bits (122), Expect = 2e-07
Identities = 23/46 (50%), Positives = 29/46 (63%)
Query: 12 SGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAR 57
GKT LARAVA FI SGS+ V+ F+G G+ VR+LF A+
Sbjct: 60 VGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAK 105
>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 = 133 bits (338), Expect = 4e-37
Identities = 56/171 (32%), Positives = 87/171 (50%), Gaps = 31/171 (18%)
Query: 209 TYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHH 268
+++ V G+ E++E ++ +K PE F LG PKG LL GPPG GKTLLA+AVA
Sbjct: 4 SFKDVAGMHEAKLEVREFVDY-LKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATE 62
Query: 269 TECTFIRVSGSELVQKFIGEGSRMVRELFVMASLKKLAFAHHPLLFWSLLTILTNTIVCN 328
+ F+ ++G+E V+ G G+ VR LF A
Sbjct: 63 AQVPFLAMAGAEFVEVIGGLGAARVRSLFKEA---------------------------- 94
Query: 329 FREHAPSIIFMDEIDSIGSSRIES-GSGGDSEVQRTMLELLNQLDGFEATK 378
R AP I+++DEID++G R + ++E ++T+ +LL ++DG T
Sbjct: 95 -RARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTD 144
Score = 53.4 bits (129), Expect = 3e-08
Identities = 21/45 (46%), Positives = 29/45 (64%)
Query: 13 GKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAR 57
GKTLLA+AVA + F+ ++G+E V+ G G+ VR LF AR
Sbjct: 51 GKTLLAKAVATEAQVPFLAMAGAEFVEVIGGLGAARVRSLFKEAR 95
>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 = 133 bits (338), Expect = 5e-37
Identities = 63/179 (35%), Positives = 97/179 (54%), Gaps = 31/179 (17%)
Query: 201 MVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTL 260
+ + P+ ++ + G + +E+ E+++ +K+PE + LG PKGVLL GPPGTGKTL
Sbjct: 1 INAEKPNVRFKDMAGNEEAKEEVVEIVDF-LKYPERYANLGAKIPKGVLLVGPPGTGKTL 59
Query: 261 LARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMASLKKLAFAHHPLLFWSLLTI 320
LA+AVA F + GS ++ F+G G+ VR+LF A
Sbjct: 60 LAKAVAGEAHVPFFSMGGSSFIEMFVGLGASRVRDLFETA-------------------- 99
Query: 321 LTNTIVCNFREHAPSIIFMDEIDSIGSSRIESG-SGGDSEVQRTMLELLNQLDGFEATK 378
++ APSIIF+DEID+IG SR G G+ E ++T+ +LL ++DGF +
Sbjct: 100 ---------KKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGSEN 149
Score = 51.1 bits (123), Expect = 2e-07
Identities = 20/45 (44%), Positives = 28/45 (62%)
Query: 13 GKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAR 57
GKTLLA+AVA F + GS ++ F+G G+ VR+LF A+
Sbjct: 56 GKTLLAKAVAGEAHVPFFSMGGSSFIEMFVGLGASRVRDLFETAK 100
>2wg5_A General control protein GCN4, proteasome-activating nucleotidase;
transcription hydrolase complex, nucleotide-binding;
2.10A {Saccharomyces cerevisiae} PDB: 2wg6_A
Length = 109
Score = 127 bits (321), Expect = 2e-36
Identities = 30/106 (28%), Positives = 53/106 (50%)
Query: 99 EKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVKVHPEGKFV 158
+++L+ + EL +K L E+ L+ VG V ++ +V+VK KFV
Sbjct: 4 HHHHRMKQLEDKVEELLSKNYHLENEVARLRSPPLLVGVVSDILEDGRVVVKSSTGPKFV 63
Query: 159 VDIDKNIDINDVTPNCRVALRNESYTLHKILPNKVDPLVSLMMVEK 204
V+ + I+ ++ P RVAL ++ + +LP DP+V VE+
Sbjct: 64 VNTSQYINEEELKPGARVALNQQTLAIVNVLPTSKDPMVYGFEVEE 109
>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
3.20A {Thermus thermophilus} SCOP: c.37.1.20
Length = 278
Score = 132 bits (333), Expect = 4e-36
Identities = 66/177 (37%), Positives = 96/177 (54%), Gaps = 30/177 (16%)
Query: 201 MVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTL 260
++ + P T++ V G + +E+KE++E +K+P F +G PKGVLL GPPG GKT
Sbjct: 30 VLTEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTH 88
Query: 261 LARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMASLKKLAFAHHPLLFWSLLTI 320
LARAVA FI SGS+ V+ F+G G+ VR+LF A
Sbjct: 89 LARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETA-------------------- 128
Query: 321 LTNTIVCNFREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEAT 377
+ HAP I+F+DEID++G R GG+ E ++T+ +LL ++DGFE
Sbjct: 129 ---------KRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKD 176
Score = 50.8 bits (122), Expect = 2e-07
Identities = 23/46 (50%), Positives = 29/46 (63%)
Query: 12 SGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAR 57
GKT LARAVA FI SGS+ V+ F+G G+ VR+LF A+
Sbjct: 84 VGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAK 129
>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 = 129 bits (327), Expect = 2e-35
Identities = 29/175 (16%), Positives = 57/175 (32%), Gaps = 37/175 (21%)
Query: 203 EKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLA 262
E + + + + + EL V+ + D VLL GPP +GKT LA
Sbjct: 25 EDYASYIMNGIIKWGDPVTRVLDDGELLVQQTKNSDRTP---LVSVLLEGPPHSGKTALA 81
Query: 263 RAVAHHTECTFIRVSGSELVQKFIGEG-SRMVRELFVMASLKKLAFAHHPLLFWSLLTIL 321
+A + FI++ + + F + ++++F A
Sbjct: 82 AKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDA--------------------- 120
Query: 322 TNTIVCNFREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEA 376
+ S + +D+I+ + ++ G + LL L
Sbjct: 121 --------YKSQLSCVVVDDIERL----LDYVPIGPRFSNLVLQALLVLLKKAPP 163
Score = 55.5 bits (134), Expect = 6e-09
Identities = 12/47 (25%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 12 SGKTLLARAVAHHTECTFIRVSGSELVQKFIGEG-SRMVRELFVMAR 57
SGKT LA +A + FI++ + + F + ++++F A
Sbjct: 75 SGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAY 121
>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET:
ADP; 3.90A {Thermus thermophilus}
Length = 499
Score = 125 bits (315), Expect = 5e-32
Identities = 69/180 (38%), Positives = 95/180 (52%), Gaps = 38/180 (21%)
Query: 201 MVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTL 260
++ + P T++ V G + +E+KE++E +K+P F +G PKGVLL GPPG GKT
Sbjct: 21 VLTEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTH 79
Query: 261 LARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMASLKKLAFAHHPLLFWSLLTI 320
LARAVA FI SGS+ V+ F+G G+ VR+LF A K+
Sbjct: 80 LARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETA--KR---------------- 121
Query: 321 LTNTIVCNFREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQL----DGFEA 376
HAP I+F+DEID++G R GG+ E ++T LNQL DGFE
Sbjct: 122 -----------HAPCIVFIDEIDAVGRKRGSGVGGGNDEREQT----LNQLLVEMDGFEK 166
Score = 47.6 bits (114), Expect = 4e-06
Identities = 23/45 (51%), Positives = 29/45 (64%)
Query: 13 GKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAR 57
GKT LARAVA FI SGS+ V+ F+G G+ VR+LF A+
Sbjct: 76 GKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAK 120
>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 = 123 bits (311), Expect = 1e-31
Identities = 70/182 (38%), Positives = 95/182 (52%), Gaps = 38/182 (20%)
Query: 199 LMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGK 258
+ T++ VGG + I+E+KEV+E +K P F+ +G PKG+LL GPPGTGK
Sbjct: 4 MYKPSGNKRVTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGK 62
Query: 259 TLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMASLKKLAFAHHPLLFWSLL 318
TLLARAVA F +SGS+ V+ F+G G+ VR+LF A K
Sbjct: 63 TLLARAVAGEANVPFFHISGSDFVELFVGVGAARVRDLFAQA--KA-------------- 106
Query: 319 TILTNTIVCNFREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQL----DGF 374
HAP I+F+DEID++G R GG E ++T LNQL DGF
Sbjct: 107 -------------HAPCIVFIDEIDAVGRHRGAGLGGGHDEREQT----LNQLLVEMDGF 149
Query: 375 EA 376
++
Sbjct: 150 DS 151
Score = 47.2 bits (113), Expect = 6e-06
Identities = 23/45 (51%), Positives = 30/45 (66%)
Query: 13 GKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAR 57
GKTLLARAVA F +SGS+ V+ F+G G+ VR+LF A+
Sbjct: 61 GKTLLARAVAGEANVPFFHISGSDFVELFVGVGAARVRDLFAQAK 105
>3h43_A Proteasome-activating nucleotidase; regulatory particle,
nucleosidase, ATP-binding, cytoplasm,
nucleotide-binding, hydrolase; 2.10A {Methanocaldococcus
jannaschii}
Length = 85
Score = 97.6 bits (243), Expect = 2e-25
Identities = 22/81 (27%), Positives = 41/81 (50%)
Query: 117 KVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVKVHPEGKFVVDIDKNIDINDVTPNCRV 176
+ +LR EL ++ VG VV + ++KV+VK F+V++ ++ +D+ P RV
Sbjct: 3 ENEILRRELDRMRVPPLIVGTVVDKVGERKVVVKSSTGPSFLVNVSHFVNPDDLAPGKRV 62
Query: 177 ALRNESYTLHKILPNKVDPLV 197
L ++ T+ +LP
Sbjct: 63 CLNQQTLTVVDVLPELEHHHH 83
>3m9b_A Proteasome-associated ATPase; coil COIL with 5 beta-strand barrel
inter domain, chaperone; 3.94A {Mycobacterium
tuberculosis} PDB: 3m9d_A
Length = 251
Score = 75.6 bits (185), Expect = 6e-16
Identities = 27/164 (16%), Positives = 51/164 (31%), Gaps = 1/164 (0%)
Query: 89 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVL 148
I +L+ + +L E ++ LREE+ L + S G ++ D V
Sbjct: 55 DIHQLEARIDSLAARNSKLMETLKEARQQLLALREEVDRLGQPPSGYGVLLATHDDDTVD 114
Query: 149 VKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKVDPLVSLMMVEKVPDS 208
V K + NID + V L + V + +L +
Sbjct: 115 VFTS-GRKMRLTCSPNIDAASLKKGQTVRLNEALTVVEAGTFEAVGEISTLREILADGHR 173
Query: 209 TYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYG 252
+ + ++ + + + L +AL L G
Sbjct: 174 ALVVGHADEERVVWLADPLIAEDLPDGLPEALNDDTRPRKLRPG 217
>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 = 63.3 bits (153), Expect = 5e-11
Identities = 62/397 (15%), Positives = 107/397 (26%), Gaps = 145/397 (36%)
Query: 23 HH--TECTFIRVSGSELVQKFIGEGSRMVRELFVMARCKGSSRGTEFFTMDVDEAIKSSE 80
HH E + +++ F V CK DV + KS
Sbjct: 5 HHMDFETGEHQYQYKDILSVFE---DAFVDNF----DCK-----------DVQDMPKS-- 44
Query: 81 GFKPYYVTKIEELQLIVAEK--EQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEV 138
+ EE+ I+ K RL L + E+
Sbjct: 45 ------ILSKEEIDHIIMSKDAVSGTLRL-----------------FWTLLSKQE---EM 78
Query: 139 VKPMDKKKVLVKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKVDPLVS 198
V+ KFV ++ + N + + I + P +
Sbjct: 79 VQ---------------KFVEEVLR---------------INYKFLMSPIKTEQRQPSMM 108
Query: 199 LMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIA----QP-KGVLLYGP 253
M + D Y DNQ+ + V + + L A +P K VL+ G
Sbjct: 109 TRMYIEQRDRLYN-----DNQV-----FAKYNVSRLQPYLKLRQALLELRPAKNVLIDGV 158
Query: 254 PGTGKTLLARAVA--HHTECTF------IRVSGS-------ELVQKFI----------GE 288
G+GKT +A V + +C + + E++QK + +
Sbjct: 159 LGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSD 218
Query: 289 GSRMVRELFVMASLKKLAFAHHPLLFWSLLTILTNTIVCNFREHAPSII--F-------- 338
S ++ + LL +L N V N F
Sbjct: 219 HSSNIKLRIHSIQAELRRLLKSKPYENCLL-VLLN--VQN-----AKAWNAFNLSCKILL 270
Query: 339 -------MDEIDSIGSSRIESGSGGDSEVQRTMLELL 368
D + + ++ I + + LL
Sbjct: 271 TTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL 307
Score = 58.7 bits (141), Expect = 1e-09
Identities = 50/303 (16%), Positives = 89/303 (29%), Gaps = 103/303 (33%)
Query: 2 LKPLHP-TWIV------SGKTLLARAVA--HHTECTF------IRVSGSELVQKFIGEGS 46
L L P ++ SGKT +A V + +C + + + +
Sbjct: 144 LLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVL---- 199
Query: 47 RMVRELFVMARCKGSSRGTEFFTMDVDEAIKSSEGFKPYYVTKIEELQLIVAEKEQNLRR 106
M+++L +SR D IK +I +Q LRR
Sbjct: 200 EMLQKLLYQIDPNWTSRS------DHSSNIKL----------RIHSIQ-------AELRR 236
Query: 107 LQAQRNELNAKVRMLREELQLLQEQGSYV--GEVVKPMDKK-KVLVKVHPEGKFVVDIDK 163
L + N L +L V + + K+L+ K
Sbjct: 237 LLKSKPYENC--------LLVLLN----VQNAKAWNAFNLSCKILLTTR---------FK 275
Query: 164 NI-DINDVTPNCRVALRNESYTLHKI----------------LPN---KVDPLVSLMMVE 203
+ D ++L + S TL LP +P ++ E
Sbjct: 276 QVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAE 335
Query: 204 KVPDSTYEMVGGLDN----QIKEIKEVIEL------PVKHPELFDALGIAQPKGVLLYGP 253
+ D + DN ++ +IE P ++ ++FD L + P + P
Sbjct: 336 SIRD----GLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVF-PPSAHI--P 388
Query: 254 PGT 256
Sbjct: 389 TIL 391
Score = 40.2 bits (93), Expect = 0.001
Identities = 32/232 (13%), Positives = 66/232 (28%), Gaps = 49/232 (21%)
Query: 7 PTWIVSGKTLLARAVAH--HTECTFI--RVSGSELVQKFIGEGSRMV---RELFVMARCK 59
I S + L R + + C + V ++ F +++ R V
Sbjct: 224 KLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAF-NLSCKILLTTRFKQVTDFLS 282
Query: 60 GSSRGTEFFTMDVDEAIKSSEG---FKPYYVTKIEEL------------QLIVAEKEQNL 104
++ T + E Y + ++L +I L
Sbjct: 283 AATT-THISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGL 341
Query: 105 RR----LQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKK---KVLVKVHPEGKF 157
++L + L+ + + + V P +L + +
Sbjct: 342 ATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIK 401
Query: 158 -----VVD-------IDKN-----IDINDVTPNCRVALRNESYTLHKILPNK 192
VV+ ++K I I + +V L NE Y LH+ + +
Sbjct: 402 SDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENE-YALHRSIVDH 452
Score = 28.7 bits (63), Expect = 4.2
Identities = 21/113 (18%), Positives = 36/113 (31%), Gaps = 30/113 (26%)
Query: 85 YYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVR-------MLREELQLLQEQGSYVGE 137
+++ IE E+ R + L K+R L LQ+ Y
Sbjct: 479 HHLKNIEH-----PERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFY--- 530
Query: 138 VVKPMDKKKVLVKVHPE--------GKFVVDIDKNIDINDVTPNCRVALRNES 182
K + P+ F+ I++N+ + T R+AL E
Sbjct: 531 -------KPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAED 576
>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein,
calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides}
PDB: 3syk_A 3zuh_A*
Length = 309
Score = 60.9 bits (147), Expect = 1e-10
Identities = 26/100 (26%), Positives = 42/100 (42%), Gaps = 12/100 (12%)
Query: 211 EMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVL---LYGPPGTGKTLLARAVAH 267
E++G L I+E L + LG+A L G PGTGKT +A +A
Sbjct: 32 ELIG-LKPVKDRIRETAAL-LLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAG 89
Query: 268 HT-------ECTFIRVSGSELVQKFIGEGSRMVRELFVMA 300
+ + V+ +LV ++IG + +E+ A
Sbjct: 90 LLHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRA 129
Score = 37.0 bits (85), Expect = 0.006
Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 7/53 (13%)
Query: 12 SGKTLLARAVAHHT-------ECTFIRVSGSELVQKFIGEGSRMVRELFVMAR 57
+GKT +A +A + + V+ +LV ++IG + +E+ A
Sbjct: 78 TGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRAM 130
>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 = 59.9 bits (145), Expect = 5e-10
Identities = 30/185 (16%), Positives = 53/185 (28%), Gaps = 43/185 (23%)
Query: 198 SLMMVEK-VPDSTYEMVG--GLDNQIKE-IKEVIELPVKHPELFDALGIAQPKGVLLYGP 253
+ K P + ++ G G ++K + + G + +LYGP
Sbjct: 26 DKLWTVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGP 85
Query: 254 PGTGKTLLARAVAHHTECTFI-------RVSGSELVQKFIGEGSRMVRELFVMASLKKLA 306
PG GKT A VA + R L+ + +
Sbjct: 86 PGIGKTTAAHLVAQELGYDILEQNASDVR--SKTLLNAGVKNALDNM------------- 130
Query: 307 FAHHPLLFWSLLTILTNTIVCNFREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLE 366
S++ + +I MDE+D + SGGD + +
Sbjct: 131 ---------SVVGYFKHNEEAQNLNGKHFVIIMDEVDGM--------SGGDRGGVGQLAQ 173
Query: 367 LLNQL 371
+
Sbjct: 174 FCRKT 178
>3pvs_A Replication-associated recombination protein A; maintenance of
genome stability Pro recombination; 2.50A {Escherichia
coli}
Length = 447
Score = 53.7 bits (130), Expect = 4e-08
Identities = 14/30 (46%), Positives = 20/30 (66%)
Query: 248 VLLYGPPGTGKTLLARAVAHHTECTFIRVS 277
++L+GPPGTGKT LA +A + R+S
Sbjct: 53 MILWGPPGTGKTTLAEVIARYANADVERIS 82
Score = 35.6 bits (83), Expect = 0.026
Identities = 19/64 (29%), Positives = 28/64 (43%), Gaps = 11/64 (17%)
Query: 12 SGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAR-CKGSSRGTEFFTM 70
+GKT LA +A + R+S + G + +RE AR + + R T F
Sbjct: 61 TGKTTLAEVIARYANADVERISA-------VTSGVKEIREAIERARQNRNAGRRTILF-- 111
Query: 71 DVDE 74
VDE
Sbjct: 112 -VDE 114
>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 = 49.6 bits (118), Expect = 9e-07
Identities = 33/155 (21%), Positives = 59/155 (38%), Gaps = 38/155 (24%)
Query: 204 KVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLAR 263
+ +VG +N + ++EL +K ++ + VLL GPPGTGKT LA
Sbjct: 31 LAKQAASGLVG-QENAREACGVIVEL-IKSKKM-------AGRAVLLAGPPGTGKTALAL 81
Query: 264 AVAHH--TECTFIRVSGSELVQKFIGEGSRMVRELFVMASLKKLAFAHHPLLFWSLLTIL 321
A+A ++ F + GSE+ I + + ++ E F A ++
Sbjct: 82 AIAQELGSKVPFCPMVGSEVYSTEI-KKTEVLMENFRRAIGLRI---------------- 124
Query: 322 TNTIVCNFREHAPSIIFMDEIDSIGSSRIESGSGG 356
++ E+ + E+ GG
Sbjct: 125 ----------KETKEVYEGEVTELTPCETENPMGG 149
Score = 33.0 bits (75), Expect = 0.17
Identities = 34/187 (18%), Positives = 71/187 (37%), Gaps = 27/187 (14%)
Query: 12 SGKTLLARAVAHH--TECTFIRVSGSELVQKFIGEGSRMVRELFVMARCKGSSRGTEFFT 69
+GKT LA A+A ++ F + GSE+ I + + ++ E F A E +
Sbjct: 74 TGKTALALAIAQELGSKVPFCPMVGSEVYSTEI-KKTEVLMENFRRAIGLRIKETKEVYE 132
Query: 70 MDVDEAIKSSEGFKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQ 129
+V E + E P K + + + + ++++ + LQ
Sbjct: 133 GEVTE-LTPCETENPMGGY----------GKTISHVIIGLKTAKGTKQLKLDPSIFESLQ 181
Query: 130 EQGSYVGEVVKPMDKKKVLVKV-----HPEGKFVVDIDKNIDINDVTPNCRVALRNESY- 183
++ G+V+ ++ VK +F ++ ++ + + P V + E
Sbjct: 182 KERVEAGDVIY-IEANSGAVKRQGRCDTYATEFDLEAEEYVPL----PKGDVHKKKEIIQ 236
Query: 184 --TLHKI 188
TLH +
Sbjct: 237 DVTLHDL 243
>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 = 48.5 bits (115), Expect = 3e-06
Identities = 71/377 (18%), Positives = 112/377 (29%), Gaps = 137/377 (36%)
Query: 33 SGSELVQKFIGEGSRMVRELFVMARCKGSSRGTEFFTMDVDEAIKSSEGFKPYYVTKIEE 92
+ +ELV KF+G +V + + S G V
Sbjct: 56 TPAELVGKFLG---------YVSSLVEPSKVGQ---FDQV-------------------- 83
Query: 93 LQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVKVH 152
L L + E E L+ N+++A +LLQE + K K L+K +
Sbjct: 84 LNLCLTEFENCY--LEG--NDIHALA------AKLLQEND-------TTLVKTKELIKNY 126
Query: 153 PEGKFVVD--IDKNID---INDV-TPNCRVAL------RNESY-----TLHKILPNKVDP 195
+ + DK + V N ++ + Y L++ V
Sbjct: 127 ITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGD 186
Query: 196 LVSLM------MVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVL 249
L+ ++ D+ GL+ I E +E P P K L
Sbjct: 187 LIKFSAETLSELIRTTLDAEKVFTQGLN-----ILEWLENPSNTP----------DKDYL 231
Query: 250 LYGP---PGTGKTLLARAVAHHTECTFIRVSG---SELVQKF---IGEGSRMV------- 293
L P P G L AH+ ++ G EL G +V
Sbjct: 232 LSIPISCPLIGVIQL----AHY--VVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAE 285
Query: 294 ---RELFVMASLKKLAFAHHPLLFWSLLTILTNTIVCNFREHAPSIIFMDEI--DSIGSS 348
E F ++ K + +LF+ I E P+ I DS
Sbjct: 286 TDSWESFFVSVRKAIT-----VLFF---------IGVRCYEAYPNTSLPPSILEDS---- 327
Query: 349 RIESGSGGDSEVQRTML 365
+E+ G S ML
Sbjct: 328 -LENNEGVPS----PML 339
Score = 45.8 bits (108), Expect = 2e-05
Identities = 47/288 (16%), Positives = 83/288 (28%), Gaps = 107/288 (37%)
Query: 14 KTLLARAVAHHTEC------TFIRVSGSELVQKFIGEGSRMVRELFVMARCKGSSRGTEF 67
+ + RA H + + + L F GE + +RE + A
Sbjct: 1643 QDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENY-SAMI--------- 1692
Query: 68 FTMDVDEAIKSSEGFKPYYVTKIEELQLIVAEKEQNLRRL--QAQRNELN---------- 115
F VD +K+ + FK E ++ ++++ L+
Sbjct: 1693 FETIVDGKLKTEKIFK---------------EINEHSTSYTFRSEKGLLSATQFTQPALT 1737
Query: 116 ----AKVRMLREELQLLQEQGSY----VGE---------VVKPMDKKKVLVK-VHPEGKF 157
A L+ + L+ ++ +GE V+ LV+ V G
Sbjct: 1738 LMEKAAFEDLKSK-GLIPADATFAGHSLGEYAALASLADVMSIES----LVEVVFYRGMT 1792
Query: 158 VVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKVDPLVSLMMVEKVPDSTYEMVGGL- 216
+ P R L +Y + I P +V S ++ V + + G L
Sbjct: 1793 ---------MQVAVP--RDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLV 1841
Query: 217 ----DN----QI----------------KEIK----EVIELPVK-HPE 235
N Q IK ++IEL E
Sbjct: 1842 EIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKSLSLE 1889
Score = 35.0 bits (80), Expect = 0.043
Identities = 22/111 (19%), Positives = 40/111 (36%), Gaps = 22/111 (19%)
Query: 243 AQPKG--VLLYGPPGTGKTLLARAVAHHTEC------TFIRVSGSELVQKFIGEGSRMVR 294
+Q +G + LY + + RA H + + + L F GE + +R
Sbjct: 1626 SQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIR 1685
Query: 295 ELFVMASLKKLAFAHHPLLFWSLL--TILTNTIVCNFREHAPSIIFMDEID 343
E + A ++F +++ + T I EH+ S F E
Sbjct: 1686 ENY-SA-----------MIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKG 1724
>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 = 46.5 bits (110), Expect = 9e-06
Identities = 27/176 (15%), Positives = 53/176 (30%), Gaps = 12/176 (6%)
Query: 207 DSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKG--VLLYGPPGTGKTLLARA 264
D + ++ + + + L + G K +L G GTGKTLL
Sbjct: 241 DHGINIFPLGAMRLTQRSSNVRVSSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSR 300
Query: 265 VAHH---TECTFIRVSGSELVQKFIGEGSRMVRELFVMASLKKLAFAHHPLLFWSLLTIL 321
+ + I + E + + + M L L L
Sbjct: 301 FVENACANKERAILFAYEESRAQLLRNAYSWGMDFEEMERQNLLKIVCAYPESAGLEDHL 360
Query: 322 TNTIVCNFREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEAT 377
I + P+ I IDS+ + + ++ ++ ++ + E T
Sbjct: 361 -QIIKSEINDFKPARIA---IDSLSA---LARGVSNNAFRQFVIGVTGYAKQEEIT 409
Score = 46.1 bits (109), Expect = 1e-05
Identities = 33/157 (21%), Positives = 56/157 (35%), Gaps = 23/157 (14%)
Query: 237 FDAL---GIAQPKGVLLYGPPGTGKTLLA------RAVAHHTECTFIRVSGSELVQKFIG 287
FD + G+ + L+ G GTGKTL + + F V+ E Q I
Sbjct: 28 FDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVF--VTFEETPQDIIK 85
Query: 288 EGSRM---VRELFVMASLKKLAFAHHPLLFWSL----LTILTNTIVCNFREHAPSIIFMD 340
+ +L L L + P + L+ L I +++ +
Sbjct: 86 NARSFGWDLAKLVDEGKLFILDASPDPEGQEVVGGFDLSALIERINYAIQKYRARRVS-- 143
Query: 341 EIDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEAT 377
IDS+ + + S V+R + L+ +L AT
Sbjct: 144 -IDSV--TSVFQQYDASSVVRRELFRLVARLKQIGAT 177
>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 = 45.8 bits (108), Expect = 1e-05
Identities = 22/165 (13%), Positives = 58/165 (35%), Gaps = 33/165 (20%)
Query: 215 GLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAV------AHH 268
++QI++I ++ +P + +YG GTGKT + + V
Sbjct: 24 HREDQIRKIASILA---------PLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFL 74
Query: 269 TECTFIRVSGSELVQKFIGEGSRMVRELFVMASLKKLAFAHHPLLFWSLLTILTNTIVCN 328
+ + ++ ++ + V+A L + P S+ + +
Sbjct: 75 GKFKHVYINTRQIDTPYR-----------VLADLLESLDVKVPFTGLSIAELYRRLVKAV 123
Query: 329 FREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQLDG 373
+ +I +DEID+ + ++ + + ++++
Sbjct: 124 RDYGSQVVIVLDEIDAFVKKY-------NDDILYKLSRINSEVNK 161
>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 = 45.5 bits (107), Expect = 2e-05
Identities = 18/133 (13%), Positives = 44/133 (33%), Gaps = 9/133 (6%)
Query: 217 DNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIRV 276
++ +++ I + L G GTGKT +++ + + E
Sbjct: 26 EDILRDAAIAIR---------YFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKED 76
Query: 277 SGSELVQKFIGEGSRMVRELFVMASLKKLAFAHHPLLFWSLLTILTNTIVCNFREHAPSI 336
+ V++ + + S + + + N + +I
Sbjct: 77 EEYKDVKQAYVNCREVGGTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAI 136
Query: 337 IFMDEIDSIGSSR 349
I++DE+D++ R
Sbjct: 137 IYLDEVDTLVKRR 149
>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 = 44.8 bits (105), Expect = 3e-05
Identities = 18/139 (12%), Positives = 44/139 (31%), Gaps = 22/139 (15%)
Query: 217 DNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHH----TECT 272
+ Q++++ ++ +++P L G PGTGKT+ R + T
Sbjct: 23 EQQLQQLDILLGNWLRNPG-------HHYPRATLLGRPGTGKTVTLRKLWELYKDKTTAR 75
Query: 273 FIRVSGSELVQKFIGEGSRMVRELFVMASLKKLAFAHHPLLFWSLLTILTNTIVCNFREH 332
F+ ++G ++ + + P S L +
Sbjct: 76 FVYINGFIYRNFTA-----------IIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERD 124
Query: 333 APSIIFMDEIDSIGSSRIE 351
+ +D+ ++ +
Sbjct: 125 LYMFLVLDDAFNLAPDILS 143
>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 = 43.7 bits (102), Expect = 5e-05
Identities = 20/158 (12%), Positives = 45/158 (28%), Gaps = 12/158 (7%)
Query: 195 PLVSLMMVEKVPDSTY--EMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYG 252
P + + E + +S E++ I I D+L +Q K +
Sbjct: 2 PNADINLEESIRESLQKRELLKSQVEDFTRIFLPIY---------DSLMSSQNKLFYITN 52
Query: 253 PPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMASLKKLAFAHHPL 312
+ K L V + R I + + + + +
Sbjct: 53 ADDSTKFQLVNDVMDELITSSARKELPIFDYIHI-DALELAGMDALYEKIWFAISKENLC 111
Query: 313 LFWSLLTILTNTIVCNFREHAPSIIFMDEIDSIGSSRI 350
SL + + ++I + +++ S +I
Sbjct: 112 GDISLEALNFYITNVPKAKKRKTLILIQNPENLLSEKI 149
>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 = 42.6 bits (100), Expect = 5e-05
Identities = 11/35 (31%), Positives = 19/35 (54%)
Query: 241 GIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIR 275
G+ P +++ G P TGKT L++A+A +
Sbjct: 1 GMQTPALIIVTGHPATGKTTLSQALATGLRLPLLS 35
Score = 27.2 bits (60), Expect = 7.3
Identities = 6/20 (30%), Positives = 11/20 (55%)
Query: 12 SGKTLLARAVAHHTECTFIR 31
+GKT L++A+A +
Sbjct: 16 TGKTTLSQALATGLRLPLLS 35
>2w58_A DNAI, primosome component (helicase loader); ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.50A
{Geobacillus kaustophilus HTA426}
Length = 202
Score = 41.6 bits (98), Expect = 1e-04
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 242 IAQPKGVLLYGPPGTGKTLLARAVAHH 268
+ KG+ L+G G GKT L A+A+
Sbjct: 51 GKKMKGLYLHGSFGVGKTYLLAAIANE 77
>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold,
hydro; HET: ADP; 2.91A {Escherichia coli}
Length = 500
Score = 42.4 bits (100), Expect = 2e-04
Identities = 10/30 (33%), Positives = 13/30 (43%), Gaps = 1/30 (3%)
Query: 248 VLLYGPPGTGKTLLARAVAHH-TECTFIRV 276
V L GPPG K+L+AR +
Sbjct: 44 VFLLGPPGIAKSLIARRLKFAFQNARAFEY 73
>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 = 40.4 bits (95), Expect = 3e-04
Identities = 11/25 (44%), Positives = 13/25 (52%)
Query: 244 QPKGVLLYGPPGTGKTLLARAVAHH 268
+ KG+ G PG GKT LA A
Sbjct: 37 EGKGLTFVGSPGVGKTHLAVATLKA 61
>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 = 41.3 bits (98), Expect = 4e-04
Identities = 14/28 (50%), Positives = 19/28 (67%)
Query: 250 LYGPPGTGKTLLARAVAHHTECTFIRVS 277
L GPPG GKT LA+++A F+R+S
Sbjct: 113 LAGPPGVGKTSLAKSIAKSLGRKFVRIS 140
>2qgz_A Helicase loader, putative primosome component; structural genomics,
PSI-2, protein structure initiative; 2.40A
{Streptococcus pyogenes serotype M3}
Length = 308
Score = 41.0 bits (96), Expect = 4e-04
Identities = 13/34 (38%), Positives = 19/34 (55%)
Query: 235 ELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHH 268
+ + A+ KG+ LYG G GK+ L A+AH
Sbjct: 142 DFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHE 175
>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 = 41.3 bits (97), Expect = 4e-04
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 247 GVLLYGPPGTGKTLLARAVA 266
GVL++G GTGK+ RA+A
Sbjct: 47 GVLVFGDRGTGKSTAVRALA 66
>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer,
structural genomics; HET: ADP; 2.00A {Pyrococcus
horikoshii}
Length = 247
Score = 40.4 bits (95), Expect = 4e-04
Identities = 23/154 (14%), Positives = 45/154 (29%), Gaps = 30/154 (19%)
Query: 245 PKG--VLLYGPPGTGKTLLA-----RAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELF 297
P+ VLL G PGTGKT+ + + + V+ E + ++ ++
Sbjct: 21 PERNVVLLSGGPGTGKTIFSQQFLWNGLKMGEPGIY--VALEEHPVQVRQNMAQFGWDVK 78
Query: 298 VMASLKKLAFAHHPLLFWSL--------------LTILTNTIVCNFREHAPSIIFMDEID 343
A + + R+ + +D
Sbjct: 79 PYEEKGMFAMVDAFTAGIGKSKEYEKYIVHDLTDIREFIEVLRQAIRDINAKRVV---VD 135
Query: 344 SIGSSRIESGSGGDSEVQRTMLELLNQLDGFEAT 377
S+ + I + + +L+L L G T
Sbjct: 136 SVTTLYINK----PAMARSIILQLKRVLAGTGCT 165
>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 = 4e-04
Identities = 19/79 (24%), Positives = 33/79 (41%), Gaps = 5/79 (6%)
Query: 200 MMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKG--VLLYGPPGTG 257
M ++ + + + I E+ +V+ V + + L I G +LL G PG
Sbjct: 2 MELKSAEEKSLYYRNKIKEVIDEVGKVV---VGQKYMINRLLIGICTGGHILLEGVPGLA 58
Query: 258 KTLLARAVAHHTECTFIRV 276
KTL +A + F R+
Sbjct: 59 KTLSVNTLAKTMDLDFHRI 77
>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 = 39.1 bits (92), Expect = 0.001
Identities = 12/19 (63%), Positives = 13/19 (68%)
Query: 249 LLYGPPGTGKTLLARAVAH 267
L GPPGTGKT A A+A
Sbjct: 42 LFSGPPGTGKTATAIALAR 60
>2ehv_A Hypothetical protein PH0186; KAIC, RECA ATPase, unknown function;
HET: ADP; 2.07A {Pyrococcus horikoshii} PDB: 2zts_A*
Length = 251
Score = 38.7 bits (90), Expect = 0.002
Identities = 32/163 (19%), Positives = 48/163 (29%), Gaps = 29/163 (17%)
Query: 237 FDAL---GIAQPKGVLLYGPPGTGKTLLA------RAVAHHTECTFIRVSGSELVQKFIG 287
FD L G + VLL G GTGKT A A + F V+ E +
Sbjct: 19 FDELIEGGFPEGTTVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVF--VTLEERARDLRR 76
Query: 288 EGSRMVRELFVMASLKKLAFAHHP-------------LLFWSLLTILTNTIVCNFREHAP 334
E + + K+A L + I +
Sbjct: 77 EMASFGWDFEKYEKEGKIAIVDGVSSVVGLPSEEKFVLEDRFNVDNFLRYIYRVVKAINA 136
Query: 335 SIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEAT 377
+ IDSI I + +++ +L+L L T
Sbjct: 137 KRLV---IDSI--PSIALRLEEERKIREVLLKLNTILLEMGVT 174
>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}
Length = 235
Score = 38.5 bits (90), Expect = 0.002
Identities = 32/157 (20%), Positives = 57/157 (36%), Gaps = 24/157 (15%)
Query: 237 FDAL---GIAQPKG--VLLYGPPGTGKTLLA-----RAVAHHTECTFIRVSGSELVQKFI 286
FD L GI P+G + L G PGTGKT+ + + + C + V+ E I
Sbjct: 12 FDKLIQGGI--PQGFFIALTGEPGTGKTIFSLHFIAKGLRDGDPCIY--VTTEESRDSII 67
Query: 287 GEGSRM---VRELFVMASLKKLAFAHHPLLFWSLLTILTNTIVCNFREHAPSIIFMDE-- 341
+ + E + A WSL+ + +V E + +
Sbjct: 68 RQAKQFNWDFEEYIEKKLIIIDALMKEKEDQWSLVNLTPEELVNKVIEAKQKLGYGKARL 127
Query: 342 -IDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEAT 377
IDS+ + ++ + ++ L L+ + T
Sbjct: 128 VIDSVSALFLDK----PAMARKISYYLKRVLNKWNFT 160
>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 = 38.9 bits (91), Expect = 0.002
Identities = 12/19 (63%), Positives = 13/19 (68%)
Query: 249 LLYGPPGTGKTLLARAVAH 267
L GPPGTGKT A A+A
Sbjct: 42 LFSGPPGTGKTATAIALAR 60
>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 = 0.002
Identities = 12/47 (25%), Positives = 22/47 (46%), Gaps = 1/47 (2%)
Query: 243 AQPKGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEG 289
+LL G PG+GK+ +A A+A+ + + + +I G
Sbjct: 7 LGGNILLLSGHPGSGKSTIAEALANLPGVPKVHFHS-DDLWGYIKHG 52
Score = 27.7 bits (61), Expect = 5.4
Identities = 19/142 (13%), Positives = 50/142 (35%), Gaps = 20/142 (14%)
Query: 12 SGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGS------------RMVRELFVMARCK 59
SGK+ +A A+A+ + + + +I G RM+ ++ +
Sbjct: 20 SGKSTIAEALANLPGVPKVHFHS-DDLWGYIKHGRIDPWLPQSHQQNRMIMQIAADVAGR 78
Query: 60 GSSRGTEFFTMDVDEAIKSSEGFKPYYVTKIEELQLIV--AEKEQNLRRLQAQRNELNAK 117
+ G + + +D + + P + L IV + + R + + +
Sbjct: 79 YAKEG---YFVILDGVV--RPDWLPAFTALARPLHYIVLRTTAAEAIERCLDRGGDSLSD 133
Query: 118 VRMLREELQLLQEQGSYVGEVV 139
++ + + G++ V+
Sbjct: 134 PLVVADLHSQFADLGAFEHHVL 155
>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 = 38.1 bits (89), Expect = 0.003
Identities = 11/19 (57%), Positives = 12/19 (63%)
Query: 249 LLYGPPGTGKTLLARAVAH 267
L GPPG GKT A A+A
Sbjct: 50 LFAGPPGVGKTTAALALAR 68
>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 = 37.9 bits (89), Expect = 0.003
Identities = 13/20 (65%), Positives = 16/20 (80%)
Query: 248 VLLYGPPGTGKTLLARAVAH 267
+LL+GPPG GKT LA +AH
Sbjct: 41 LLLFGPPGLGKTTLAHVIAH 60
>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function
initiative, EFI, STRU genomics, transferase; 1.60A
{Janibacter SP}
Length = 200
Score = 37.4 bits (86), Expect = 0.004
Identities = 11/33 (33%), Positives = 16/33 (48%)
Query: 244 QPKGVLLYGPPGTGKTLLARAVAHHTECTFIRV 276
+ V++ G G+GKT +A VA T F
Sbjct: 28 PTRHVVVMGVSGSGKTTIAHGVADETGLEFAEA 60
Score = 27.4 bits (60), Expect = 7.0
Identities = 9/21 (42%), Positives = 10/21 (47%)
Query: 12 SGKTLLARAVAHHTECTFIRV 32
SGKT +A VA T F
Sbjct: 40 SGKTTIAHGVADETGLEFAEA 60
>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable
holliday junction DNA helicase; HET: ADP; 2.69A
{Campylobacter jejuni subsp}
Length = 338
Score = 37.9 bits (89), Expect = 0.004
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 248 VLLYGPPGTGKTLLARAVAH 267
+L GP G GKT LA +++
Sbjct: 58 ILFSGPAGLGKTTLANIISY 77
>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase,
winged-helix domain, ATP hydrolysis, walker A, walker B,
sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga
maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A*
1in8_A* 1in7_A* 1j7k_A*
Length = 334
Score = 37.9 bits (89), Expect = 0.004
Identities = 13/20 (65%), Positives = 14/20 (70%)
Query: 248 VLLYGPPGTGKTLLARAVAH 267
VLL GPPG GKT LA +A
Sbjct: 54 VLLAGPPGLGKTTLAHIIAS 73
>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 = 37.6 bits (88), Expect = 0.004
Identities = 30/132 (22%), Positives = 47/132 (35%), Gaps = 35/132 (26%)
Query: 244 QPKGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMASLK 303
PK +L+ GP G GKT +AR +A ++ F+
Sbjct: 49 TPKNILMIGPTGVGKTEIARRLA------------------------KLANAPFIKVEAT 84
Query: 304 KLAFAHHPLLFWSLLTILTN--TIVCNFREHAPS--IIFMDEIDSIGSSRIESGSGGDSE 359
K + + +I+ + + I+F+DEID I SG D
Sbjct: 85 KFT--EVGYVGKEVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKK--GEYSGADVS 140
Query: 360 ---VQRTMLELL 368
VQR +L L+
Sbjct: 141 REGVQRDLLPLV 152
>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus
abyssi}
Length = 350
Score = 37.8 bits (87), Expect = 0.004
Identities = 26/137 (18%), Positives = 43/137 (31%), Gaps = 21/137 (15%)
Query: 248 VLLYGPPGTGKTLLARAVAHHTECTFI----------RVSGSELVQKF---IGEGSRMVR 294
LL G GK+ L RA + I ++ EL+++ I +
Sbjct: 34 TLLLGIRRVGKSSLLRAFLNERPGILIDCRELYAERGHITREELIKELQSTISPFQKFQS 93
Query: 295 ELFVMASLKKLAFAHHPLLFWSLLTILTNTIVCNFREHAPSIIFMDEIDSIGSSRIESGS 354
+ + +LK L L + L + E I+ DE + GS
Sbjct: 94 KFKISLNLKFLTLEPRKLSLREVFRELNDLG----EELGEFIVAFDEAQYL----RFYGS 145
Query: 355 GGDSEVQRTMLELLNQL 371
G E+ + L
Sbjct: 146 RGGKELLALFAYAYDSL 162
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 38.1 bits (89), Expect = 0.005
Identities = 13/27 (48%), Positives = 18/27 (66%)
Query: 240 LGIAQPKGVLLYGPPGTGKTLLARAVA 266
Q + VLL G PGTGK++L +A+A
Sbjct: 55 TAANQKRHVLLIGEPGTGKSMLGQAMA 81
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin
subfragment 2, heavy meromyosin, essential light chain,
motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP:
i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 37.9 bits (88), Expect = 0.005
Identities = 7/43 (16%), Positives = 28/43 (65%)
Query: 89 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
++ +L+ + E+E ++LQ ++ + K++ + +++ ++++Q
Sbjct: 956 QMLDLEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQ 998
Score = 34.4 bits (79), Expect = 0.076
Identities = 14/43 (32%), Positives = 27/43 (62%)
Query: 89 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
KI EL+ +++ +++L +A RN+ + R L EEL+ L+ +
Sbjct: 1117 KIRELESHISDLQEDLESEKAARNKAEKQKRDLSEELEALKTE 1159
Score = 32.1 bits (73), Expect = 0.39
Identities = 11/44 (25%), Positives = 26/44 (59%)
Query: 88 TKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
K +EL+ I+ E E + + + +L A+ + +++++ L+EQ
Sbjct: 920 AKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQ 963
Score = 30.6 bits (69), Expect = 1.2
Identities = 10/43 (23%), Positives = 20/43 (46%)
Query: 89 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
KI++++ + E +L +R L +V L L +E+
Sbjct: 984 KIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEK 1026
Score = 30.2 bits (68), Expect = 1.3
Identities = 9/43 (20%), Positives = 20/43 (46%)
Query: 89 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
+IEE + + + +++Q Q +L ++ Q LQ +
Sbjct: 935 RIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLE 977
Score = 30.2 bits (68), Expect = 1.6
Identities = 6/61 (9%), Positives = 23/61 (37%)
Query: 71 DVDEAIKSSEGFKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQE 130
++ + E + ++E+ + +R L++ ++L + + ++
Sbjct: 1085 ELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHISDLQEDLESEKAARNKAEK 1144
Query: 131 Q 131
Q
Sbjct: 1145 Q 1145
Score = 28.3 bits (63), Expect = 5.4
Identities = 8/39 (20%), Positives = 22/39 (56%)
Query: 88 TKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQ 126
+ I +LQ + ++ + + Q+ +L+ ++ L+ EL+
Sbjct: 1123 SHISDLQEDLESEKAARNKAEKQKRDLSEELEALKTELE 1161
>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure
initiati YORK structural genomics research consortium,
nysgrc; 2.20A {Sinorhizobium meliloti}
Length = 202
Score = 36.2 bits (83), Expect = 0.009
Identities = 9/33 (27%), Positives = 16/33 (48%)
Query: 243 AQPKGVLLYGPPGTGKTLLARAVAHHTECTFIR 275
P +++ G G+GK+ + A+A FI
Sbjct: 16 RFPGSIVVMGVSGSGKSSVGEAIAEACGYPFIE 48
>3tnu_B Keratin, type II cytoskeletal 5; coiled-coil, structural support,
cytosolic protein; 3.00A {Homo sapiens}
Length = 129
Score = 34.8 bits (81), Expect = 0.010
Identities = 15/47 (31%), Positives = 27/47 (57%)
Query: 85 YYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
+Y TK EELQ +LR + + +E+N ++ LR E+ +++Q
Sbjct: 12 WYQTKYEELQQTAGRHGDDLRNTKHEISEMNRMIQRLRAEIDNVKKQ 58
>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A
{Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*
Length = 287
Score = 36.1 bits (82), Expect = 0.012
Identities = 15/65 (23%), Positives = 22/65 (33%), Gaps = 4/65 (6%)
Query: 217 DNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIRV 276
D Q + + + P LL G PG+GKT L A+ T+ I +
Sbjct: 9 DKQFENRLN----DNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVI 64
Query: 277 SGSEL 281
Sbjct: 65 DNDTF 69
>2v1u_A Cell division control protein 6 homolog; DNA replication,
nucleotide-binding, replication, archaea; HET: ADP;
3.10A {Aeropyrum pernix}
Length = 387
Score = 36.3 bits (83), Expect = 0.013
Identities = 31/135 (22%), Positives = 49/135 (36%), Gaps = 11/135 (8%)
Query: 215 GLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFI 274
+ +++ + EV+ AL +P LLYG GTGKT +AR V E
Sbjct: 23 HREAELRRLAEVLA---------PALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARA- 72
Query: 275 RVSGSELVQKFIGEGSRMVRELFVMASLKKLAFAHHPLLFWSLLTILTNTIVCNFREHAP 334
S LV+ V +++ + P S+ + + R
Sbjct: 73 -SSLGVLVKPIYVNARHRETPYRVASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGI 131
Query: 335 SIIFMDEIDSIGSSR 349
II +DEID +
Sbjct: 132 YIIVLDEIDFLPKRP 146
>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 = 34.6 bits (79), Expect = 0.025
Identities = 12/30 (40%), Positives = 17/30 (56%)
Query: 248 VLLYGPPGTGKTLLARAVAHHTECTFIRVS 277
+LL G PG GKT L + +A + +I V
Sbjct: 14 ILLTGTPGVGKTTLGKELASKSGLKYINVG 43
>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural
genomics, center for structural genomics; 2.80A
{Escherichia coli}
Length = 145
Score = 34.0 bits (79), Expect = 0.026
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 248 VLLYGPPGTGKTLLARAV 265
V LYG PGTG+ AR +
Sbjct: 27 VWLYGAPGTGRMTGARYL 44
>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase,
antibiotic resistance, phosphorylation, mononucleoti
binding fold; HET: ATP; 2.50A {Streptomyces venezuelae}
SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A*
1qhy_A*
Length = 178
Score = 34.4 bits (78), Expect = 0.034
Identities = 5/30 (16%), Positives = 12/30 (40%)
Query: 248 VLLYGPPGTGKTLLARAVAHHTECTFIRVS 277
++L G GK+ + R + ++
Sbjct: 6 IILNGGSSAGKSGIVRCLQSVLPEPWLAFG 35
>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD,
hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A*
2gk7_A 2xzo_A* 2xzp_A
Length = 624
Score = 35.2 bits (81), Expect = 0.036
Identities = 34/188 (18%), Positives = 68/188 (36%), Gaps = 35/188 (18%)
Query: 128 LQEQGSYVGEVVKPMDKKK--VLVKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTL 185
L +G V+K D + +++ V++ N + D + L
Sbjct: 80 LAPLWKGIGHVIKVPDNYGDEIAIELRSSVGAPVEVTHNFQV-DFVWK-STSFDRMQSAL 137
Query: 186 HKILPNKVDPLVSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVK-----HPELFDA- 239
V++ S Y L ++++++ +LP + P+L +
Sbjct: 138 KT------------FAVDETSVSGYIYHKLLGHEVEDVIIKCQLPKRFTAQGLPDLNHSQ 185
Query: 240 ----LGIAQPKGVLLYGPPGTGKTLLARAVAHHTE---------CTFIRVSGSELVQKFI 286
+ Q L+ GPPGTGKT+ + + +H C ++ +L +K
Sbjct: 186 VYAVKTVLQRPLSLIQGPPGTGKTVTSATIVYHLARQGNGPVLVCAPSNIAVDQLTEKIH 245
Query: 287 GEGSRMVR 294
G ++VR
Sbjct: 246 QTGLKVVR 253
>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL
helix motif, transcription regulator; 3.20A
{Streptococcus pneumoniae}
Length = 253
Score = 34.5 bits (78), Expect = 0.037
Identities = 11/70 (15%), Positives = 20/70 (28%)
Query: 216 LDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIR 275
+ + + QP +LL G G GKT + R + +
Sbjct: 3 IQDYTDSEFKHALARNLRSLTRGKKSSKQPIAILLGGQSGAGKTTIHRIKQKEFQGNIVI 62
Query: 276 VSGSELVQKF 285
+ G +
Sbjct: 63 IDGDSFRSQH 72
>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A
{Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A
1ko5_A* 1ko8_A* 1kof_A*
Length = 175
Score = 33.9 bits (77), Expect = 0.038
Identities = 10/32 (31%), Positives = 15/32 (46%)
Query: 244 QPKGVLLYGPPGTGKTLLARAVAHHTECTFIR 275
+L G G+GK+ +A VAH F+
Sbjct: 7 DHHIYVLMGVSGSGKSAVASEVAHQLHAAFLD 38
>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 = 34.6 bits (79), Expect = 0.039
Identities = 13/50 (26%), Positives = 21/50 (42%), Gaps = 5/50 (10%)
Query: 236 LFDAL-----GIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSE 280
++D L I + + L GP +GKT LA A+ + V+
Sbjct: 155 VYDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPL 204
>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 = 34.7 bits (80), Expect = 0.045
Identities = 7/23 (30%), Positives = 11/23 (47%)
Query: 249 LLYGPPGTGKTLLARAVAHHTEC 271
L+ PG G L A++ + C
Sbjct: 28 LIQALPGMGDDALIYALSRYLLC 50
>2kjq_A DNAA-related protein; solution structure, NESG, structural
genomics, PSI-2, protei structure initiative; NMR
{Neisseria meningitidis serogroup B}
Length = 149
Score = 33.4 bits (77), Expect = 0.046
Identities = 9/37 (24%), Positives = 17/37 (45%)
Query: 232 KHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHH 268
++ EL L + + ++G G GK+ L +A
Sbjct: 23 ENAELVYVLRHKHGQFIYVWGEEGAGKSHLLQAWVAQ 59
>3nr7_A DNA-binding protein H-NS; dimer, oligomerisation, DNA condensation;
3.70A {Salmonella enterica subsp} PDB: 1lr1_A 1ni8_A
Length = 86
Score = 32.2 bits (73), Expect = 0.047
Identities = 14/57 (24%), Positives = 27/57 (47%), Gaps = 3/57 (5%)
Query: 90 IEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKK 146
+E+L+++V E+ + A+ E K++ RE +L G E++ M K
Sbjct: 33 LEKLEVVVNERREEESAAAAEVEERTRKLQQYRE---MLIADGIDPNELLNSMAAAK 86
>1gd2_E Transcription factor PAP1; basic leucine zipper, protein-DNA
complex, transcription/DNA complex; HET: DNA; 2.00A
{Schizosaccharomyces pombe} SCOP: h.1.3.1
Length = 70
Score = 31.5 bits (71), Expect = 0.051
Identities = 11/42 (26%), Positives = 22/42 (52%)
Query: 88 TKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQ 129
++ L+ V ++ + ++L KVR L EEL++L+
Sbjct: 29 DHLKALETQVVTLKELHSSTTLENDQLRQKVRQLEEELRILK 70
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 34.7 bits (80), Expect = 0.051
Identities = 11/43 (25%), Positives = 20/43 (46%)
Query: 89 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
KI +LQ + E+ + + L + N L E+L+ E+
Sbjct: 929 KIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVER 971
Score = 33.2 bits (76), Expect = 0.16
Identities = 9/43 (20%), Positives = 19/43 (44%)
Query: 89 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
KI+E + + L+ + K+R E L++ +E+
Sbjct: 936 KIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEE 978
>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay,
zinc-finger, ATP-binding, metal-BIN UPF2, UPF1,
helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A
2iyk_A
Length = 800
Score = 34.5 bits (79), Expect = 0.053
Identities = 39/223 (17%), Positives = 85/223 (38%), Gaps = 49/223 (21%)
Query: 103 NLRRLQAQRNELNAKVRMLREELQLLQEQGS------YVGEVVKPMDKKKVLVKVHPEGK 156
R + ++ +R+++ + L+ +G +G V+K D + +
Sbjct: 225 KKRIAYFTLPKTDSDMRLMQGDEICLRYKGDLAPLWKGIGHVIKVPDNYGDEIAIELRSS 284
Query: 157 FVVDIDKNIDIN-DVTPN------CRVALRN--------ESYTLHKILPNKVDPLVSLMM 201
++ + D + AL+ Y HK+L ++V+ ++
Sbjct: 285 VGAPVEVTHNFQVDFVWKSTSFDRMQSALKTFAVDETSVSGYIYHKLLGHEVEDVIIKCQ 344
Query: 202 VEKVPDSTYEMVGGLDN-QIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTL 260
+ K T + + L++ Q+ +K V++ P+ L+ GPPGTGKT+
Sbjct: 345 LPK--RFTAQGLPDLNHSQVYAVKTVLQRPL----------------SLIQGPPGTGKTV 386
Query: 261 LARAVAHHTE---------CTFIRVSGSELVQKFIGEGSRMVR 294
+ + +H C ++ +L +K G ++VR
Sbjct: 387 TSATIVYHLARQGNGPVLVCAPSNIAVDQLTEKIHQTGLKVVR 429
>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support,
cytosolic protein; 3.00A {Homo sapiens}
Length = 131
Score = 32.9 bits (76), Expect = 0.059
Identities = 13/47 (27%), Positives = 24/47 (51%)
Query: 85 YYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
++ TK EEL VA + ++ +++ +EL ++ L ELQ
Sbjct: 14 WFFTKTEELNREVATNSELVQSGKSEISELRRTMQNLEIELQSQLSM 60
>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta
protein., structural genomics, PSI-2, protein structure
initiative; HET: G3D; 2.20A {Bacillus subtilis} PDB:
2axp_A*
Length = 173
Score = 33.1 bits (76), Expect = 0.066
Identities = 6/27 (22%), Positives = 13/27 (48%)
Query: 248 VLLYGPPGTGKTLLARAVAHHTECTFI 274
++L GP K+ +A ++ + I
Sbjct: 4 IILEGPDCCFKSTVAAKLSKELKYPII 30
>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 = 33.5 bits (76), Expect = 0.075
Identities = 8/21 (38%), Positives = 11/21 (52%)
Query: 248 VLLYGPPGTGKTLLARAVAHH 268
L P G GK++LA +A
Sbjct: 33 GALVSPGGAGKSMLALQLAAQ 53
>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase
activation, cytochrome C, procaspase-9, A nucleotide,
cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A*
3iyt_A* 3iza_A*
Length = 1249
Score = 34.4 bits (79), Expect = 0.075
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 244 QPKGVLLYGPPGTGKTLLARAVAHHTE 270
+P V +YG G GK++LA
Sbjct: 146 EPGWVTIYGMAGCGKSVLAAEAVRDHS 172
>3trt_A Vimentin; cytoskeleton, intermediate filament, alpha-helix,
structural protein; 2.30A {Homo sapiens} PDB: 3klt_A*
Length = 77
Score = 31.4 bits (72), Expect = 0.080
Identities = 9/42 (21%), Positives = 18/42 (42%)
Query: 85 YYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQ 126
+Y +K +L LR+ + + E +V+ L E+
Sbjct: 32 WYKSKFADLSEAANRNNDALRQAKQESTEYRRQVQSLTMEVD 73
>3co5_A Putative two-component system transcriptional RES regulator;
structural genomics, APC89341.1; 2.40A {Neisseria
gonorrhoeae}
Length = 143
Score = 32.5 bits (75), Expect = 0.080
Identities = 8/36 (22%), Positives = 14/36 (38%), Gaps = 2/36 (5%)
Query: 235 ELFDALGIAQPKG--VLLYGPPGTGKTLLARAVAHH 268
E+ + A + V L G G+ +AR +
Sbjct: 15 EMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKN 50
>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 = 34.1 bits (78), Expect = 0.100
Identities = 10/35 (28%), Positives = 22/35 (62%), Gaps = 1/35 (2%)
Query: 231 VKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAV 265
+H ++ A +++ + ++L GPPG+GKT+ +
Sbjct: 1291 TRHVDVLHAW-LSEHRPLILCGPPGSGKTMTLTST 1324
Score = 30.3 bits (68), Expect = 1.3
Identities = 17/154 (11%), Positives = 57/154 (37%), Gaps = 1/154 (0%)
Query: 87 VTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKK 146
+ K+ + + V + + +L + + + N + +++ Q+ + + + +
Sbjct: 1926 LKKLRDTEAQVKDLQVSLAQKNRELDVKNEQANQKLKQMVQDQQAAEIKQKDARE-LQVQ 1984
Query: 147 VLVKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKVDPLVSLMMVEKVP 206
+ V+ V +++ + T R + +++ + + + ++ +EK
Sbjct: 1985 LDVRNKEIAVQKVKAYADLEKAEPTGPLREEVEQLENAANELKLKQDEIVATITALEKSI 2044
Query: 207 DSTYEMVGGLDNQIKEIKEVIELPVKHPELFDAL 240
+ E L + ++IK + AL
Sbjct: 2045 ATYKEEYATLIRETEQIKTESSKVKNKVDRSIAL 2078
Score = 29.5 bits (66), Expect = 2.2
Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 242 IAQPKG-VLLYGPPGTGKTLLARAVAH--HTECTFIRVSGSELVQKF 285
QP+G LL G G GK++L+R VA I+V+ + F
Sbjct: 1642 FRQPQGHALLIGVSGGGKSVLSRFVAWMNGLSIYTIKVNNNYKSSDF 1688
>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 = 33.0 bits (75), Expect = 0.12
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 241 GIAQPKGVLLYGPPGTGKTLLARAVAH 267
GI + + GPP TGK++L ++ H
Sbjct: 122 GIPKKNCLAFIGPPNTGKSMLCNSLIH 148
>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding
loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori}
SCOP: c.37.1.20
Length = 376
Score = 33.0 bits (76), Expect = 0.13
Identities = 11/19 (57%), Positives = 16/19 (84%)
Query: 248 VLLYGPPGTGKTLLARAVA 266
+LL GP G+GKTL+A+ +A
Sbjct: 75 ILLIGPTGSGKTLMAQTLA 93
>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 = 32.9 bits (76), Expect = 0.13
Identities = 12/19 (63%), Positives = 15/19 (78%)
Query: 248 VLLYGPPGTGKTLLARAVA 266
+LL GP G+GKTLLA +A
Sbjct: 54 ILLIGPTGSGKTLLAETLA 72
>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 = 32.4 bits (74), Expect = 0.19
Identities = 12/20 (60%), Positives = 14/20 (70%)
Query: 248 VLLYGPPGTGKTLLARAVAH 267
+L YGPPGTGKT A+A
Sbjct: 49 LLFYGPPGTGKTSTIVALAR 68
>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding
mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli}
SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*
Length = 758
Score = 32.6 bits (75), Expect = 0.21
Identities = 12/42 (28%), Positives = 20/42 (47%), Gaps = 1/42 (2%)
Query: 245 PKGVLLY-GPPGTGKTLLARAVAHHTECTFIRVSGSELVQKF 285
P G L+ GP G GKT + ++ +R SE +++
Sbjct: 487 PVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERH 528
>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP:
a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*
Length = 549
Score = 32.7 bits (74), Expect = 0.22
Identities = 25/175 (14%), Positives = 54/175 (30%), Gaps = 32/175 (18%)
Query: 94 QLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVKVHP 153
+ I E L + R E A L++ + Q S +G ++ + + H
Sbjct: 33 KNIFTEDHSELISKMSTRLERIANF------LRIYRRQASELGPLIDFFNYNN---QSHL 83
Query: 154 EGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKVDPLVSLMMVEKVPDSTYEMV 213
ID I+ D+ +A + L + L P +
Sbjct: 84 ADFLEDYIDFAINEPDLLRPVVIAPQFSRQMLDRKLLLGNVPKQMTCYIR---------- 133
Query: 214 GGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHH 268
+ + + + ++ + + L+G G+GK+++A
Sbjct: 134 ---EYHVDRVIKKLD----------EMCDLDSFFLFLHGRAGSGKSVIASQALSK 175
>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 354
Score = 32.2 bits (73), Expect = 0.26
Identities = 13/48 (27%), Positives = 18/48 (37%), Gaps = 8/48 (16%)
Query: 221 KEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHH 268
+E+ ++ P L LLYGP GTGK A+
Sbjct: 20 EELTNFLKSLSDQPRDLPHL--------LLYGPNGTGKKTRCMALLES 59
>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 = 0.26
Identities = 14/62 (22%), Positives = 31/62 (50%), Gaps = 7/62 (11%)
Query: 231 VKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIRV------SGSELVQK 284
+KH ++F L + +G++L GPPG+GKT++ ++ + + +E +
Sbjct: 1254 IKHEKIFYDL-LNSKRGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKDTTTEHILS 1312
Query: 285 FI 286
+
Sbjct: 1313 AL 1314
Score = 31.3 bits (71), Expect = 0.56
Identities = 12/36 (33%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 242 IAQPKG-VLLYGPPGTGKTLLARAVAHHTECTFIRV 276
+ Q +G ++L G TGKT+L R VA ++
Sbjct: 1605 LKQVQGHMMLIGASRTGKTILTRFVAWLNGLKIVQP 1640
>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 = 31.6 bits (71), Expect = 0.27
Identities = 19/101 (18%), Positives = 35/101 (34%), Gaps = 14/101 (13%)
Query: 249 LLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMV----RELFVMASLKK 304
L+ G PG+GKTL + ++ E+ + R V + L + + +
Sbjct: 9 LITGTPGSGKTLKMVS----------MMANDEMFKPDENGIRRKVFTNIKGLKIPHTYIE 58
Query: 305 LAFAHHPLLFWSLLTILTNTIVCNFREHAPSIIFMDEIDSI 345
P L+ E+ SI+ +DE +
Sbjct: 59 TDAKKLPKSTDEQLSAHDMYEWIKKPENIGSIVIVDEAQDV 99
>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 = 32.0 bits (72), Expect = 0.31
Identities = 12/47 (25%), Positives = 19/47 (40%), Gaps = 1/47 (2%)
Query: 245 PKGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSR 291
K +L G PG+GK+ AR F ++ + Q + R
Sbjct: 2 KKIILTIGCPGSGKSTWAREFIAKNP-GFYNINRDDYRQSIMAHEER 47
>4div_A ORF48; distal tail protein, receptor-binding protein, phage basepla
adsorption apparatus, genome injection device, viral
protei; 3.80A {Lactococcus phage tp901-1}
Length = 299
Score = 31.8 bits (71), Expect = 0.31
Identities = 23/105 (21%), Positives = 39/105 (37%), Gaps = 8/105 (7%)
Query: 65 TEFFTMDVDEAIKSSEGFKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREE 124
T F V+++I S Y +EL I + ++ + V RE
Sbjct: 114 TRTFHYIVEKSIYSQPFKDSNYWWTFKELYRIFNKY------IEDGKKSWEQFVEANREI 167
Query: 125 LQLLQEQGSYVGEVVKPMDKKKVLVKVHPEGKFVVDIDKNIDIND 169
L+ + G + +V+ +K V KV KFV++ D
Sbjct: 168 LESIDPGGVLLAKVID--IEKIVNEKVPAGFKFVLEHDSEYQPEV 210
>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 = 31.8 bits (72), Expect = 0.33
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 248 VLLYGPPGTGKTLLARAVAH 267
+ L+GP TGKT +A A+AH
Sbjct: 107 IWLFGPATTGKTNIAEAIAH 126
>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 = 31.7 bits (72), Expect = 0.33
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 248 VLLYGPPGTGKTLLARAVAH 267
+L YGPPGTGKT A+
Sbjct: 61 MLFYGPPGTGKTSTILALTK 80
>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54
activator, bacterial transcription, DIM transcription;
HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1
c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A*
Length = 387
Score = 31.7 bits (73), Expect = 0.36
Identities = 17/67 (25%), Positives = 27/67 (40%), Gaps = 15/67 (22%)
Query: 203 EKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKG-VLLYGPPGTGKTLL 261
+ E V ++KEI E I+ I+ + VL+ G G GK ++
Sbjct: 130 REKDLKEEEYVFE-SPKMKEILEKIKK------------ISCAECPVLITGESGVGKEVV 176
Query: 262 ARAVAHH 268
AR + H
Sbjct: 177 ARLI-HK 182
>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 = 31.4 bits (71), Expect = 0.37
Identities = 9/29 (31%), Positives = 15/29 (51%)
Query: 248 VLLYGPPGTGKTLLARAVAHHTECTFIRV 276
++L G PG GK+ ++ +A I V
Sbjct: 7 IILTGLPGVGKSTFSKNLAKILSKNNIDV 35
>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 = 31.6 bits (72), Expect = 0.39
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 248 VLLYGPPGTGKTLLARAVAH 267
+++ G PG GKT +AH
Sbjct: 45 MIISGMPGIGKTTSVHCLAH 64
>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292;
mixed alpha-beta protein, rossman fold, signaling
protein, transferase; 1.40A {Aquifex aeolicus} SCOP:
c.37.1.11
Length = 178
Score = 30.8 bits (69), Expect = 0.41
Identities = 18/106 (16%), Positives = 35/106 (33%), Gaps = 11/106 (10%)
Query: 248 VLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGE----------GSRMVRELF 297
+++ G PG GKT L + + I E+ + G + +
Sbjct: 3 IIITGEPGVGKTTLVKKIVERLGKRAIGFWTEEVRDPETKKRTGFRIITTEGKKKIFSSK 62
Query: 298 VMASLKKLA-FAHHPLLFWSLLTILTNTIVCNFREHAPSIIFMDEI 342
S K + + + F L + ++ +I +DEI
Sbjct: 63 FFTSKKLVGSYGVNVQYFEELAIPILERAYREAKKDRRKVIIIDEI 108
>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein
struct initiative, northeast structural genomics
consortium, NESG, function; 2.40A {Bacillus halodurans}
SCOP: c.37.1.25
Length = 189
Score = 31.1 bits (70), Expect = 0.41
Identities = 9/48 (18%), Positives = 20/48 (41%), Gaps = 2/48 (4%)
Query: 248 VLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRE 295
++ GP G GK+ + +A + + +++ + G R E
Sbjct: 5 YIITGPAGVGKSTTCKRLAAQLDNSAY--IEGDIINHMVVGGYRPPWE 50
>1jnm_A Proto-oncogene C-JUN; BZIP, protein-DNA complex, transcription/DNA
complex; 2.20A {Homo sapiens} SCOP: h.1.3.1 PDB: 1fos_F
2h7h_A 1t2k_C 1a02_J* 1s9k_E 1jun_A
Length = 62
Score = 28.9 bits (65), Expect = 0.42
Identities = 11/31 (35%), Positives = 22/31 (70%)
Query: 101 EQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
E+ ++ L+AQ +EL + MLRE++ L+++
Sbjct: 28 EEKVKTLKAQNSELASTANMLREQVAQLKQK 58
Score = 27.7 bits (62), Expect = 1.2
Identities = 8/38 (21%), Positives = 17/38 (44%)
Query: 89 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQ 126
+I L+ V + L + N L +V L++++
Sbjct: 23 RIARLEEKVKTLKAQNSELASTANMLREQVAQLKQKVM 60
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 30.9 bits (69), Expect = 0.43
Identities = 12/70 (17%), Positives = 25/70 (35%), Gaps = 17/70 (24%)
Query: 74 EAIKS-SEGFKPYYVTKIEELQLIVAEKEQNLRRLQA---------QRNELNAKVR--ML 121
E+I+ E + +++EL EQ R +A +++E K +
Sbjct: 85 ESIRKWREEQRK----RLQELDAASKVMEQEW-REKAKKDLEEWNQRQSEQVEKNKINNR 139
Query: 122 REELQLLQEQ 131
+ Q+
Sbjct: 140 IADKAFYQQP 149
Score = 30.1 bits (67), Expect = 0.73
Identities = 13/75 (17%), Positives = 32/75 (42%), Gaps = 3/75 (4%)
Query: 91 EELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVK 150
+E + I +E+ +RLQ + RE+ + ++ + + ++K K+ +
Sbjct: 82 QEPESIRKWREEQRKRLQELDAASKVMEQEWREKAK--KDLEEWNQRQSEQVEKNKINNR 139
Query: 151 VHPEGKFVVDIDKNI 165
+ + F D +I
Sbjct: 140 IADK-AFYQQPDADI 153
>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase;
NMR {Homo sapiens} SCOP: c.37.1.11
Length = 189
Score = 30.8 bits (69), Expect = 0.51
Identities = 12/33 (36%), Positives = 17/33 (51%)
Query: 246 KGVLLYGPPGTGKTLLARAVAHHTECTFIRVSG 278
+ V L GPPG GKT L + + + + V G
Sbjct: 2 RHVFLTGPPGVGKTTLIHKASEVLKSSGVPVDG 34
>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA
degradation, allosteric REGU; HET: ADP 1PE; 2.40A
{Saccharomyces cerevisiae}
Length = 802
Score = 31.4 bits (71), Expect = 0.54
Identities = 30/206 (14%), Positives = 63/206 (30%), Gaps = 22/206 (10%)
Query: 104 LRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMD--KKKVLVKVHPEGKFVVDI 161
L ++ ++ M+ + G +V+ + + +++ P
Sbjct: 235 LSTFESNELKVAIGDEMILWYSGMQHPDWEGRGYIVRLPNSFQDTFTLELKPSKTPPPTH 294
Query: 162 DKNIDINDVTPNCRVALRNESYTLHKILPNKVDPLVSLMMV---EKVPDSTYEMVGGLDN 218
+ + L K +K L +V D ++ D
Sbjct: 295 LTTGFTAEFIWK-GTSYDRMQDALKKFAIDKKSISGYLYYKILGHQVVDISF------DV 347
Query: 219 QIKEIKEVIELPVKHPELFDA-LGIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIR-- 275
+ + + + +A + Q L+ GPPGTGKT+ + + +H
Sbjct: 348 PLPKEFSIPNFAQLNSSQSNAVSHVLQRPLSLIQGPPGTGKTVTSATIVYHLSKIHKDRI 407
Query: 276 -------VSGSELVQKFIGEGSRMVR 294
V+ L K G ++VR
Sbjct: 408 LVCAPSNVAVDHLAAKLRDLGLKVVR 433
>2cwd_A Low molecular weight phosphotyrosine protein PHOS; tyrosine
phosphatase, structural genomics; 1.90A {Thermus
thermophilus}
Length = 161
Score = 30.2 bits (69), Expect = 0.55
Identities = 10/31 (32%), Positives = 16/31 (51%)
Query: 95 LIVAEKEQNLRRLQAQRNELNAKVRMLREEL 125
I+ +NL + + E KVR++ EEL
Sbjct: 86 HILVMDRENLEEVLRRFPEARGKVRLVLEEL 116
>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A
{Enterobacteria phage T4} SCOP: c.37.1.1
Length = 181
Score = 30.5 bits (69), Expect = 0.61
Identities = 12/47 (25%), Positives = 19/47 (40%), Gaps = 1/47 (2%)
Query: 245 PKGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSR 291
K +L G PG+GK+ AR F ++ + Q + R
Sbjct: 2 KKIILTIGCPGSGKSTWAREFIAKNP-GFYNINRDDYRQSIMAHEER 47
>1t2k_D Cyclic-AMP-dependent transcription factor ATF-2; protein DNA
complex, transcription/DNA complex; 3.00A {Homo sapiens}
SCOP: h.1.3.1
Length = 61
Score = 28.5 bits (64), Expect = 0.62
Identities = 9/35 (25%), Positives = 18/35 (51%)
Query: 97 VAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
V E+ L + +L ++V +LR E+ L++
Sbjct: 24 VQSLEKKAEDLSSLNGQLQSEVTLLRNEVAQLKQL 58
Score = 27.3 bits (61), Expect = 1.4
Identities = 7/37 (18%), Positives = 17/37 (45%)
Query: 89 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREEL 125
++ L+ + +LQ++ L +V L++ L
Sbjct: 23 WVQSLEKKAEDLSSLNGQLQSEVTLLRNEVAQLKQLL 59
Score = 26.9 bits (60), Expect = 1.8
Identities = 6/32 (18%), Positives = 19/32 (59%)
Query: 100 KEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
++ ++ L+ + +L++ L+ E+ LL+ +
Sbjct: 20 RKVWVQSLEKKAEDLSSLNGQLQSEVTLLRNE 51
>1yhn_B RILP, RAB interacting lysosomal protein; protein transport; HET:
GTP; 3.00A {Homo sapiens} SCOP: h.1.34.1
Length = 65
Score = 28.2 bits (62), Expect = 0.72
Identities = 12/30 (40%), Positives = 19/30 (63%)
Query: 102 QNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
+ ++ +RNEL AKV +L+EEL Q +
Sbjct: 3 EEFEQILQERNELKAKVFLLKEELAYFQRE 32
>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 = 30.1 bits (67), Expect = 0.72
Identities = 13/37 (35%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 248 VLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQK 284
+L+ G PGTGKT +A +A + F + +LV++
Sbjct: 13 ILITGTPGTGKTSMAEMIAAELDG-FQHLEVGKLVKE 48
>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 = 30.2 bits (69), Expect = 0.73
Identities = 10/33 (30%), Positives = 17/33 (51%)
Query: 242 IAQPKGVLLYGPPGTGKTLLARAVAHHTECTFI 274
+A+ + + L GP G GK+ + R +A F
Sbjct: 1 MAEKRNIFLVGPMGAGKSTIGRQLAQQLNMEFY 33
>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two
component system, AAA domain, NTRC family, DNA-binding;
HET: ATP; 3.0A {Salmonella typhimurium}
Length = 304
Score = 30.5 bits (70), Expect = 0.84
Identities = 12/21 (57%), Positives = 16/21 (76%), Gaps = 1/21 (4%)
Query: 248 VLLYGPPGTGKTLLARAVAHH 268
VL++G GTGK L+ARA+ H
Sbjct: 28 VLIHGDSGTGKELVARAL-HA 47
>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric
ring, heptamer, ring, oligomer, RAD51 polymerizat motif;
HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1
c.37.1.11
Length = 349
Score = 30.4 bits (68), Expect = 0.87
Identities = 31/171 (18%), Positives = 58/171 (33%), Gaps = 27/171 (15%)
Query: 221 KEIKEVIELPVKHPELFDALGIAQPKGVL--LYGPPGTGKTLLARAVAH----------- 267
K+ + + L LG + ++G G+GKT LA +A
Sbjct: 105 KKRATIGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGL 164
Query: 268 -------HTECTFIRVSGSELVQKFIGEGSRMVRELFVMASLKKLAFAHHPLLFWSLLTI 320
TE TF E+ Q + +++ ++V + H LL
Sbjct: 165 NGSVIWIDTENTFRPERIREIAQNRGLDPDEVLKHIYVARAFN---SNHQMLLVQQAEDK 221
Query: 321 LTNTIVCNFREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQL 371
+ + + ++ +D + S S G G +E Q+ + + L L
Sbjct: 222 IKELLN---TDRPVKLLIVDSLTSHFRSE-YIGRGALAERQQKLAKHLADL 268
>4etn_A LMPTP, low molecular weight protein-tyrosine-phosphatase;
dephosphorylation, hydrolase; 1.10A {Bacillus subtilis}
PDB: 4eti_A 1zgg_A
Length = 184
Score = 29.9 bits (68), Expect = 0.90
Identities = 8/29 (27%), Positives = 15/29 (51%)
Query: 95 LIVAEKEQNLRRLQAQRNELNAKVRMLRE 123
L++A Q+ + + +Q KV L+E
Sbjct: 113 LVLAMTHQHKQIIASQFGRYRDKVFTLKE 141
>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 = 29.9 bits (68), Expect = 0.93
Identities = 8/27 (29%), Positives = 14/27 (51%)
Query: 248 VLLYGPPGTGKTLLARAVAHHTECTFI 274
+L G PG+GK+ + R +A +
Sbjct: 5 AVLVGLPGSGKSTIGRRLAKALGVGLL 31
>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 = 30.4 bits (69), Expect = 0.96
Identities = 14/34 (41%), Positives = 23/34 (67%), Gaps = 1/34 (2%)
Query: 248 VLLYGP-PGTGKTLLARAVAHHTECTFIRVSGSE 280
++L+ P PGTGKT +A+A+ H + V+GS+
Sbjct: 50 IILHSPSPGTGKTTVAKALCHDVNADMMFVNGSD 83
>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 = 30.6 bits (70), Expect = 1.1
Identities = 17/37 (45%), Positives = 22/37 (59%), Gaps = 3/37 (8%)
Query: 252 GPPGTGKTLLARAVAHH---TECTFIRVSGSELVQKF 285
GP G GKT LARA+A E + IR+ SE ++K
Sbjct: 528 GPTGVGKTELARALAESIFGDEESMIRIDMSEYMEKH 564
>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA
replication initiation, DNA BIND protein, AAA+ ATPase;
HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11
c.37.1.20 PDB: 1w5t_A*
Length = 412
Score = 30.2 bits (67), Expect = 1.1
Identities = 14/129 (10%), Positives = 39/129 (30%), Gaps = 6/129 (4%)
Query: 217 DNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIRV 276
+ + + + + + + G G GKT LA+ +
Sbjct: 28 RGEAEALARIYLNRLLSGAGLSDVNMI----YGSIGRVGIGKTTLAKFTVKRVSEAAAKE 83
Query: 277 SGSELVQKFIGEGSRMVRELFVMASLKKLAFAHHPLLFWSLLTILTNTIVCNFREHAPSI 336
+ + + +++ + + + L IL + + E+ +
Sbjct: 84 GLTVKQAYVNAFNAPNLYT--ILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLL 141
Query: 337 IFMDEIDSI 345
+ +DE S+
Sbjct: 142 VILDEFQSM 150
>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+
ATPase, response regulator, transcriptional activator,
ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB:
1zit_A 2jrl_A
Length = 368
Score = 30.1 bits (69), Expect = 1.1
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 248 VLLYGPPGTGKTLLARAVAHH 268
VL+ G GTGK ++AR + +
Sbjct: 155 VLITGESGTGKEIVARLIHRY 175
>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway,
P-loop protein, transferase; 1.8A {Erwinia chrysanthemi}
SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*
Length = 173
Score = 29.5 bits (67), Expect = 1.2
Identities = 7/30 (23%), Positives = 13/30 (43%)
Query: 245 PKGVLLYGPPGTGKTLLARAVAHHTECTFI 274
+ + + G G G T + R +A F+
Sbjct: 2 TEPIFMVGARGCGMTTVGRELARALGYEFV 31
>3rrk_A V-type ATPase 116 kDa subunit; alpha beta fold, proton pump,
subunit I/A, V-ATPase, proton; HET: NHE; 2.64A
{Meiothermus ruber}
Length = 357
Score = 30.1 bits (67), Expect = 1.2
Identities = 11/54 (20%), Positives = 20/54 (37%)
Query: 80 EGFKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGS 133
V + + E E LR + ++ L + L EE+Q ++ G
Sbjct: 77 TVVGLATVPSSKPFTGSLEEAEAVLRPVASRAEVLGKERAALEEEIQTIELFGK 130
>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+
protein; 2.10A {Human papillomavirus type 18} SCOP:
c.37.1.20
Length = 212
Score = 29.4 bits (66), Expect = 1.3
Identities = 7/27 (25%), Positives = 12/27 (44%)
Query: 241 GIAQPKGVLLYGPPGTGKTLLARAVAH 267
G + ++ GP TGK+ + H
Sbjct: 54 GTPKKNCLVFCGPANTGKSYFGMSFIH 80
>2bjv_A PSP operon transcriptional activator; AAA, transcription
activation, gene regulation, sigma54 activator, enhancer
binding protein, PSPF; 1.7A {Escherichia coli} PDB:
2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*
Length = 265
Score = 29.4 bits (67), Expect = 1.5
Identities = 10/21 (47%), Positives = 14/21 (66%), Gaps = 1/21 (4%)
Query: 248 VLLYGPPGTGKTLLARAVAHH 268
VL+ G GTGK L+A + H+
Sbjct: 32 VLIIGERGTGKELIASRL-HY 51
>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 = 29.1 bits (66), Expect = 1.5
Identities = 9/20 (45%), Positives = 10/20 (50%)
Query: 248 VLLYGPPGTGKTLLARAVAH 267
V L G G GKT L R +
Sbjct: 36 VYLNGDLGAGKTTLTRGMLQ 55
>2fxo_A Myosin heavy chain, cardiac muscle beta isoform; coiled coil
(dimeric, parallel), familial hypertrophic
cardiomyopathy, FHC-associated mutant E924K; 2.50A {Homo
sapiens} SCOP: h.1.26.1 PDB: 2fxm_A
Length = 129
Score = 28.7 bits (64), Expect = 1.5
Identities = 10/43 (23%), Positives = 24/43 (55%)
Query: 89 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
+++ Q +A+ E+ +L + +L AKV+ + + L+ +E
Sbjct: 56 QVQAEQDNLADAEERCDQLIKNKIQLEAKVKEMNKRLEDEEEM 98
Score = 27.9 bits (62), Expect = 3.1
Identities = 8/43 (18%), Positives = 23/43 (53%)
Query: 89 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
K++E+ + ++E+ L A++ +L + L+ ++ L+
Sbjct: 84 KVKEMNKRLEDEEEMNAELTAKKRKLEDECSELKRDIDDLELT 126
Score = 27.2 bits (60), Expect = 5.0
Identities = 11/43 (25%), Positives = 22/43 (51%)
Query: 89 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
++ ++ ++ L + +A+R EL K+ L +E LQ Q
Sbjct: 14 EMASMKEEFTRLKEALEKSEARRKELEEKMVSLLQEKNDLQLQ 56
>1wle_A Seryl-tRNA synthetase; ligase; HET: SRP; 1.65A {Bos taurus}
Length = 501
Score = 29.9 bits (68), Expect = 1.6
Identities = 15/110 (13%), Positives = 34/110 (30%), Gaps = 26/110 (23%)
Query: 47 RMVRELFVMARCKGSSRGTEFFTMDVDEAIKSSEGFKPYYVTKIEELQLIVAEKEQNLRR 106
+ A R E + D+ I + + EL+ + +
Sbjct: 44 ESLCAYPEDAARALDLRKGELRSKDLPGIISTWQ-----------ELRQLREQIRS---- 88
Query: 107 LQAQRNELNAKVRMLR-----------EELQLLQEQGSYVGEVVKPMDKK 145
L+ ++ + VR L + Q L+ +G + + + + K
Sbjct: 89 LEEEKEAVTEAVRALVVNQDNSQVQQDPQYQSLRARGREIRKQLTLLYPK 138
>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM:
PF02562, ST genomics, PSI-2, protein structure
initiative; 2.35A {Corynebacterium glutamicum atcc
13032}
Length = 208
Score = 29.1 bits (66), Expect = 1.6
Identities = 10/15 (66%), Positives = 11/15 (73%)
Query: 252 GPPGTGKTLLARAVA 266
GP G+GKT LA A A
Sbjct: 29 GPAGSGKTYLAMAKA 43
>2rjn_A Response regulator receiver:metal-dependent phosphohydrolase, HD
subdomain; structural genomics, oceanospirillum SP.
MED92; 2.10A {Neptuniibacter caesariensis}
Length = 154
Score = 28.7 bits (65), Expect = 1.7
Identities = 9/61 (14%), Positives = 23/61 (37%), Gaps = 6/61 (9%)
Query: 74 EAIKSSEGFKPYYVTK---IEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQE 130
+A+ + + ++ K E++ +V EK L L+ + L + ++
Sbjct: 96 DAVNRGKISR--FLLKPWEDEDVFKVV-EKGLQLAFLREENLRLQEETEAKNKQEGHHHH 152
Query: 131 Q 131
Sbjct: 153 H 153
>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 = 29.7 bits (66), Expect = 1.7
Identities = 23/149 (15%), Positives = 47/149 (31%), Gaps = 26/149 (17%)
Query: 230 PVKHPELF-------DALGIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELV 282
P + + F + L + L+ G TGK+ + + + +I + +
Sbjct: 8 PKDNRKDFFDREKEIEKLKGLRAPITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFE 67
Query: 283 QKFIGEGSRMVRELF--VMASLKKLAFAHHPLLFWSLLTILTNTIVCNFREHAPS----- 335
++ + EL + +K+L L + I+ N I N+
Sbjct: 68 ERNYISYKDFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANL 127
Query: 336 ------------IIFMDEIDSIGSSRIES 352
II +DE + R +
Sbjct: 128 LESFEQASKDNVIIVLDEAQELVKLRGVN 156
>1nkp_A C-MYC, MYC proto-oncogene protein; transcription, DNA, BHLHZ,
heterodimer, transcription/DNA complex; 1.80A {Homo
sapiens} SCOP: a.38.1.1
Length = 88
Score = 27.7 bits (62), Expect = 1.7
Identities = 5/29 (17%), Positives = 15/29 (51%)
Query: 101 EQNLRRLQAQRNELNAKVRMLREELQLLQ 129
+ ++L ++ + L + L+ +L+ L
Sbjct: 58 QAEEQKLISEEDLLRKRREQLKHKLEQLG 86
Score = 26.9 bits (60), Expect = 3.3
Identities = 6/27 (22%), Positives = 16/27 (59%)
Query: 105 RRLQAQRNELNAKVRMLREELQLLQEQ 131
+QA+ +L ++ +LR+ + L+ +
Sbjct: 55 LSVQAEEQKLISEEDLLRKRREQLKHK 81
>3l4q_C Phosphatidylinositol 3-kinase regulatory subunit beta; PI3K,
phosphoinositide-3-kinase, influenza virus, NS1; 2.30A
{Bos taurus} PDB: 2v1y_B
Length = 170
Score = 29.0 bits (64), Expect = 1.9
Identities = 10/44 (22%), Positives = 23/44 (52%)
Query: 88 TKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
++I E+ + EQ LR + E++ ++ L+ +L L++
Sbjct: 103 SRIAEIHESRTKLEQELRAQASDNREIDKRMNSLKPDLMQLRKI 146
>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus
thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*
Length = 311
Score = 29.5 bits (67), Expect = 1.9
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 3/37 (8%)
Query: 252 GPPGTGKTLLARAVAHH---TECTFIRVSGSELVQKF 285
GP G GKT LA+ +A TE IR+ +E ++K
Sbjct: 54 GPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKH 90
>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain,
PIN-tower interface, coupling hydrolysis to DNA
unwinding, ssDNA; 3.30A {Enterobacteria phage T4}
Length = 459
Score = 29.6 bits (66), Expect = 2.0
Identities = 8/31 (25%), Positives = 13/31 (41%)
Query: 235 ELFDALGIAQPKGVLLYGPPGTGKTLLARAV 265
+ + V + GP GTG T L + +
Sbjct: 35 NIVMKAIKEKKHHVTINGPAGTGATTLTKFI 65
>2wt7_A Proto-oncogene protein C-FOS; transcription, transcription
regulation, nucleus, activator, repressor, DNA-binding,
phosphoprotein, differentiation; 2.30A {Mus musculus}
PDB: 1fos_E* 1a02_F* 1s9k_D
Length = 63
Score = 27.1 bits (60), Expect = 2.1
Identities = 8/38 (21%), Positives = 12/38 (31%)
Query: 89 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQ 126
+ LQ + E LQ + L + L L
Sbjct: 24 LTDTLQAETDQLEDEKSALQTEIANLLKEKEKLEFILA 61
>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1
PDB: 2tma_A 2w49_A 2w4u_A
Length = 284
Score = 29.2 bits (65), Expect = 2.2
Identities = 10/43 (23%), Positives = 18/43 (41%)
Query: 89 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
K EE+ + E +L R + + K L EE++ +
Sbjct: 161 KYEEVARKLVIIESDLERAEERAELSEGKCAELEEEIKTVTNN 203
Score = 28.8 bits (64), Expect = 2.9
Identities = 9/46 (19%), Positives = 18/46 (39%)
Query: 86 YVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
Y +I+ L + E E + +L + L +EL + +
Sbjct: 221 YEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLK 266
Score = 28.8 bits (64), Expect = 3.1
Identities = 6/43 (13%), Positives = 23/43 (53%)
Query: 89 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
K++E + E+++ +L+ ++L ++ + + + + E+
Sbjct: 231 KLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEE 273
Score = 28.1 bits (62), Expect = 4.9
Identities = 9/43 (20%), Positives = 19/43 (44%)
Query: 89 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
K++ L+L +A + + + L +EL LQ++
Sbjct: 7 KMQMLKLDKENALDRADEAEADKKAAEDRSKQLEDELVSLQKK 49
Score = 27.7 bits (61), Expect = 6.5
Identities = 8/43 (18%), Positives = 18/43 (41%)
Query: 89 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
+ +E + E ++L+ + L K++ +EL E
Sbjct: 21 RADEAEADKKAAEDRSKQLEDELVSLQKKLKATEDELDKYSEA 63
>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding
protein, ring protein, octamer, AAA ATPase; 3.20A {Homo
sapiens} SCOP: c.37.1.11 PDB: 2zjb_A
Length = 343
Score = 29.1 bits (65), Expect = 2.3
Identities = 33/173 (19%), Positives = 61/173 (35%), Gaps = 40/173 (23%)
Query: 224 KEVIELPVKHPELFDALGIAQPKGVL--LYGPPGTGKTLLA------------------R 263
K V + E LG + +G TGKT L+ +
Sbjct: 99 KMVFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGK 158
Query: 264 AVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMASLKKLAFAHHPLLFWSLLTILTN 323
+ TE TF ++ +F + ++ + + +L +
Sbjct: 159 IIFIDTENTFRPDRLRDIADRFNVDHDAVLDNVLYA----------RAYTSEHQMELL-D 207
Query: 324 TIVCNFREHAPS---IIFMDEIDSIGSS-RIE-SGSGGDSEVQRTMLELLNQL 371
+ F E A +I IDSI + R++ SG G +E Q+ + ++L++L
Sbjct: 208 YVAAKFHEEAGIFKLLI----IDSIMALFRVDFSGRGELAERQQKLAQMLSRL 256
>3efg_A Protein SLYX homolog; xanthomonas campestris PV. campestris,
coiled-coil, structur genomics, PSI-2, protein structure
initiative; 2.00A {Xanthomonas campestris PV}
Length = 78
Score = 27.0 bits (60), Expect = 2.4
Identities = 8/43 (18%), Positives = 15/43 (34%), Gaps = 7/43 (16%)
Query: 90 IEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQG 132
+ EL +A+ R +R L E+L ++
Sbjct: 30 LTELSEALADARLTGARNAEL-------IRHLLEDLGKVRSTL 65
>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET:
MSE; 2.33A {Homo sapiens}
Length = 168
Score = 28.5 bits (63), Expect = 2.4
Identities = 9/43 (20%), Positives = 21/43 (48%)
Query: 89 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
+LQ I+ + ++ +L A++ L+EE++ L+
Sbjct: 70 DYYQLQAILEAERRDRGHDSEMIGDLQARITSLQEEVKHLKHN 112
Score = 28.5 bits (63), Expect = 2.7
Identities = 8/41 (19%), Positives = 15/41 (36%)
Query: 91 EELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
E+ +++ E R LQ + L ++ LQ
Sbjct: 37 TEMSKSISQLESLNRELQERNRILENSKSQTDKDYYQLQAI 77
Score = 27.4 bits (60), Expect = 5.7
Identities = 9/61 (14%), Positives = 23/61 (37%)
Query: 71 DVDEAIKSSEGFKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQE 130
++ ++I E + L+ ++ +++ +LQA E + LQ
Sbjct: 38 EMSKSISQLESLNRELQERNRILENSKSQTDKDYYQLQAILEAERRDRGHDSEMIGDLQA 97
Query: 131 Q 131
+
Sbjct: 98 R 98
Score = 27.0 bits (59), Expect = 7.9
Identities = 9/43 (20%), Positives = 20/43 (46%)
Query: 89 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
++EE ++ + RL+ E++ + L + LQE+
Sbjct: 14 QLEEANDLLRTESDTAVRLRKSHTEMSKSISQLESLNRELQER 56
Score = 26.6 bits (58), Expect = 9.7
Identities = 5/43 (11%), Positives = 21/43 (48%)
Query: 89 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
I +LQ + ++ ++ L+ ++ + + ++ L +++
Sbjct: 91 MIGDLQARITSLQEEVKHLKHNLEKVEGERKEAQDMLNHSEKE 133
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.4 bits (62), Expect = 2.5
Identities = 6/27 (22%), Positives = 12/27 (44%), Gaps = 6/27 (22%)
Query: 218 NQIKEIKEVIEL--PVKHPELFDALGI 242
+K+++ ++L P AL I
Sbjct: 20 QALKKLQASLKLYADDSAP----ALAI 42
>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET:
ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*
Length = 368
Score = 29.1 bits (65), Expect = 2.6
Identities = 20/87 (22%), Positives = 30/87 (34%), Gaps = 23/87 (26%)
Query: 211 EMVG------GLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLAR- 263
MVG ++ I+E L G PGTGKT +A
Sbjct: 45 GMVGQLAARRAAGVVLEMIREGKI--AGRAVLIA-------------GQPGTGKTAIAMG 89
Query: 264 -AVAHHTECTFIRVSGSELVQKFIGEG 289
A A + F ++GSE+ + +
Sbjct: 90 MAQALGPDTPFTAIAGSEIFSLEMSKT 116
>3rof_A Low molecular weight protein-tyrosine-phosphatase; phosphatase,
hydrolase; 1.03A {Staphylococcus aureus}
Length = 158
Score = 28.2 bits (64), Expect = 2.6
Identities = 7/37 (18%), Positives = 16/37 (43%)
Query: 87 VTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLRE 123
++ IVA + N+ +++ L ++ L E
Sbjct: 78 FEATDDFDYIVAMDQSNVDNIKSINPNLKGQLFKLLE 114
>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP;
2.37A {Humulus lupulus}
Length = 339
Score = 29.1 bits (65), Expect = 2.7
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 243 AQPKGVLLYGPPGTGKTLLARAVAHH 268
+ K ++L G GTGK+ L+ +A H
Sbjct: 38 RKEKLLVLMGATGTGKSRLSIDLAAH 63
>2v66_B Nuclear distribution protein NUDE-like 1; structural protein,
developmental protein, structural protei
phosphorylation, transport, microtubule; 2.10A {Homo
sapiens}
Length = 111
Score = 27.6 bits (61), Expect = 2.7
Identities = 8/44 (18%), Positives = 18/44 (40%), Gaps = 3/44 (6%)
Query: 88 TKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
+ L+ E E +L+ Q + +V +L ++L +
Sbjct: 10 ADNQRLK---YEVEALKEKLEHQYAQSYKQVSVLEDDLSQTRAI 50
>1lwu_C Fibrinogen gamma chain; heterotrimer, protein-peptide complex,
blood clotting; HET: NDG MAN NAG BMA GAL; 2.80A
{Petromyzon marinus} SCOP: d.171.1.1 h.1.8.1 PDB:
1n73_C*
Length = 323
Score = 29.0 bits (65), Expect = 2.8
Identities = 8/32 (25%), Positives = 15/32 (46%)
Query: 88 TKIEELQLIVAEKEQNLRRLQAQRNELNAKVR 119
+I+EL + +Q + RLQ Q ++
Sbjct: 26 AQIQELSEMWRVNQQFVTRLQQQLVDIRQTCS 57
>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A
{Coxiella burnetii}
Length = 185
Score = 28.3 bits (64), Expect = 2.9
Identities = 8/29 (27%), Positives = 12/29 (41%)
Query: 246 KGVLLYGPPGTGKTLLARAVAHHTECTFI 274
+ L G G GKT + +A T+
Sbjct: 6 TNIYLIGLMGAGKTSVGSQLAKLTKRILY 34
>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial
conjugation, F1-ATPase-like quaternary structure, ring
helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB:
1e9s_A 1gki_A* 1gl7_A* 1gl6_A*
Length = 437
Score = 28.7 bits (64), Expect = 3.0
Identities = 9/46 (19%), Positives = 20/46 (43%), Gaps = 5/46 (10%)
Query: 219 QIKEIKEVIELPVKHPELFDALGIAQPK-----GVLLYGPPGTGKT 259
+I ++ + + + G+ P+ +L+ G GTGK+
Sbjct: 22 RIVSGGKLKRMTREKAKQVTVAGVPMPRDAEPRHLLVNGATGTGKS 67
>2vli_A Antibiotic resistance protein; transferase, tunicamycin,
phosphotransferase; 1.95A {Deinococcus radiodurans}
Length = 183
Score = 28.4 bits (63), Expect = 3.2
Identities = 7/24 (29%), Positives = 11/24 (45%)
Query: 243 AQPKGVLLYGPPGTGKTLLARAVA 266
+ + + GP G GKT A +
Sbjct: 3 MRSPIIWINGPFGVGKTHTAHTLH 26
>1nkp_B MAX protein, MYC proto-oncogene protein; transcription, DNA, BHLHZ,
heterodimer, transcription/DNA complex; 1.80A {Homo
sapiens} SCOP: a.38.1.1 PDB: 1an2_A* 1r05_A 1nlw_B
Length = 83
Score = 27.0 bits (60), Expect = 3.2
Identities = 4/29 (13%), Positives = 13/29 (44%)
Query: 101 EQNLRRLQAQRNELNAKVRMLREELQLLQ 129
+ Q ++L + +L ++++ L
Sbjct: 53 RRKNHTHQQDIDDLKRQNALLEQQVRALG 81
Score = 26.2 bits (58), Expect = 5.0
Identities = 8/33 (24%), Positives = 16/33 (48%)
Query: 90 IEELQLIVAEKEQNLRRLQAQRNELNAKVRMLR 122
I+ ++ +Q++ L+ Q L +VR L
Sbjct: 49 IQYMRRKNHTHQQDIDDLKRQNALLEQQVRALG 81
>2wja_A Putative acid phosphatase WZB; hydrolase; 2.50A {Escherichia coli}
Length = 168
Score = 27.9 bits (63), Expect = 3.3
Identities = 5/31 (16%), Positives = 12/31 (38%)
Query: 95 LIVAEKEQNLRRLQAQRNELNAKVRMLREEL 125
L++ + +L ++ E K + L
Sbjct: 102 LLLVMEYSHLEQISRIAPEARGKTMLFGHWL 132
>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR;
HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB:
1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*
Length = 262
Score = 28.5 bits (63), Expect = 3.5
Identities = 8/26 (30%), Positives = 11/26 (42%)
Query: 245 PKGVLLYGPPGTGKTLLARAVAHHTE 270
V+ G G+GKT L + E
Sbjct: 14 SMIVVFVGTAGSGKTTLTGEFGRYLE 39
>2wmy_A WZB, putative acid phosphatase WZB; hydrolase; 2.21A {Escherichia
coli}
Length = 150
Score = 27.8 bits (63), Expect = 3.6
Identities = 5/31 (16%), Positives = 12/31 (38%)
Query: 95 LIVAEKEQNLRRLQAQRNELNAKVRMLREEL 125
L++ + +L ++ E K + L
Sbjct: 84 LLLVMEYSHLEQISRIAPEARGKTMLFGHWL 114
>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system
kinase, STRU genomics, joint center for structural
genomics, JCSG; 1.95A {Silicibacter SP}
Length = 208
Score = 28.1 bits (63), Expect = 3.7
Identities = 7/25 (28%), Positives = 12/25 (48%)
Query: 252 GPPGTGKTLLARAVAHHTECTFIRV 276
G PG+GK+ L+ +A +
Sbjct: 29 GAPGSGKSTLSNPLAAALSAQGLPA 53
>2efr_A General control protein GCN4 and tropomyosin 1 Al; destabilizing
cluster, hydrophobic core, contractIle protein; 1.80A
{Saccharomyces cerevisiae} PDB: 2efs_A 2d3e_A
Length = 155
Score = 27.6 bits (61), Expect = 3.9
Identities = 12/58 (20%), Positives = 23/58 (39%)
Query: 89 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKK 146
K L+ VA ++ L R + + K L EEL+ + + + +K+
Sbjct: 15 KNYHLENEVARLKKLLERAEERAELSEGKSAELEEELKTVTNNLKSLEAQAEKYSQKE 72
>2fek_A Low molecular weight protein-tyrosine- phosphatase WZB; phosphate
binding, hydrolase; NMR {Escherichia coli K12}
Length = 167
Score = 27.9 bits (63), Expect = 4.0
Identities = 7/29 (24%), Positives = 15/29 (51%)
Query: 95 LIVAEKEQNLRRLQAQRNELNAKVRMLRE 123
LI+ +++++ RL E+ KV +
Sbjct: 98 LILTMEKRHIERLCEMAPEMRGKVMLFGH 126
>1hjb_A Ccaat/enhancer binding protein beta; transcription/DNA, protein-DNA
complex; HET: DNA; 3.0A {Homo sapiens} SCOP: h.1.3.1
Length = 87
Score = 26.5 bits (58), Expect = 4.5
Identities = 10/30 (33%), Positives = 13/30 (43%)
Query: 99 EKEQNLRRLQAQRNELNAKVRMLREELQLL 128
E + + L A+ L KV L EL L
Sbjct: 40 ETQHKVLELTAENERLQKKVEQLSRELSTL 69
>3bos_A Putative DNA replication factor; P-loop containing nucleoside
triphosphate hydrolases, struct genomics; HET: MSE CDP;
1.75A {Shewanella amazonensis} PDB: 3sc3_A
Length = 242
Score = 28.0 bits (63), Expect = 4.5
Identities = 7/19 (36%), Positives = 10/19 (52%)
Query: 250 LYGPPGTGKTLLARAVAHH 268
L+GP +G+T L A
Sbjct: 57 LWGPVKSGRTHLIHAACAR 75
>2gi4_A Possible phosphotyrosine protein phosphatase; low molecular weight,
protein tyrosine phosphatase, bacterial phosphatase; NMR
{Campylobacter jejuni}
Length = 156
Score = 27.4 bits (62), Expect = 4.7
Identities = 3/29 (10%), Positives = 9/29 (31%)
Query: 95 LIVAEKEQNLRRLQAQRNELNAKVRMLRE 123
++ N + + KV + +
Sbjct: 84 FLITMDNSNFKNVLKNFTNTQNKVLKITD 112
>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 = 28.3 bits (64), Expect = 4.7
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 243 AQPKGVLLYGPPGTGKTLLARAVAHH 268
+ P + L GP GKT LA A+A
Sbjct: 3 SLPPAIFLMGPTAAGKTDLAMALADA 28
>3l7i_A Teichoic acid biosynthesis protein F; GT-B fold, monotopic membrane
protein, structural protein; 2.70A {Staphylococcus
epidermidis} PDB: 3l7j_A 3l7k_A* 3l7l_A* 3l7m_A*
Length = 729
Score = 28.4 bits (63), Expect = 5.0
Identities = 6/38 (15%), Positives = 16/38 (42%), Gaps = 10/38 (26%)
Query: 143 DKKKVLVKVHP----------EGKFVVDIDKNIDINDV 170
D +L+++H F +D+ D++++
Sbjct: 575 DDYVILLRMHYLISNALDLSGYENFAIDVSNYNDVSEL 612
>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A
{Campylobacter jejuni} SCOP: c.37.1.2
Length = 175
Score = 27.5 bits (62), Expect = 5.1
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 246 KGVLLYGPPGTGKTLLARAVAHHTECTFI 274
K ++ G G+GK+ LARA+A + F+
Sbjct: 5 KNIVFIGFMGSGKSTLARALAKDLDLVFL 33
>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 = 27.8 bits (61), Expect = 6.5
Identities = 13/63 (20%), Positives = 29/63 (46%), Gaps = 11/63 (17%)
Query: 94 QLIVAEKEQNLRRLQAQRNELNAKVRMLREEL----------QLLQEQGSYVGEVVKPMD 143
+ + + ++ + Q ++ +L K + L +E+ +LLQ QGS G + +
Sbjct: 362 KELHEKFDRLKKLHQDEKKKLEDKKKSLDDEVNAFKQRKTAAELLQSQGSQAGG-SQTLK 420
Query: 144 KKK 146
+ K
Sbjct: 421 RDK 423
>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 = 27.9 bits (63), Expect = 6.6
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 3/37 (8%)
Query: 252 GPPGTGKTLLARAVAHH---TECTFIRVSGSELVQKF 285
GP G GKT LA+ +A TE IR+ +E ++K
Sbjct: 595 GPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKH 631
>2cvh_A DNA repair and recombination protein RADB; filament formation,
homologous recombination, ATPase domain,
hyperthermophIle; HET: DNA; 2.20A {Thermococcus
kodakarensis} PDB: 2cvf_A*
Length = 220
Score = 27.5 bits (62), Expect = 6.6
Identities = 9/33 (27%), Positives = 12/33 (36%)
Query: 248 VLLYGPPGTGKTLLARAVAHHTECTFIRVSGSE 280
+YGP +GKT LA + V
Sbjct: 23 TQVYGPYASGKTTLALQTGLLSGKKVAYVDTEG 55
>3kx0_X Uncharacterized protein RV1364C/MT1410; PAS domain, sensory domain,
mycobacteium tuberculos molecule binding domain; 2.30A
{Mycobacterium tuberculosis}
Length = 185
Score = 27.3 bits (61), Expect = 6.6
Identities = 7/34 (20%), Positives = 19/34 (55%)
Query: 97 VAEKEQNLRRLQAQRNELNAKVRMLREELQLLQE 130
V + + + +A+ EL+ + R +R+ ++Q+
Sbjct: 152 VTSRVRARQAAEARVEELSERYRNVRDSATVMQQ 185
>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A
{Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A
3n2e_A*
Length = 168
Score = 27.1 bits (61), Expect = 7.2
Identities = 7/29 (24%), Positives = 16/29 (55%)
Query: 246 KGVLLYGPPGTGKTLLARAVAHHTECTFI 274
+ ++L G G+GK+ LA+ + + +
Sbjct: 8 QHLVLIGFMGSGKSSLAQELGLALKLEVL 36
>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA
binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A
{Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A*
2zuc_A* 2zud_A*
Length = 324
Score = 27.4 bits (61), Expect = 7.2
Identities = 29/166 (17%), Positives = 56/166 (33%), Gaps = 21/166 (12%)
Query: 221 KEIKEVIELPVKHPELFDALGIAQPKGVL--LYGPPGTGKTLLARAVAHHTECTF-IRVS 277
KE V ++ L L + +G G+GKT L ++
Sbjct: 81 KERMNVKKISTGSQALDGLLAGGIETRTMTEFFGEFGSGKTQLCHQLS--VNVQLPPEKG 138
Query: 278 GSELVQKFI-GEGSRMVRELFVMAS---------LKKLAFAHHPLLFWSLLTILTNTIVC 327
G +I EG+ + MA + + + + I+ +
Sbjct: 139 GLSGKAVYIDTEGTFRWERIENMAKALGLDIDNVMNNIYYIRAINTD-HQIAIVDDLQEL 197
Query: 328 NFREHAPSIIFMDEIDSIGSS-RIE-SGSGGDSEVQRTMLELLNQL 371
++ + +I +DS+ S R E G + Q+ + + L+QL
Sbjct: 198 VSKDPSIKLIV---VDSVTSHFRAEYPGRENLAVRQQKLNKHLHQL 240
>1ytz_I Troponin I; muscle, THIN filament, actin binding, calcium,
contractIle protein; HET: DR6; 3.00A {Gallus gallus}
SCOP: h.1.25.2 PDB: 2w49_2 2w4u_2 1yv0_I 1vdi_A 1vdj_A
Length = 182
Score = 27.2 bits (60), Expect = 7.4
Identities = 12/69 (17%), Positives = 32/69 (46%), Gaps = 4/69 (5%)
Query: 90 IEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQ-LLQEQGSYVGEVVKPMDKKKVL 148
++ELQ + + + + +R + K++ +EL+ L Q+ G+ +P ++
Sbjct: 57 MQELQELSKKLHAKIDSVDEERYDTEVKLQKTNKELEDLSQKLFDLRGKFKRPPLRR--- 113
Query: 149 VKVHPEGKF 157
V++ +
Sbjct: 114 VRMSADAML 122
>2xdj_A Uncharacterized protein YBGF; unknown function; 1.82A {Escherichia
coli} PDB: 2wz7_A
Length = 83
Score = 25.7 bits (56), Expect = 7.5
Identities = 12/44 (27%), Positives = 23/44 (52%)
Query: 88 TKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
++ +L+ I Q L +LQ Q ++ + + LR ++Q Q Q
Sbjct: 6 DRVTQLERISNAHSQLLTQLQQQLSDNQSDIDSLRGQIQENQYQ 49
>2dq0_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; HET: SSA; 2.60A {Pyrococcus
horikoshii} PDB: 2dq1_A* 2dq2_A 2zr2_A* 2zr3_A
Length = 455
Score = 27.6 bits (62), Expect = 8.0
Identities = 16/102 (15%), Positives = 39/102 (38%), Gaps = 18/102 (17%)
Query: 47 RMVRELFVMARCKGSSRGTEFFTMDVDEAIKSSEGFKPYYVTKIEELQLIVAEKEQNLRR 106
+++RE + + RG VDE +K E + + E +
Sbjct: 5 KLIRENPELVKNDLIKRGELEKVKWVDEILKLDT-----------EWRTKLKEINR---- 49
Query: 107 LQAQRNELNAKVRMLR---EELQLLQEQGSYVGEVVKPMDKK 145
L+ +RN++ ++ R E + L + + + + ++ +
Sbjct: 50 LRHERNKIAVEIGKRRKKGEPVDELLAKSREIVKRIGELENE 91
>1l8q_A Chromosomal replication initiator protein DNAA; AAA+,
helix-turn-helix, nucleotide-binding, DNA binding, REP
initiation, DNA binding protein; HET: ADP; 2.70A
{Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A*
2hcb_A*
Length = 324
Score = 27.5 bits (62), Expect = 8.1
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 250 LYGPPGTGKTLLARAVAHH 268
+YG GTGKT L +A +
Sbjct: 42 IYGSVGTGKTHLLQAAGNE 60
>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 = 27.5 bits (62), Expect = 8.1
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 243 AQPKGVLLYGPPGTGKTLLARAVAHH 268
+ PK + L GP +GKT LA +
Sbjct: 8 SLPKAIFLMGPTASGKTALAIELRKI 33
>2aze_A Transcription factor DP-1; coiled coil, beta sandwich, cell cycle,
transcription; 2.55A {Homo sapiens} SCOP: e.63.1.1
Length = 155
Score = 26.9 bits (59), Expect = 8.2
Identities = 8/34 (23%), Positives = 16/34 (47%)
Query: 98 AEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
E Q + L+ +R +++ + +LQ L Q
Sbjct: 1 GEFAQECQNLEVERQRRLERIKQKQSQLQELILQ 34
>3lss_A Seryl-tRNA synthetase; aminoacyl-tRNA synthetase, tRNA ligase,
AARS, serrs, translation, ATP-binding,
nucleotide-binding, structural genomics; HET: ATP; 1.95A
{Trypanosoma brucei} PDB: 3lsq_A*
Length = 484
Score = 27.3 bits (61), Expect = 8.5
Identities = 20/179 (11%), Positives = 51/179 (28%), Gaps = 23/179 (12%)
Query: 74 EAIKSSE---GFKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQE 130
I+ S+ P V I E + + N + V ++ + +
Sbjct: 20 NIIRESQRRRFADPDIVDAIIEADKKWRRTQFLTEASKKLINICSKAVGAKKKAKEADGD 79
Query: 131 QGSYVGEVVKPMDKKKVLVKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKIL- 189
+V + + + + + + + D++D + K++
Sbjct: 80 TSEIPPQVKEAYENGTLKGEQVEQLCVLQLKQLSKDLSDQVAGLAKEAQQLEEERDKLML 139
Query: 190 --PNKVDPLVSLMMVEKVPDSTYEMVGGLDNQIKEIK---EVIELPVK-HPELFDALGI 242
N + E VP + E + ++ + H + + LG+
Sbjct: 140 NVGNILH--------ESVPIAQDE-----ETGNTVVRTFGNTTKRAKLNHVSIMERLGM 185
>3vaa_A Shikimate kinase, SK; structural genomics, center for structural
genomics of infec diseases, csgid, metal binding,
transferase; 1.70A {Bacteroides thetaiotaomicron}
Length = 199
Score = 26.8 bits (60), Expect = 9.1
Identities = 11/29 (37%), Positives = 13/29 (44%)
Query: 246 KGVLLYGPPGTGKTLLARAVAHHTECTFI 274
+ L G G GKT L +A A FI
Sbjct: 26 VRIFLTGYMGAGKTTLGKAFARKLNVPFI 54
>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle
protein; 2.50A {Gallus gallus}
Length = 101
Score = 26.0 bits (57), Expect = 9.2
Identities = 7/45 (15%), Positives = 22/45 (48%)
Query: 87 VTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
+ + E+ + + E ++L+ ++ L K++ +E++ E
Sbjct: 22 IDRAEQAEADKKQAEDRCKQLEEEQQGLQKKLKGTEDEVEKYSES 66
>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP
hydrolysis, GDP, GMP, dynamin related, large GTPase
family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens}
SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A*
2bc9_A* 2d4h_A*
Length = 592
Score = 27.2 bits (59), Expect = 9.5
Identities = 10/43 (23%), Positives = 22/43 (51%), Gaps = 2/43 (4%)
Query: 89 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 131
++E + +A K Q +L + + R+++ E+Q LQ +
Sbjct: 542 LLKEQERTLALKLQEQEQLLKE--GFQKESRIMKNEIQDLQTK 582
>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain
III (ATPase domain), ATP-binding, cytoplasm, DNA
replication; HET: ADP; 3.00A {Thermotoga maritima} PDB:
2z4r_A*
Length = 440
Score = 27.2 bits (61), Expect = 9.9
Identities = 7/20 (35%), Positives = 13/20 (65%)
Query: 249 LLYGPPGTGKTLLARAVAHH 268
+YG G GKT L +++ ++
Sbjct: 134 FIYGGVGLGKTHLLQSIGNY 153
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
0.320 0.136 0.389
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: 5,896,451
Number of extensions: 366483
Number of successful extensions: 1528
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1460
Number of HSP's successfully gapped: 325
Length of query: 378
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 283
Effective length of database: 4,049,298
Effective search space: 1145951334
Effective search space used: 1145951334
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 58 (26.0 bits)