RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11689
(390 letters)
>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational
modification, protein turnover, chaperones].
Length = 494
Score = 107 bits (268), Expect = 2e-25
Identities = 50/149 (33%), Positives = 84/149 (56%), Gaps = 1/149 (0%)
Query: 100 IELREGGQRNGGEGGIGLNERVQRIGEGREERRDWEGEEEGAFVPELGGLKGVRALMEKT 159
ELR G G+ ++ + + + R +E+ ++GGL+ + +++
Sbjct: 199 RELRRAIDLVGEYIGVTEDDFEEALKKVLPSRGVLFEDEDVTLD-DIGGLEEAKEELKEA 257
Query: 160 VEWPFKYAREFERLAIPKPKGILLYGPPGCAKTSLVRTLAAHSVYRVLAASAAQLYSPYV 219
+E P K F +L + PKG+LLYGPPG KT L + +A S R ++ ++L S +V
Sbjct: 258 IETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGSELLSKWV 317
Query: 220 GEAEQNVTQLFHRARLAAPAILFIDEIER 248
GE+E+N+ +LF +AR AP+I+FIDEI+
Sbjct: 318 GESEKNIRELFEKARKLAPSIIFIDEIDS 346
Score = 60.2 bits (146), Expect = 6e-10
Identities = 38/84 (45%), Positives = 51/84 (60%), Gaps = 1/84 (1%)
Query: 163 PFKYAREFERLAIPKPKGILLYGPPGCAKTSLVRTLAAHSVYRVLAASAAQLYSPYVGEA 222
P K F++L I PKG+LL+GPPG KT L R LA L+ + ++ S YVGE+
Sbjct: 3 PLKEPELFKKLGIEPPKGVLLHGPPGTGKTLLARALANEGAEF-LSINGPEILSKYVGES 61
Query: 223 EQNVTQLFHRARLAAPAILFIDEI 246
E + +LF A AP+I+FIDEI
Sbjct: 62 ELRLRELFEEAEKLAPSIIFIDEI 85
>gnl|CDD|233328 TIGR01243, CDC48, AAA family ATPase, CDC48 subfamily. This
subfamily of the AAA family ATPases includes two members
each from three archaeal species. It also includes yeast
CDC48 (cell division control protein 48) and the human
ortholog, transitional endoplasmic reticulum ATPase
(valosin-containing protein). These proteins in
eukaryotes are involved in the budding and transfer of
membrane from the transitional endoplasmic reticulum to
the Golgi apparatus.
Length = 733
Score = 99 bits (249), Expect = 1e-22
Identities = 44/103 (42%), Positives = 69/103 (66%)
Query: 145 ELGGLKGVRALMEKTVEWPFKYAREFERLAIPKPKGILLYGPPGCAKTSLVRTLAAHSVY 204
++GGL+ V+ + + VEWP K+ FE++ I PKG+LL+GPPG KT L + +A S
Sbjct: 454 DIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGA 513
Query: 205 RVLAASAAQLYSPYVGEAEQNVTQLFHRARLAAPAILFIDEIE 247
+A ++ S +VGE+E+ + ++F +AR AAPAI+F DEI+
Sbjct: 514 NFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEID 556
Score = 88.0 bits (218), Expect = 8e-19
Identities = 45/116 (38%), Positives = 68/116 (58%), Gaps = 5/116 (4%)
Query: 137 EEEGAFVPE-----LGGLKGVRALMEKTVEWPFKYAREFERLAIPKPKGILLYGPPGCAK 191
EE VP+ +GGLK + + + VE P K+ FE L I PKG+LLYGPPG K
Sbjct: 166 EEIERKVPKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGK 225
Query: 192 TSLVRTLAAHSVYRVLAASAAQLYSPYVGEAEQNVTQLFHRARLAAPAILFIDEIE 247
T L + +A + ++ + ++ S Y GE+E+ + ++F A AP+I+FIDEI+
Sbjct: 226 TLLAKAVANEAGAYFISINGPEIMSKYYGESEERLREIFKEAEENAPSIIFIDEID 281
>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 406
Score = 86.6 bits (215), Expect = 1e-18
Identities = 43/101 (42%), Positives = 58/101 (57%), Gaps = 2/101 (1%)
Query: 147 GGLKG-VRALMEKTVEWPFKYAREFERLAIPKPKGILLYGPPGCAKTSLVRTLAAHSVYR 205
GGL ++ + E VE P K FE L I PKG+LLYGPPG KT L + +A +
Sbjct: 154 GGLDEQIQEIRE-VVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDAT 212
Query: 206 VLAASAAQLYSPYVGEAEQNVTQLFHRARLAAPAILFIDEI 246
+ ++L Y+GE + V +LF AR AP+I+FIDEI
Sbjct: 213 FIRVVGSELVQKYIGEGARLVRELFELAREKAPSIIFIDEI 253
>gnl|CDD|215649 pfam00004, AAA, ATPase family associated with various cellular
activities (AAA). AAA family proteins often perform
chaperone-like functions that assist in the assembly,
operation, or disassembly of protein complexes.
Length = 131
Score = 80.7 bits (200), Expect = 1e-18
Identities = 29/68 (42%), Positives = 44/68 (64%)
Query: 181 ILLYGPPGCAKTSLVRTLAAHSVYRVLAASAAQLYSPYVGEAEQNVTQLFHRARLAAPAI 240
+LLYGPPG KT+L + +A + S ++L S YVGE+E+ + +LF A+ AP +
Sbjct: 1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCV 60
Query: 241 LFIDEIER 248
+FIDEI+
Sbjct: 61 IFIDEIDA 68
>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase;
Provisional.
Length = 389
Score = 81.0 bits (201), Expect = 7e-17
Identities = 42/101 (41%), Positives = 59/101 (58%), Gaps = 2/101 (1%)
Query: 147 GGLKG-VRALMEKTVEWPFKYAREFERLAIPKPKGILLYGPPGCAKTSLVRTLAAHSVYR 205
GGL+ +R + E VE P K FE + I PKG+LLYGPPG KT L + +A +
Sbjct: 134 GGLEEQIREVRE-AVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNAT 192
Query: 206 VLAASAAQLYSPYVGEAEQNVTQLFHRARLAAPAILFIDEI 246
+ ++L ++GE + V +LF AR AP+I+FIDEI
Sbjct: 193 FIRVVGSELVQKFIGEGARLVRELFELAREKAPSIIFIDEI 233
>gnl|CDD|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family. Many
proteins may score above the trusted cutoff because an
internal.
Length = 364
Score = 80.6 bits (199), Expect = 9e-17
Identities = 40/111 (36%), Positives = 62/111 (55%)
Query: 137 EEEGAFVPELGGLKGVRALMEKTVEWPFKYAREFERLAIPKPKGILLYGPPGCAKTSLVR 196
E ++GGL+ + + VE P K+ FE + I PKG+LLYGPPG KT L +
Sbjct: 115 ERPNVSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAK 174
Query: 197 TLAAHSVYRVLAASAAQLYSPYVGEAEQNVTQLFHRARLAAPAILFIDEIE 247
+A + + ++L Y+GE + V ++F A+ AP+I+FIDEI+
Sbjct: 175 AVAHETNATFIRVVGSELVRKYIGEGARLVREIFELAKEKAPSIIFIDEID 225
>gnl|CDD|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like
protein; Provisional.
Length = 398
Score = 79.0 bits (195), Expect = 4e-16
Identities = 40/123 (32%), Positives = 66/123 (53%)
Query: 145 ELGGLKGVRALMEKTVEWPFKYAREFERLAIPKPKGILLYGPPGCAKTSLVRTLAAHSVY 204
++GGL + + + VE P +E++ I P+G+LLYGPPG KT L + +A H+
Sbjct: 146 DIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTA 205
Query: 205 RVLAASAAQLYSPYVGEAEQNVTQLFHRARLAAPAILFIDEIERTYNCEYREQTADNAKK 264
+ ++ Y+GE + V +F AR AP+I+FIDE++ + QT + +
Sbjct: 206 TFIRVVGSEFVQKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREV 265
Query: 265 PRI 267
RI
Sbjct: 266 QRI 268
>gnl|CDD|99707 cd00009, AAA, The AAA+ (ATPases Associated with a wide variety of
cellular Activities) superfamily represents an ancient
group of ATPases belonging to the ASCE (for additional
strand, catalytic E) division of the P-loop NTPase fold.
The ASCE division also includes ABC, RecA-like,
VirD4-like, PilT-like, and SF1/2 helicases. Members of
the AAA+ ATPases function as molecular chaperons, ATPase
subunits of proteases, helicases, or nucleic-acid
stimulated ATPases. The AAA+ proteins contain several
distinct features in addition to the conserved
alpha-beta-alpha core domain structure and the Walker A
and B motifs of the P-loop NTPases.
Length = 151
Score = 69.9 bits (171), Expect = 2e-14
Identities = 33/89 (37%), Positives = 41/89 (46%), Gaps = 6/89 (6%)
Query: 166 YAREFERLAIPKPKGILLYGPPGCAKTSLVRTLAAHSV---YRVLAASAAQLYSPYVGEA 222
E L +P PK +LLYGPPG KT+L R +A L +A+ L V
Sbjct: 7 IEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAE 66
Query: 223 EQN---VTQLFHRARLAAPAILFIDEIER 248
V LF A A P +LFIDEI+
Sbjct: 67 LFGHFLVRLLFELAEKAKPGVLFIDEIDS 95
>gnl|CDD|200312 TIGR03689, pup_AAA, proteasome ATPase. In the Actinobacteria, as
shown for Mycobacterium tuberculosis, some proteins are
modified by ligation between an epsilon-amino group of a
lysine side chain and the C-terminal carboxylate of the
ubiquitin-like protein Pup. This modification leads to
protein degradation by the archaeal-like proteasome
found in the Actinobacteria. Members of this protein
family belong to the AAA family of ATPases and tend to
be clustered with the genes for Pup, the Pup ligase
PafA, and structural components of the proteasome. This
protein forms hexameric rings with ATPase activity
[Protein fate, Degradation of proteins, peptides, and
glycopeptides].
Length = 512
Score = 73.2 bits (180), Expect = 4e-14
Identities = 42/122 (34%), Positives = 58/122 (47%), Gaps = 24/122 (19%)
Query: 145 ELGGLKGVRALMEKTVEWPFKYAREFERLAIPKPKGILLYGPPGCAKTSLVRTLAAHSVY 204
++GGL + VE PF + + + PKG+LLYGPPGC K TL A +V
Sbjct: 183 DIGGLGSQIEQIRDAVELPFLHPELYREYGLKPPKGVLLYGPPGCGK-----TLIAKAVA 237
Query: 205 RVLAASAA---------------QLYSPYVGEAEQNVTQLFHRARLAA----PAILFIDE 245
LAA +L + YVGE E+ + +F RAR A P I+F DE
Sbjct: 238 NSLAARIGAEGGGKSYFLNIKGPELLNKYVGETERQIRLIFQRAREKASEGRPVIVFFDE 297
Query: 246 IE 247
++
Sbjct: 298 MD 299
>gnl|CDD|185575 PTZ00361, PTZ00361, 26 proteosome regulatory subunit 4-like
protein; Provisional.
Length = 438
Score = 71.0 bits (174), Expect = 2e-13
Identities = 48/153 (31%), Positives = 73/153 (47%), Gaps = 23/153 (15%)
Query: 145 ELGGLKGVRALMEKTVEWPFKYAREFERLAIPKPKGILLYGPPGCAKTSLVRTLAAHSVY 204
++GGL+ +++ VE P + ++ + I PKG++LYGPPG KT L + +A +
Sbjct: 184 DIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSA 243
Query: 205 RVLAASAAQLYSPYVGEAEQNVTQLFHRARLAAPAILFIDEIERTYNCEYREQTADNAKK 264
L ++L Y+G+ + V +LF A AP+I+FIDEI D
Sbjct: 244 TFLRVVGSELIQKYLGDGPKLVRELFRVAEENAPSIVFIDEI-------------DAIGT 290
Query: 265 PRIPRTNGGYREQTADTANKPRIQRTKREYREQ 297
R T+GG +E IQRT E Q
Sbjct: 291 KRYDATSGGEKE----------IQRTMLELLNQ 313
>gnl|CDD|224144 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 368
Score = 70.6 bits (173), Expect = 2e-13
Identities = 32/83 (38%), Positives = 48/83 (57%)
Query: 165 KYAREFERLAIPKPKGILLYGPPGCAKTSLVRTLAAHSVYRVLAASAAQLYSPYVGEAEQ 224
+Y ER PK +L YGPPG KT + + LA + +L A +L +VG+ +
Sbjct: 138 EYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATELIGEHVGDGAR 197
Query: 225 NVTQLFHRARLAAPAILFIDEIE 247
+ +L+ RAR AAP I+FIDE++
Sbjct: 198 RIHELYERARKAAPCIVFIDELD 220
>gnl|CDD|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed.
Length = 644
Score = 61.2 bits (148), Expect = 4e-10
Identities = 32/86 (37%), Positives = 47/86 (54%), Gaps = 3/86 (3%)
Query: 165 KYARE---FERLAIPKPKGILLYGPPGCAKTSLVRTLAAHSVYRVLAASAAQLYSPYVGE 221
+Y RE F++L PKG+L+ GPPG KT L + +A + S + +VG
Sbjct: 169 EYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGV 228
Query: 222 AEQNVTQLFHRARLAAPAILFIDEIE 247
V +F +A+ AAP I+FIDEI+
Sbjct: 229 GASRVRDMFEQAKKAAPCIIFIDEID 254
>gnl|CDD|233327 TIGR01241, FtsH_fam, ATP-dependent metalloprotease FtsH.
HflB(FtsH) is a pleiotropic protein required for correct
cell division in bacteria. It has ATP-dependent zinc
metalloprotease activity. It was formerly designated
cell division protein FtsH [Cellular processes, Cell
division, Protein fate, Degradation of proteins,
peptides, and glycopeptides].
Length = 495
Score = 59.2 bits (144), Expect = 1e-09
Identities = 31/83 (37%), Positives = 44/83 (53%)
Query: 165 KYAREFERLAIPKPKGILLYGPPGCAKTSLVRTLAAHSVYRVLAASAAQLYSPYVGEAEQ 224
K +F +L PKG+LL GPPG KT L + +A + + S + +VG
Sbjct: 75 KNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVGVGAS 134
Query: 225 NVTQLFHRARLAAPAILFIDEIE 247
V LF +A+ AP I+FIDEI+
Sbjct: 135 RVRDLFEQAKKNAPCIIFIDEID 157
>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular
activities. AAA - ATPases associated with a variety of
cellular activities. This profile/alignment only detects
a fraction of this vast family. The poorly conserved
N-terminal helix is missing from the alignment.
Length = 148
Score = 52.4 bits (125), Expect = 2e-08
Identities = 22/89 (24%), Positives = 30/89 (33%), Gaps = 17/89 (19%)
Query: 177 KPKGILLYGPPGCAKTSLVRTLAAHSV---YRVLAASAAQLYS--------------PYV 219
+ IL+ GPPG KT+L R LA V+ +
Sbjct: 1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKAS 60
Query: 220 GEAEQNVTQLFHRARLAAPAILFIDEIER 248
G E + AR P +L +DEI
Sbjct: 61 GSGELRLRLALALARKLKPDVLILDEITS 89
>gnl|CDD|223541 COG0465, HflB, ATP-dependent Zn proteases [Posttranslational
modification, protein turnover, chaperones].
Length = 596
Score = 55.0 bits (133), Expect = 4e-08
Identities = 43/134 (32%), Positives = 59/134 (44%), Gaps = 21/134 (15%)
Query: 151 GVRALMEKTVEW--PFKYAREFERLAIPKPKGILLYGPPGCAKTSLVRTLA--AHSVYRV 206
GV E+ E K ++++ L PKG+LL GPPG KT L + +A A V
Sbjct: 154 GVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAG-VPFF 212
Query: 207 LAASAAQLYSPYVGEAEQNVTQLFHRARLAAPAILFIDEIERTYNCEYREQTADNAKKPR 266
+ + + +VG V LF +A+ AP I+FIDEI D + R
Sbjct: 213 SISGSDFVEM-FVGVGASRVRDLFEQAKKNAPCIIFIDEI-------------DAVGRQR 258
Query: 267 IPRTNGG--YREQT 278
GG REQT
Sbjct: 259 GAGLGGGNDEREQT 272
>gnl|CDD|214386 CHL00176, ftsH, cell division protein; Validated.
Length = 638
Score = 54.3 bits (131), Expect = 5e-08
Identities = 27/70 (38%), Positives = 40/70 (57%)
Query: 178 PKGILLYGPPGCAKTSLVRTLAAHSVYRVLAASAAQLYSPYVGEAEQNVTQLFHRARLAA 237
PKG+LL GPPG KT L + +A + + S ++ +VG V LF +A+ +
Sbjct: 216 PKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMFVGVGAARVRDLFKKAKENS 275
Query: 238 PAILFIDEIE 247
P I+FIDEI+
Sbjct: 276 PCIVFIDEID 285
>gnl|CDD|219536 pfam07724, AAA_2, AAA domain (Cdc48 subfamily). This Pfam entry
includes some of the AAA proteins not detected by the
pfam00004 model.
Length = 168
Score = 44.9 bits (107), Expect = 1e-05
Identities = 29/92 (31%), Positives = 36/92 (39%), Gaps = 28/92 (30%)
Query: 177 KPKG-ILLYGPPGCAKTSLVRTLA--------------------AHSVYRVLAASAAQLY 215
+P G L GP G KT L + LA HSV R++ A
Sbjct: 1 RPIGSFLFLGPTGVGKTELAKALAELLFGDERALIRIDMSEYMEEHSVSRLIGAPPG--- 57
Query: 216 SPYVGEAEQNVTQLFHRARLAAPAILFIDEIE 247
YVG E+ QL R +I+ IDEIE
Sbjct: 58 --YVG-YEEG-GQLTEAVRRKPYSIVLIDEIE 85
>gnl|CDD|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed.
Length = 413
Score = 45.1 bits (108), Expect = 4e-05
Identities = 25/72 (34%), Positives = 35/72 (48%), Gaps = 11/72 (15%)
Query: 181 ILLYGPPGCAKTSLVRTLAAHSVYRVLAASAAQLYSPYVGEAEQNVTQLFHRARLAAPA- 239
++L+GPPG KT+L R +A + A SA G + + ++ AR A
Sbjct: 39 MILWGPPGTGKTTLARIIAGATDAPFEALSAV-----TSGVKD--LREVIEEARQRRSAG 91
Query: 240 ---ILFIDEIER 248
ILFIDEI R
Sbjct: 92 RRTILFIDEIHR 103
>gnl|CDD|177094 CHL00195, ycf46, Ycf46; Provisional.
Length = 489
Score = 44.6 bits (106), Expect = 5e-05
Identities = 31/110 (28%), Positives = 55/110 (50%), Gaps = 11/110 (10%)
Query: 146 LGGLKGVRALMEKTVEWPFKYAREFERLA----IPKPKGILLYGPPGCAKTSLVRTLAAH 201
+GGL ++ +W K + F + A +P P+G+LL G G K+ + +A
Sbjct: 230 IGGLDNLK-------DWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIAND 282
Query: 202 SVYRVLAASAAQLYSPYVGEAEQNVTQLFHRARLAAPAILFIDEIERTYN 251
+L +L+ VGE+E + Q+ A +P IL+IDEI++ ++
Sbjct: 283 WQLPLLRLDVGKLFGGIVGESESRMRQMIRIAEALSPCILWIDEIDKAFS 332
>gnl|CDD|232949 TIGR00382, clpX, endopeptidase Clp ATP-binding regulatory subunit
(clpX). A member of the ATP-dependent proteases, ClpX
has ATP-dependent chaperone activity and is required for
specific ATP-dependent proteolytic activities expressed
by ClpPX. The gene is also found to be involved in
stress tolerance in Bacillus subtilis and is essential
for the efficient acquisition of genes specifying type
IA and IB restriction [Protein fate, Protein folding and
stabilization, Protein fate, Degradation of proteins,
peptides, and glycopeptides].
Length = 413
Score = 44.4 bits (105), Expect = 6e-05
Identities = 28/74 (37%), Positives = 36/74 (48%), Gaps = 6/74 (8%)
Query: 181 ILLYGPPGCAKTSLVRTLAAHSVYRVLAASAAQLYSP-YVGEAEQNV-TQLFHRA----R 234
ILL GP G KT L +TLA A A L YVGE +N+ +L A
Sbjct: 119 ILLIGPTGSGKTLLAQTLARILNVPFAIADATTLTEAGYVGEDVENILLKLLQAADYDVE 178
Query: 235 LAAPAILFIDEIER 248
A I++IDEI++
Sbjct: 179 KAQKGIIYIDEIDK 192
>gnl|CDD|223786 COG0714, COG0714, MoxR-like ATPases [General function prediction
only].
Length = 329
Score = 44.0 bits (104), Expect = 8e-05
Identities = 25/79 (31%), Positives = 29/79 (36%), Gaps = 10/79 (12%)
Query: 181 ILLYGPPGCAKTSLVRTLAAH---SVYRVLAAS---AAQLYSPYVGEAEQN--VTQLFHR 232
+LL GPPG KT L R LA R+ + L Y A F
Sbjct: 46 VLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLLPSDLLGTYAYAALLLEPGEFRFVP 105
Query: 233 ARL--AAPAILFIDEIERT 249
L A IL +DEI R
Sbjct: 106 GPLFAAVRVILLLDEINRA 124
>gnl|CDD|225165 COG2256, MGS1, ATPase related to the helicase subunit of the
Holliday junction resolvase [DNA replication,
recombination, and repair].
Length = 436
Score = 40.7 bits (96), Expect = 0.001
Identities = 23/70 (32%), Positives = 33/70 (47%), Gaps = 11/70 (15%)
Query: 183 LYGPPGCAKTSLVRTLAAHSVYRVLAASAAQLYSPYVGEAEQNVTQLFHRARLAAPA--- 239
L+GPPG KT+L R +A + A SA V +++ ++ AR
Sbjct: 53 LWGPPGTGKTTLARLIAGTTNAAFEALSA-------VTSGVKDLREIIEEARKNRLLGRR 105
Query: 240 -ILFIDEIER 248
ILF+DEI R
Sbjct: 106 TILFLDEIHR 115
>gnl|CDD|237354 PRK13341, PRK13341, recombination factor protein RarA/unknown
domain fusion protein; Reviewed.
Length = 725
Score = 40.4 bits (95), Expect = 0.001
Identities = 25/72 (34%), Positives = 37/72 (51%), Gaps = 12/72 (16%)
Query: 182 LLYGPPGCAKTSLVRTLAAHSVYRVLAASAA-----QLYSPYVGEAEQNVTQLFHRARLA 236
+LYGPPG KT+L R +A H+ + +A L + V A++ + + H R
Sbjct: 56 ILYGPPGVGKTTLARIIANHTRAHFSSLNAVLAGVKDLRAE-VDRAKERLER--HGKRT- 111
Query: 237 APAILFIDEIER 248
ILFIDE+ R
Sbjct: 112 ---ILFIDEVHR 120
>gnl|CDD|219538 pfam07728, AAA_5, AAA domain (dynein-related subfamily). This Pfam
entry includes some of the AAA proteins not detected by
the pfam00004 model.
Length = 135
Score = 37.7 bits (88), Expect = 0.002
Identities = 22/79 (27%), Positives = 28/79 (35%), Gaps = 12/79 (15%)
Query: 180 GILLYGPPGCAKTSLVRTLAAH---SVYRVLAASAA-------QLYSPYVGEAEQNVTQL 229
G+LL GPPG K+ L LAA + + + G A L
Sbjct: 1 GVLLVGPPGTGKSELAERLAAALSNRPVFYVQLTRDTTEEDLKGRRNIDPGGASWVDGPL 60
Query: 230 FHRARLAAPAILFIDEIER 248
AR I +DEI R
Sbjct: 61 VRAAREG--EIAVLDEINR 77
>gnl|CDD|235422 PRK05342, clpX, ATP-dependent protease ATP-binding subunit ClpX;
Provisional.
Length = 412
Score = 39.0 bits (92), Expect = 0.003
Identities = 28/79 (35%), Positives = 38/79 (48%), Gaps = 20/79 (25%)
Query: 181 ILLYGPPGCAKTSLVRTLAAHSVYRVL--------AASAAQLYSPYVGEAEQNV-TQLFH 231
ILL GP G KT L +TLA R+L A + + + YVGE +N+ +L
Sbjct: 111 ILLIGPTGSGKTLLAQTLA-----RILDVPFAIADATTLTE--AGYVGEDVENILLKLLQ 163
Query: 232 RA----RLAAPAILFIDEI 246
A A I++IDEI
Sbjct: 164 AADYDVEKAQRGIVYIDEI 182
>gnl|CDD|221970 pfam13191, AAA_16, AAA ATPase domain. This family of domains
contain a P-loop motif that is characteristic of the AAA
superfamily.
Length = 154
Score = 37.2 bits (86), Expect = 0.004
Identities = 20/76 (26%), Positives = 26/76 (34%), Gaps = 2/76 (2%)
Query: 170 FERLAIPKPKGILLYGPPGCAKTSLVRTLAAHSVYRVLAASAAQLYSPYVGEAEQNVTQL 229
R P +LL GP G KTSL+R L V A Q Q + +L
Sbjct: 16 LRRARSGGPPSVLLTGPSGTGKTSLLRELLEG--LLVAAGKCDQAERNPPYAFSQALREL 73
Query: 230 FHRARLAAPAILFIDE 245
+ A L +
Sbjct: 74 LRQLLRELAAELLLLR 89
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 36.5 bits (85), Expect = 0.005
Identities = 19/84 (22%), Positives = 28/84 (33%), Gaps = 16/84 (19%)
Query: 181 ILLYGPPGCAKTSLVRTLAA----HSVYRVLAAS-----------AAQL-YSPYVGEAEQ 224
+L G G KT+L+R LA V V A S L G +
Sbjct: 7 GVLTGESGSGKTTLLRRLARQLPNRRVVYVEAPSLGTPKDLLRKILRALGLPLSGGTTAE 66
Query: 225 NVTQLFHRARLAAPAILFIDEIER 248
+ + + +L IDE +
Sbjct: 67 LLEAILDALKRRGRPLLIIDEAQH 90
>gnl|CDD|224140 COG1219, ClpX, ATP-dependent protease Clp, ATPase subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 408
Score = 38.4 bits (90), Expect = 0.006
Identities = 28/72 (38%), Positives = 34/72 (47%), Gaps = 6/72 (8%)
Query: 181 ILLYGPPGCAKTSLVRTLAAHSVYRVLAASAAQLYSP-YVGEAEQNV-TQLFHRA----R 234
ILL GP G KT L +TLA A A L YVGE +N+ +L A
Sbjct: 100 ILLIGPTGSGKTLLAQTLAKILNVPFAIADATTLTEAGYVGEDVENILLKLLQAADYDVE 159
Query: 235 LAAPAILFIDEI 246
A I++IDEI
Sbjct: 160 RAERGIIYIDEI 171
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 38.0 bits (89), Expect = 0.007
Identities = 17/43 (39%), Positives = 21/43 (48%), Gaps = 6/43 (13%)
Query: 157 EKTVEWPFKYAREFERLAIPKPKGILLYGPPGCAKTSLVRTLA 199
E+ EW + + K +LLYGPPG KTSL LA
Sbjct: 24 EQLREW----IESWLKGKPKKA--LLLYGPPGVGKTSLAHALA 60
>gnl|CDD|224292 COG1373, COG1373, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 398
Score = 37.8 bits (88), Expect = 0.008
Identities = 16/94 (17%), Positives = 37/94 (39%), Gaps = 2/94 (2%)
Query: 153 RALMEKTVEWPFKYAREFERLAIPKPKGILLYGPPGCAKTSLVRTLAAHSVYRVLAASAA 212
+ ++K K + +P IL+ GP KT+L++ L + ++ +
Sbjct: 12 DSDIKKWEIERRKLLPRLIKKLDLRPFIILILGPRQVGKTTLLKLLIKGLLEEIIYINFD 71
Query: 213 QLYSPYVGEAEQNVTQLFHRARLAAPAILFIDEI 246
L ++ + + + + +F+DEI
Sbjct: 72 DL--RLDRIELLDLLRAYIELKEREKSYIFLDEI 103
>gnl|CDD|129721 TIGR00635, ruvB, Holliday junction DNA helicase, RuvB subunit. All
proteins in this family for which functions are known
are 5'-3' DNA helicases that, as part of a complex with
RuvA homologs serve as a 5'-3' Holliday junction
helicase. RuvA specifically binds Holliday junctions as
a sandwich of two tetramers and maintains the
configuration of the junction. It forms a complex with
two hexameric rings of RuvB, the subunit that contains
helicase activity. The complex drives ATP-dependent
branch migration of the Holliday junction recombination
intermediate. The endonuclease RuvC resolves junctions
[DNA metabolism, DNA replication, recombination, and
repair].
Length = 305
Score = 37.3 bits (87), Expect = 0.011
Identities = 24/68 (35%), Positives = 31/68 (45%), Gaps = 8/68 (11%)
Query: 181 ILLYGPPGCAKTSLVRTLAAHSVYRVLAASAAQLYSPYVGEAEQNVTQLFHRARLAAPAI 240
+LLYGPPG KT+L +A + S L P G+ +T L +
Sbjct: 33 LLLYGPPGLGKTTLAHIIANEMGVNLKITSGPALEKP--GDLAAILTN------LEEGDV 84
Query: 241 LFIDEIER 248
LFIDEI R
Sbjct: 85 LFIDEIHR 92
>gnl|CDD|216186 pfam00910, RNA_helicase, RNA helicase. This family includes RNA
helicases thought to be involved in duplex unwinding
during viral RNA replication. Members of this family are
found in a variety of single stranded RNA viruses.
Length = 105
Score = 33.7 bits (78), Expect = 0.028
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 181 ILLYGPPGCAKTSLVRTLAAH 201
I LYGPPGC K++L + LA
Sbjct: 1 IWLYGPPGCGKSTLAKYLARA 21
>gnl|CDD|214396 CHL00206, ycf2, Ycf2; Provisional.
Length = 2281
Score = 36.0 bits (83), Expect = 0.034
Identities = 13/31 (41%), Positives = 20/31 (64%)
Query: 172 RLAIPKPKGILLYGPPGCAKTSLVRTLAAHS 202
RLA+ +GIL+ G G ++ LV+ LA +S
Sbjct: 1624 RLALSPSRGILVIGSIGTGRSYLVKYLATNS 1654
>gnl|CDD|234053 TIGR02903, spore_lon_C, ATP-dependent protease, Lon family.
Members of this protein family resemble the widely
distributed ATP-dependent protease La, also called Lon
and LonA. It resembles even more closely LonB, which is
a LonA paralog found in genomes if and only if the
species is capable of endospore formation (as in
Bacillus subtilis, Clostridium tetani, and select other
members of the Firmicutes) and expressed specifically in
the forespore compartment. Members of this family are
restricted to a subset of spore-forming species, and are
very likely to participate in the program of endospore
formation. We propose the designation LonC [Protein
fate, Degradation of proteins, peptides, and
glycopeptides, Cellular processes, Sporulation and
germination].
Length = 615
Score = 34.8 bits (80), Expect = 0.076
Identities = 13/25 (52%), Positives = 18/25 (72%)
Query: 172 RLAIPKPKGILLYGPPGCAKTSLVR 196
++A P P+ I+LYGPPG KT+ R
Sbjct: 169 KVASPFPQHIILYGPPGVGKTTAAR 193
>gnl|CDD|116340 pfam07726, AAA_3, ATPase family associated with various cellular
activities (AAA). This Pfam entry includes some of the
AAA proteins not detected by the pfam00004 model.
Length = 131
Score = 32.9 bits (76), Expect = 0.092
Identities = 13/21 (61%), Positives = 14/21 (66%)
Query: 181 ILLYGPPGCAKTSLVRTLAAH 201
+LL G PG AKT L RTLA
Sbjct: 2 VLLEGVPGLAKTLLARTLARS 22
>gnl|CDD|213190 cd03223, ABCD_peroxisomal_ALDP, ATP-binding cassette domain of
peroxisomal transporter, subfamily D. Peroxisomal
ATP-binding cassette transporter (Pat) is involved in
the import of very long-chain fatty acids (VLCFA) into
the peroxisome. The peroxisomal membrane forms a
permeability barrier for a wide variety of metabolites
required for and formed during fatty acid
beta-oxidation. To communicate with the cytoplasm and
mitochondria, peroxisomes need dedicated proteins to
transport such hydrophilic molecules across their
membranes. X-linked adrenoleukodystrophy (X-ALD) is
caused by mutations in the ALD gene, which encodes ALDP
(adrenoleukodystrophy protein ), a peroxisomal integral
membrane protein that is a member of the ATP-binding
cassette (ABC) transporter protein family. The disease
is characterized by a striking and unpredictable
variation in phenotypic expression. Phenotypes include
the rapidly progressive childhood cerebral form (CCALD),
the milder adult form, adrenomyeloneuropathy (AMN), and
variants without neurologic involvement (i.e.
asymptomatic).
Length = 166
Score = 33.3 bits (77), Expect = 0.11
Identities = 11/27 (40%), Positives = 14/27 (51%)
Query: 173 LAIPKPKGILLYGPPGCAKTSLVRTLA 199
I +L+ GP G K+SL R LA
Sbjct: 22 FEIKPGDRLLITGPSGTGKSSLFRALA 48
>gnl|CDD|223666 COG0593, DnaA, ATPase involved in DNA replication initiation [DNA
replication, recombination, and repair].
Length = 408
Score = 34.2 bits (79), Expect = 0.12
Identities = 16/82 (19%), Positives = 33/82 (40%), Gaps = 7/82 (8%)
Query: 181 ILLYGPPGCAKTSLVRTLAAHSV-----YRVLAASAAQLYSPYVGEAEQNVTQLFHRARL 235
+ +YG G KT L++ + ++ RV+ ++ + +V N + F
Sbjct: 116 LFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFTNDFVKALRDNEMEKFKEKYS 175
Query: 236 AAPAILFIDEIERTYNCEYREQ 257
L ID+I+ E ++
Sbjct: 176 LDL--LLIDDIQFLAGKERTQE 195
>gnl|CDD|221955 pfam13173, AAA_14, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily.
Length = 127
Score = 32.1 bits (74), Expect = 0.15
Identities = 15/79 (18%), Positives = 27/79 (34%), Gaps = 23/79 (29%)
Query: 181 ILLYGPPGCAKTSLVRTLAA-----HSVY------RVLAASAAQLYSPYVGEAEQNVTQL 229
I++ GP KT+L+ + +Y R L + L ++
Sbjct: 5 IVITGPRQVGKTTLLLQFLKELLSENILYINLDDPRFLRLALLDLLEEFLKLLLPGKK-- 62
Query: 230 FHRARLAAPAILFIDEIER 248
LF+DEI++
Sbjct: 63 ----------YLFLDEIQK 71
>gnl|CDD|223542 COG0466, Lon, ATP-dependent Lon protease, bacterial type
[Posttranslational modification, protein turnover,
chaperones].
Length = 782
Score = 34.1 bits (79), Expect = 0.16
Identities = 16/35 (45%), Positives = 21/35 (60%), Gaps = 6/35 (17%)
Query: 171 ERLAI----PKPKG--ILLYGPPGCAKTSLVRTLA 199
E LA+ K KG + L GPPG KTSL +++A
Sbjct: 337 EYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIA 371
>gnl|CDD|223616 COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ
chaperones [Posttranslational modification, protein
turnover, chaperones].
Length = 786
Score = 33.8 bits (78), Expect = 0.17
Identities = 22/77 (28%), Positives = 33/77 (42%), Gaps = 12/77 (15%)
Query: 182 LLYGPPGCAKTSLVRTLAAHSV----------YRVLA--ASAAQLYSPYVGEAEQNVTQL 229
+L G PG KT++V LA V R+ + + + Y GE E+ + +
Sbjct: 195 VLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGSLVAGAKYRGEFEERLKAV 254
Query: 230 FHRARLAAPAILFIDEI 246
+ ILFIDEI
Sbjct: 255 LKEVEKSKNVILFIDEI 271
Score = 30.3 bits (69), Expect = 2.2
Identities = 27/93 (29%), Positives = 37/93 (39%), Gaps = 28/93 (30%)
Query: 177 KPKGILLY-GPPGCAKTSLVRTLA--------------------AHSVYRVLAASAAQLY 215
+P G L+ GP G KT L + LA HSV R++ A
Sbjct: 519 RPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYMEKHSVSRLIGAPPG--- 575
Query: 216 SPYVGEAEQNVTQLFHRARLAAPAILFIDEIER 248
YVG E QL R +++ +DEIE+
Sbjct: 576 --YVGYEEGG--QLTEAVRRKPYSVILLDEIEK 604
>gnl|CDD|180607 PRK06526, PRK06526, transposase; Provisional.
Length = 254
Score = 32.9 bits (75), Expect = 0.21
Identities = 21/75 (28%), Positives = 34/75 (45%), Gaps = 4/75 (5%)
Query: 175 IPKPKGILLYGPPGCAKTSLVRTL---AAHSVYRVLAASAAQLYSPYVGEAEQNVTQLFH 231
+ + ++ GPPG KT L L A + +RVL A+AAQ + + A
Sbjct: 95 VTGKENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATAAQ-WVARLAAAHHAGRLQAE 153
Query: 232 RARLAAPAILFIDEI 246
+L +L +DE+
Sbjct: 154 LVKLGRYPLLIVDEV 168
>gnl|CDD|222194 pfam13521, AAA_28, AAA domain.
Length = 162
Score = 31.8 bits (73), Expect = 0.31
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 181 ILLYGPPGCAKTSLVRTLAAH 201
I++ G P KT+L+ LAA
Sbjct: 2 IVITGGPSTGKTTLLEALAAR 22
>gnl|CDD|226646 COG4178, COG4178, ABC-type uncharacterized transport system,
permease and ATPase components [General function
prediction only].
Length = 604
Score = 32.7 bits (75), Expect = 0.35
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 181 ILLYGPPGCAKTSLVRTLA 199
+L+ G G KTSL+R LA
Sbjct: 422 LLITGESGAGKTSLLRALA 440
>gnl|CDD|188437 TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA. This
model represents the AAA family ATPase, EccA, of the
actinobacterial flavor of type VII secretion systems.
Species such as Mycobacterium tuberculosis have several
instances of this system per genome, designated EccA1,
EccA2, etc [Protein fate, Protein and peptide secretion
and trafficking].
Length = 557
Score = 32.5 bits (74), Expect = 0.40
Identities = 33/119 (27%), Positives = 47/119 (39%), Gaps = 13/119 (10%)
Query: 135 EGEEEGAFVPELGGLKGVRALMEKTVEWPFKYAREFERLAIP-KPKGILLYGPPGCAKTS 193
E E E A L +K A ++ + AR L + +L GPPG KT+
Sbjct: 270 EAEAELAEQIGLERVKRQVAALKSSTA--MALARAERGLPVAQTSNHMLFAGPPGTGKTT 327
Query: 194 LVRT----LAAHSVYR---VLAASAAQLYSPYVGEAEQNVTQLFHRARLAAPAILFIDE 245
+ R V R V S A L Y+GE+E ++ A +LF+DE
Sbjct: 328 IARVVAKIYCGLGVLRKPLVREVSRADLIGQYIGESEAKTNEIIDS---ALGGVLFLDE 383
>gnl|CDD|183133 PRK11432, fbpC, ferric transporter ATP-binding subunit;
Provisional.
Length = 351
Score = 32.0 bits (73), Expect = 0.49
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 173 LAIPKPKGILLYGPPGCAKTSLVRTLA 199
L I + + L GP GC KT+++R +A
Sbjct: 27 LTIKQGTMVTLLGPSGCGKTTVLRLVA 53
>gnl|CDD|172741 PRK14253, PRK14253, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 249
Score = 31.4 bits (71), Expect = 0.61
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 173 LAIPKPKGILLYGPPGCAKTSLVRTL 198
L IP + L GP GC K++L+R L
Sbjct: 24 LPIPARQVTALIGPSGCGKSTLLRCL 49
>gnl|CDD|237171 PRK12678, PRK12678, transcription termination factor Rho;
Provisional.
Length = 672
Score = 31.8 bits (73), Expect = 0.62
Identities = 23/127 (18%), Positives = 39/127 (30%)
Query: 255 REQTADNAKKPRIPRTNGGYREQTADTANKPRIQRTKREYREQTADTAHKTRISRTNRGY 314
+ A + E+T + R +R RE R+ A+ + R R
Sbjct: 141 AARKAGEGGEQPATEARADAAERTEEEERDERRRRGDREDRQAEAERGERGRREERGRDG 200
Query: 315 REKTADTANKPRIPRTNRGYREYSAQNANTANKPRIQRTKREYREQTADTANKPRIQRIG 374
++ + R RG R+ + + R + RE D R G
Sbjct: 201 DDRDRRDRREQGDRREERGRRDGGDRRGRRRRRDRRDARGDDNREDRGDRDGDDGEGRGG 260
Query: 375 NLSQRNR 381
+R R
Sbjct: 261 RRGRRFR 267
>gnl|CDD|183044 PRK11231, fecE, iron-dicitrate transporter ATP-binding subunit;
Provisional.
Length = 255
Score = 31.5 bits (72), Expect = 0.65
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 173 LAIPKPKGILLYGPPGCAKTSLVRTLA 199
L++P K L GP GC K++L++ A
Sbjct: 23 LSLPTGKITALIGPNGCGKSTLLKCFA 49
>gnl|CDD|233119 TIGR00763, lon, ATP-dependent protease La. This protein is induced
by heat shock and other stresses in E. coli, B.
subtilis, and other species. The yeast member,
designated PIM1, is located in the mitochondrial matrix,
required for mitochondrial function, and also induced by
heat shock [Protein fate, Degradation of proteins,
peptides, and glycopeptides].
Length = 775
Score = 31.9 bits (73), Expect = 0.72
Identities = 16/38 (42%), Positives = 22/38 (57%), Gaps = 6/38 (15%)
Query: 168 REFERLAIPKPKG------ILLYGPPGCAKTSLVRTLA 199
R E LA+ K +G + L GPPG KTSL +++A
Sbjct: 331 RILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIA 368
>gnl|CDD|236347 PRK08903, PRK08903, DnaA regulatory inactivator Hda; Validated.
Length = 227
Score = 31.1 bits (71), Expect = 0.74
Identities = 14/68 (20%), Positives = 26/68 (38%), Gaps = 11/68 (16%)
Query: 181 ILLYGPPGCAKTSLVRTLAAHSVYRVLAASAAQLYSPYVGEAEQNVTQLFHRARLAAPAI 240
L+G G ++ L++ L A AS + Y+ A + F +
Sbjct: 45 FYLWGEAGSGRSHLLQALVAD-------ASYGGRNARYLDAASPLLAFDFDP----EAEL 93
Query: 241 LFIDEIER 248
+D++ER
Sbjct: 94 YAVDDVER 101
>gnl|CDD|129690 TIGR00602, rad24, checkpoint protein rad24. All proteins in this
family for which functions are known are involved in DNA
damage tolerance (likely cell cycle checkpoints).This
family is based on the phylogenomic analysis of JA Eisen
(1999, Ph.D. Thesis, Stanford University) [DNA
metabolism, DNA replication, recombination, and repair].
Length = 637
Score = 31.5 bits (71), Expect = 0.80
Identities = 12/31 (38%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 177 KPKGILLY-GPPGCAKTSLVRTLAAHSVYRV 206
PK ILL GP GC K++ ++ L+ +V
Sbjct: 108 APKRILLITGPSGCGKSTTIKILSKELGIQV 138
>gnl|CDD|222163 pfam13479, AAA_24, AAA domain. This AAA domain is found in a wide
variety of presumed phage proteins.
Length = 201
Score = 30.7 bits (70), Expect = 0.84
Identities = 12/18 (66%), Positives = 15/18 (83%)
Query: 181 ILLYGPPGCAKTSLVRTL 198
+L+YGPPG KTSL +TL
Sbjct: 6 VLIYGPPGIGKTSLAKTL 23
>gnl|CDD|226691 COG4240, COG4240, Predicted kinase [General function prediction
only].
Length = 300
Score = 31.0 bits (70), Expect = 0.91
Identities = 22/85 (25%), Positives = 30/85 (35%), Gaps = 9/85 (10%)
Query: 155 LMEKTVEWPFKYAREFERLAIPKPKGILLYGPPGCAKTS----LVRTLAAHSVYRVLAAS 210
+ + K A + P GI GP G K++ +VR LAA + R S
Sbjct: 29 AQDLHLPLLAKIAPWAQERGRPLIVGIS--GPQGSGKSTLSALIVRLLAAKGLERTATLS 86
Query: 211 AAQLYSPYVGE---AEQNVTQLFHR 232
LY + A Q L R
Sbjct: 87 LDDLYLTHADRLRLARQVNPLLQTR 111
>gnl|CDD|224047 COG1122, CbiO, ABC-type cobalt transport system, ATPase component
[Inorganic ion transport and metabolism].
Length = 235
Score = 30.7 bits (70), Expect = 0.92
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 173 LAIPKPKGILLYGPPGCAKTSLVRTLA 199
L I K + +LL GP G K++L++ L
Sbjct: 25 LEIEKGERVLLIGPNGSGKSTLLKLLN 51
>gnl|CDD|225164 COG2255, RuvB, Holliday junction resolvasome, helicase subunit [DNA
replication, recombination, and repair].
Length = 332
Score = 31.0 bits (71), Expect = 1.1
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 181 ILLYGPPGCAKTSLVRTLA 199
+LL+GPPG KT+L +A
Sbjct: 55 VLLFGPPGLGKTTLAHIIA 73
>gnl|CDD|180750 PRK06921, PRK06921, hypothetical protein; Provisional.
Length = 266
Score = 30.5 bits (69), Expect = 1.3
Identities = 24/85 (28%), Positives = 40/85 (47%), Gaps = 7/85 (8%)
Query: 166 YAREFERLAIPKPKGILLYGPPGCAKTSLVRTLAAHSVYRVLAASAAQLYSPYV---GEA 222
Y ++FE++ + I L G PG KT L L A + + LY P+V G+
Sbjct: 105 YVKDFEKIQESRKNSIALLGQPGSGKTHL---LTAAANELMRKKGVPVLYFPFVEGFGDL 161
Query: 223 EQNVTQLFHRA-RLAAPAILFIDEI 246
+ + L + R+ +LFID++
Sbjct: 162 KDDFDLLEAKLNRMKKVEVLFIDDL 186
>gnl|CDD|215399 PLN02748, PLN02748, tRNA dimethylallyltransferase.
Length = 468
Score = 30.6 bits (69), Expect = 1.4
Identities = 14/40 (35%), Positives = 23/40 (57%)
Query: 177 KPKGILLYGPPGCAKTSLVRTLAAHSVYRVLAASAAQLYS 216
K K +++ GP G K+ L LA+H ++ A + Q+YS
Sbjct: 21 KAKVVVVMGPTGSGKSKLAVDLASHFPVEIINADSMQVYS 60
>gnl|CDD|233206 TIGR00954, 3a01203, Peroxysomal Fatty Acyl CoA Transporter (FAT)
Family protei. [Transport and binding proteins,
Carbohydrates, organic alcohols, and acids].
Length = 659
Score = 30.9 bits (70), Expect = 1.5
Identities = 14/31 (45%), Positives = 18/31 (58%), Gaps = 2/31 (6%)
Query: 171 ERLAIPKPKG--ILLYGPPGCAKTSLVRTLA 199
E L+ P G +L+ GP GC K+SL R L
Sbjct: 469 ESLSFEVPSGNNLLICGPNGCGKSSLFRILG 499
>gnl|CDD|213263 cd03296, ABC_CysA_sulfate_importer, ATP-binding cassette domain of
the sulfate transporter. Part of the ABC transporter
complex cysAWTP involved in sulfate import. Responsible
for energy coupling to the transport system. The complex
is composed of two ATP-binding proteins (cysA), two
transmembrane proteins (cysT and cysW), and a
solute-binding protein (cysP). ABC transporters are a
large family of proteins involved in the transport of a
wide variety of different compounds, like sugars, ions,
peptides, and more complex organic molecules. The
nucleotide binding domain shows the highest similarity
between all members of the family. ABC transporters are
a subset of nucleotide hydrolases that contain a
signature motif, Q-loop, and H-loop/switch region, in
addition to, the Walker A motif/P-loop and Walker B
motif commonly found in a number of ATP- and GTP-binding
and hydrolyzing proteins.
Length = 239
Score = 30.0 bits (68), Expect = 1.5
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 173 LAIPKPKGILLYGPPGCAKTSLVRTLA 199
L IP + + L GP G KT+L+R +A
Sbjct: 23 LDIPSGELVALLGPSGSGKTTLLRLIA 49
>gnl|CDD|131948 TIGR02902, spore_lonB, ATP-dependent protease LonB. Members of
this protein are LonB, a paralog of the ATP-dependent
protease La (LonA, TIGR00763). LonB proteins are found
strictly, and almost universally, in endospore-forming
bacteria. This protease was shown, in Bacillus subtilis,
to be expressed specifically in the forespore, during
sporulation, under control of sigma(F). The lonB gene,
despite location immediately upstream of lonA, was shown
to be monocistronic. LonB appears able to act on
sigma(H) for post-translation control, but lonB mutation
did not produce an obvious sporulation defect under the
conditions tested. Note that additional paralogs of LonA
and LonB occur in the Clostridium lineage and this model
selects only one per species as the protein that
corresponds to LonB in B. subtilis [Protein fate,
Degradation of proteins, peptides, and glycopeptides,
Cellular processes, Sporulation and germination].
Length = 531
Score = 30.5 bits (69), Expect = 1.7
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 176 PKPKGILLYGPPGCAKTSLVR 196
P P+ +++YGPPG KT+ R
Sbjct: 84 PNPQHVIIYGPPGVGKTAAAR 104
>gnl|CDD|234619 PRK00080, ruvB, Holliday junction DNA helicase RuvB; Reviewed.
Length = 328
Score = 30.1 bits (69), Expect = 1.7
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 181 ILLYGPPGCAKTSL 194
+LLYGPPG KT+L
Sbjct: 54 VLLYGPPGLGKTTL 67
>gnl|CDD|224025 COG1100, COG1100, GTPase SAR1 and related small G proteins [General
function prediction only].
Length = 219
Score = 29.9 bits (67), Expect = 1.8
Identities = 10/41 (24%), Positives = 16/41 (39%), Gaps = 8/41 (19%)
Query: 181 ILLYGPPGCAKTSLVRTLAAHSVYRVLAASAAQLYSPYVGE 221
I++ G G KT+L+ L + Y P +G
Sbjct: 8 IVVLGDGGVGKTTLLNRLVGDEF--------PEGYPPTIGN 40
>gnl|CDD|213213 cd03246, ABCC_Protease_Secretion, ATP-binding cassette domain of
PrtD, subfamily C. This family represents the ABC
component of the protease secretion system PrtD, a
60-kDa integral membrane protein sharing 37% identity
with HlyB, the ABC component of the alpha-hemolysin
secretion pathway, in the C-terminal domain. They export
degradative enzymes by using a type I protein secretion
system and lack an N-terminal signal peptide, but
contain a C-terminal secretion signal. The Type I
secretion apparatus is made up of three components, an
ABC transporter, a membrane fusion protein (MFP), and an
outer membrane protein (OMP). For the HlyA transporter
complex, HlyB (ABC transporter) and HlyD (MFP) reside in
the inner membrane of E. coli. The OMP component is
TolC, which is thought to interact with the MFP to form
a continuous channel across the periplasm from the
cytoplasm to the exterior. HlyB belongs to the family of
ABC transporters, which are ubiquitous, ATP-dependent
transmembrane pumps or channels. The spectrum of
transport substrates ranges from inorganic ions,
nutrients such as amino acids, sugars, or peptides,
hydrophobic drugs, to large polypeptides, such as HlyA.
Length = 173
Score = 29.5 bits (67), Expect = 1.9
Identities = 23/101 (22%), Positives = 36/101 (35%), Gaps = 29/101 (28%)
Query: 173 LAIPKPKGILLYGPPGCAKTSLVRTLA-----AHSVYRVLAASAAQL----YSPYVGEAE 223
+I + + + GP G K++L R + R+ A +Q +VG
Sbjct: 23 FSIEPGESLAIIGPSGSGKSTLARLILGLLRPTSGRVRLDGADISQWDPNELGDHVGYLP 82
Query: 224 QNVTQLF------------HRARLA-------APAILFIDE 245
Q+ +LF R RL P IL +DE
Sbjct: 83 QDD-ELFSGSIAENILSGGQRQRLGLARALYGNPRILVLDE 122
>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 30.7 bits (69), Expect = 1.9
Identities = 13/21 (61%), Positives = 14/21 (66%)
Query: 179 KGILLYGPPGCAKTSLVRTLA 199
K ILL G PG KTSL+ LA
Sbjct: 1544 KPILLEGSPGVGKTSLITALA 1564
>gnl|CDD|233959 TIGR02639, ClpA, ATP-dependent Clp protease ATP-binding subunit
clpA. [Protein fate, Degradation of proteins, peptides,
and glycopeptides].
Length = 730
Score = 30.4 bits (69), Expect = 2.1
Identities = 25/90 (27%), Positives = 34/90 (37%), Gaps = 25/90 (27%)
Query: 177 KPKGILL-YGPPGCAKTSLVRTLAA-----------------HSVYRVLAASAAQLYSPY 218
KP G L GP G KT L + LA H+V R++ + Y
Sbjct: 481 KPVGSFLFVGPTGVGKTELAKQLAEELGVHLLRFDMSEYMEKHTVSRLIGSPPG-----Y 535
Query: 219 VGEAEQNVTQLFHRARLAAPAILFIDEIER 248
VG + L R +L +DEIE+
Sbjct: 536 VGFEQGG--LLTDAVRKHPHCVLLLDEIEK 563
>gnl|CDD|213267 cd03300, ABC_PotA_N, ATP-binding cassette domain of the polyamine
transporter. PotA is an ABC-type transporter and the
ATPase component of the
spermidine/putrescine-preferential uptake system
consisting of PotA, -B, -C, and -D. PotA has two domains
with the N-terminal domain containing the ATPase
activity and the residues required for homodimerization
with PotA and heterdimerization with PotB. ABC
transporters are a large family of proteins involved in
the transport of a wide variety of different compounds,
like sugars, ions, peptides, and more complex organic
molecules. The nucleotide binding domain shows the
highest similarity between all members of the family.
ABC transporters are a subset of nucleotide hydrolases
that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to, the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing proteins.
Length = 232
Score = 29.5 bits (67), Expect = 2.2
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 173 LAIPKPKGILLYGPPGCAKTSLVRTLA 199
L I + + L GP GC KT+L+R +A
Sbjct: 21 LDIKEGEFFTLLGPSGCGKTTLLRLIA 47
>gnl|CDD|203260 pfam05496, RuvB_N, Holliday junction DNA helicase ruvB N-terminus.
The RuvB protein makes up part of the RuvABC revolvasome
which catalyzes the resolution of Holliday junctions
that arise during genetic recombination and DNA repair.
Branch migration is catalyzed by the RuvB protein that
is targeted to the Holliday junction by the structure
specific RuvA protein. This family contains the
N-terminal region of the protein.
Length = 231
Score = 29.7 bits (68), Expect = 2.4
Identities = 11/20 (55%), Positives = 14/20 (70%)
Query: 181 ILLYGPPGCAKTSLVRTLAA 200
+LLYGPPG KT+L +A
Sbjct: 53 VLLYGPPGLGKTTLANIIAN 72
>gnl|CDD|224160 COG1239, ChlI, Mg-chelatase subunit ChlI [Coenzyme metabolism].
Length = 423
Score = 30.1 bits (68), Expect = 2.5
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 175 IPKPKGILLYGPPGCAKTSLVRTLAA 200
P+ G L+ G G AK++L R LA
Sbjct: 35 DPQIGGALIAGEKGTAKSTLARALAD 60
>gnl|CDD|237090 PRK12402, PRK12402, replication factor C small subunit 2; Reviewed.
Length = 337
Score = 29.6 bits (67), Expect = 2.6
Identities = 11/18 (61%), Positives = 13/18 (72%)
Query: 182 LLYGPPGCAKTSLVRTLA 199
L+ GPPG KT+ VR LA
Sbjct: 40 LVQGPPGSGKTAAVRALA 57
>gnl|CDD|213192 cd03225, ABC_cobalt_CbiO_domain1, First domain of the ATP-binding
cassette component of cobalt transport system. Domain I
of the ABC component of a cobalt transport family found
in bacteria, archaea, and eukaryota. The transition
metal cobalt is an essential component of many enzymes
and must be transported into cells in appropriate
amounts when needed. This ABC transport system of the
CbiMNQO family is involved in cobalt transport in
association with the cobalamin (vitamin B12)
biosynthetic pathways. Most of cobalt (Cbi) transport
systems possess a separate CbiN component, the
cobalt-binding periplasmic protein, and they are encoded
by the conserved gene cluster cbiMNQO. Both the CbiM and
CbiQ proteins are integral cytoplasmic membrane
proteins, and the CbiO protein has the linker peptide
and the Walker A and B motifs commonly found in the
ATPase components of the ABC-type transport systems.
Length = 211
Score = 29.4 bits (67), Expect = 2.8
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 173 LAIPKPKGILLYGPPGCAKTSLVRTLA 199
L I K + +L+ GP G K++L+R L
Sbjct: 22 LTIKKGEFVLIVGPNGSGKSTLLRLLN 48
>gnl|CDD|188099 TIGR00972, 3a0107s01c2, phosphate ABC transporter, ATP-binding
protein. This model represents the ATP-binding protein
of a family of ABC transporters for inorganic phosphate.
In the model species Escherichia coli, a constitutive
transporter for inorganic phosphate, with low affinity,
is also present. The high affinity transporter that
includes this polypeptide is induced when extracellular
phosphate concentrations are low. The proteins most
similar to the members of this family but not included
appear to be amino acid transporters [Transport and
binding proteins, Anions].
Length = 247
Score = 29.2 bits (66), Expect = 3.0
Identities = 13/26 (50%), Positives = 18/26 (69%)
Query: 173 LAIPKPKGILLYGPPGCAKTSLVRTL 198
L IPK + L GP GC K++L+R+L
Sbjct: 22 LDIPKNQVTALIGPSGCGKSTLLRSL 47
>gnl|CDD|237651 PRK14266, PRK14266, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 250
Score = 29.1 bits (65), Expect = 3.6
Identities = 13/26 (50%), Positives = 16/26 (61%)
Query: 173 LAIPKPKGILLYGPPGCAKTSLVRTL 198
L IPK L GP GC K++ +RTL
Sbjct: 24 LDIPKNSVTALIGPSGCGKSTFIRTL 49
>gnl|CDD|222980 PHA03095, PHA03095, ankyrin-like protein; Provisional.
Length = 471
Score = 29.2 bits (66), Expect = 3.7
Identities = 10/71 (14%), Positives = 21/71 (29%), Gaps = 5/71 (7%)
Query: 184 YGPPGCAKTSLVRTLAAHSVYRVLAASAAQLYSPYVGEAEQNVTQLFHRARLAAP----A 239
P A V + + +L ++ ++ E E + + R+
Sbjct: 331 GDIPSDATRLCVAKVVLRGAFSLLPEPIRAYHADFIRECEAEIAVM-RTTRIGTGVSLLD 389
Query: 240 ILFIDEIERTY 250
ILF +
Sbjct: 390 ILFARNPDILL 400
>gnl|CDD|129254 TIGR00150, T6A_YjeE, tRNA threonylcarbamoyl adenosine modification
protein YjeE. This protein family belongs to a
four-gene system responsible for the threonylcarbamoyl
adenosine (t6A) tRNA modification. Members of this
family have a conserved nucleotide-binding motif
GXXGXGKT and a nucleotide-binding fold. Member protein
YjeE of Haemophilus influenzae (HI0065) was shown to
have (weak) ATPase activity [Protein synthesis, tRNA and
rRNA base modification].
Length = 133
Score = 28.2 bits (63), Expect = 3.8
Identities = 12/33 (36%), Positives = 16/33 (48%), Gaps = 2/33 (6%)
Query: 171 ERLAIPKPKG--ILLYGPPGCAKTSLVRTLAAH 201
+ A P G +LL G G KT+LV+ L
Sbjct: 13 KAFAKPLDFGTVVLLKGDLGAGKTTLVQGLLQG 45
>gnl|CDD|223873 COG0802, COG0802, Predicted ATPase or kinase [General function
prediction only].
Length = 149
Score = 28.4 bits (64), Expect = 3.9
Identities = 15/33 (45%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 171 ERLAIPKPKG--ILLYGPPGCAKTSLVRTLAAH 201
ERLA G +LL G G KT+LVR +A
Sbjct: 16 ERLAEALKAGDVVLLSGDLGAGKTTLVRGIAKG 48
>gnl|CDD|222165 pfam13481, AAA_25, AAA domain. This AAA domain is found in a wide
variety of presumed DNA repair proteins.
Length = 154
Score = 28.4 bits (64), Expect = 4.0
Identities = 10/21 (47%), Positives = 12/21 (57%)
Query: 181 ILLYGPPGCAKTSLVRTLAAH 201
LL G PG K++L LAA
Sbjct: 36 TLLAGAPGTGKSTLALDLAAA 56
>gnl|CDD|213226 cd03259, ABC_Carb_Solutes_like, ATP-binding cassette domain of the
carbohydrate and solute transporters-like. This family
is comprised of proteins involved in the transport of
apparently unrelated solutes and proteins specific for
di- and oligosaccharides and polyols. ABC transporters
are a large family of proteins involved in the transport
of a wide variety of different compounds, like sugars,
ions, peptides and more complex organic molecules. The
nucleotide-binding domain shows the highest similarity
between all members of the family. ABC transporters are
a subset of nucleotide hydrolases that contain a
signature motif, Q-loop, and H-loop/switch region, in
addition to, the Walker A motif/P-loop and Walker B
motif commonly found in a number of ATP- and GTP-binding
and hydrolyzing proteins.
Length = 213
Score = 28.6 bits (65), Expect = 4.0
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 173 LAIPKPKGILLYGPPGCAKTSLVRTLA 199
L + + + L GP GC KT+L+R +A
Sbjct: 21 LTVEPGEFLALLGPSGCGKTTLLRLIA 47
>gnl|CDD|234152 TIGR03265, PhnT2, putative 2-aminoethylphosphonate ABC transporter,
ATP-binding protein. This ABC transporter ATP-binding
protein is found in a number of genomes in operon-like
contexts strongly suggesting a substrate specificity for
2-aminoethylphosphonate (2-AEP). The characterized
PhnSTUV system is absent in the genomes in which this
system is found. These genomes encode systems for the
catabolism of 2-AEP, making the need for a
2-AEP-specific transporter likely [Transport and binding
proteins, Amino acids, peptides and amines].
Length = 353
Score = 29.2 bits (66), Expect = 4.2
Identities = 12/27 (44%), Positives = 19/27 (70%)
Query: 173 LAIPKPKGILLYGPPGCAKTSLVRTLA 199
L++ K + + L GP GC KT+L+R +A
Sbjct: 25 LSVKKGEFVCLLGPSGCGKTTLLRIIA 51
>gnl|CDD|181681 PRK09183, PRK09183, transposase/IS protein; Provisional.
Length = 259
Score = 28.9 bits (65), Expect = 4.2
Identities = 27/89 (30%), Positives = 37/89 (41%), Gaps = 6/89 (6%)
Query: 163 PFKYAREFERLA-IPKPKGILLYGPPGCAKTSLVRTL---AAHSVYRVLAASAAQLYSPY 218
P K + L+ I + + I+L GP G KT L L A + +V +AA L
Sbjct: 86 PQKQLQSLRSLSFIERNENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTTAADLLLQL 145
Query: 219 VGEAEQN-VTQLFHRARLAAPAILFIDEI 246
Q R + AP +L IDEI
Sbjct: 146 STAQRQGRYKTTLQRG-VMAPRLLIIDEI 173
>gnl|CDD|184586 PRK14240, PRK14240, phosphate transporter ATP-binding protein;
Provisional.
Length = 250
Score = 28.9 bits (65), Expect = 4.3
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 173 LAIPKPKGILLYGPPGCAKTSLVRTL 198
L I + + L GP GC K++ +RTL
Sbjct: 24 LDIEENQVTALIGPSGCGKSTFLRTL 49
>gnl|CDD|226372 COG3854, SpoIIIAA, ncharacterized protein conserved in bacteria
[Function unknown].
Length = 308
Score = 29.0 bits (65), Expect = 4.4
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 181 ILLYGPPGCAKTSLVRTLA 199
L+ GPP KT+L+R +A
Sbjct: 140 TLIIGPPQVGKTTLLRDIA 158
>gnl|CDD|224401 COG1484, DnaC, DNA replication protein [DNA replication,
recombination, and repair].
Length = 254
Score = 28.9 bits (65), Expect = 4.7
Identities = 16/82 (19%), Positives = 28/82 (34%), Gaps = 17/82 (20%)
Query: 175 IPKPKGILLYGPPGCAKTSLVRTLAAHSVYRVLAASAAQLYSPYVGEAE--QNVTQLFHR 232
+ + ++L GPPG KT L + A + ++ + + F
Sbjct: 102 FERGENLVLLGPPGVGKTHLAIAIG-------NELLKAGISVLFITAPDLLSKLKAAFDE 154
Query: 233 AR--------LAAPAILFIDEI 246
R L +L ID+I
Sbjct: 155 GRLEEKLLRELKKVDLLIIDDI 176
>gnl|CDD|224145 COG1224, TIP49, DNA helicase TIP49, TBP-interacting protein
[Transcription].
Length = 450
Score = 28.9 bits (65), Expect = 4.8
Identities = 23/62 (37%), Positives = 32/62 (51%), Gaps = 13/62 (20%)
Query: 179 KGILLYGPPGCAKTSLVRTLAAHSVYRVL-------AASAAQLYSPYVGEAEQNVTQLFH 231
+GIL+ GPPG KT+L A + R L A S +++YS V + E +TQ
Sbjct: 66 RGILIVGPPGTGKTAL-----AMGIARELGEDVPFVAISGSEIYSLEVKKTEA-LTQALR 119
Query: 232 RA 233
RA
Sbjct: 120 RA 121
>gnl|CDD|213200 cd03233, ABCG_PDR_domain1, First domain of the pleiotropic drug
resistance-like subfamily G of ATP-binding cassette
transporters. The pleiotropic drug resistance (PDR) is
a well-described phenomenon occurring in fungi and
shares several similarities with processes in bacteria
and higher eukaryotes. This PDR subfamily represents
domain I of its (ABC-IM)2 organization. ABC transporters
are a large family of proteins involved in the transport
of a wide variety of different compounds including
sugars, ions, peptides, and more complex organic
molecules. The nucleotide-binding domain shows the
highest similarity between all members of the family.
ABC transporters are a subset of nucleotide hydrolases
that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to, the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing proteins.
Length = 202
Score = 28.4 bits (64), Expect = 5.1
Identities = 7/21 (33%), Positives = 13/21 (61%)
Query: 181 ILLYGPPGCAKTSLVRTLAAH 201
+L+ G PG ++L++ LA
Sbjct: 36 VLVLGRPGSGCSTLLKALANR 56
>gnl|CDD|184311 PRK13764, PRK13764, ATPase; Provisional.
Length = 602
Score = 29.0 bits (66), Expect = 5.6
Identities = 12/29 (41%), Positives = 18/29 (62%), Gaps = 1/29 (3%)
Query: 171 ERLAIPKPKGILLYGPPGCAKTSLVRTLA 199
ERL + +GIL+ G PG K++ + LA
Sbjct: 251 ERL-EERAEGILIAGAPGAGKSTFAQALA 278
>gnl|CDD|213268 cd03301, ABC_MalK_N, The N-terminal ATPase domain of the maltose
transporter, MalK. ATP binding cassette (ABC) proteins
function from bacteria to human, mediating the
translocation of substances into and out of cells or
organelles. ABC transporters contain two
transmembrane-spanning domains (TMDs) or subunits and
two nucleotide binding domains (NBDs) or subunits that
couple transport to the hydrolysis of ATP. In the
maltose transport system, the periplasmic maltose
binding protein (MBP) stimulates the ATPase activity of
the membrane-associated transporter, which consists of
two transmembrane subunits, MalF and MalG, and two
copies of the ATP binding subunit, MalK, and becomes
tightly bound to the transporter in the catalytic
transition state, ensuring that maltose is passed to the
transporter as ATP is hydrolyzed.
Length = 213
Score = 28.4 bits (64), Expect = 5.7
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 173 LAIPKPKGILLYGPPGCAKTSLVRTLA 199
L I + ++L GP GC KT+ +R +A
Sbjct: 21 LDIADGEFVVLLGPSGCGKTTTLRMIA 47
>gnl|CDD|133392 cd04764, HTH_MlrA-like_sg1, Helix-Turn-Helix DNA binding domain of
putative MlrA-like transcription regulators. Putative
helix-turn-helix (HTH) MlrA-like transcription
regulators (subgroup 1). The MlrA protein, also known as
YehV, has been shown to control cell-cell aggregation by
co-regulating the expression of curli and extracellular
matrix production in Escherichia coli and Salmonella
typhimurium. These proteins belong to the MerR
superfamily of transcription regulators that promote
expression of several stress regulon genes by
reconfiguring the spacer between the -35 and -10
promoter elements. Their conserved N-terminal domains
contain predicted HTH motifs that mediate DNA binding,
while the dissimilar C-terminal domains bind specific
coactivator molecules. Many MlrA-like proteins in this
group appear to lack the long dimerization helix seen in
the N-terminal domains of typical MerR-like proteins.
Length = 67
Score = 26.5 bits (59), Expect = 6.0
Identities = 9/28 (32%), Positives = 13/28 (46%)
Query: 327 IPRTNRGYREYSAQNANTANKPRIQRTK 354
IPRT G R Y+ ++ K + K
Sbjct: 28 IPRTENGRRYYTDEDIELLKKIKTLLEK 55
>gnl|CDD|206669 cd01882, BMS1, Bms1, an essential GTPase, promotes assembly of
preribosomal RNA processing complexes. Bms1 is an
essential, evolutionarily conserved, nucleolar protein.
Its depletion interferes with processing of the 35S
pre-rRNA at sites A0, A1, and A2, and the formation of
40S subunits. Bms1, the putative endonuclease Rc11, and
the essential U3 small nucleolar RNA form a stable
subcomplex that is believed to control an early step in
the formation of the 40S subumit. The C-terminal domain
of Bms1 contains a GTPase-activating protein (GAP) that
functions intramolecularly. It is believed that Rc11
activates Bms1 by acting as a guanine-nucleotide
exchange factor (GEF) to promote GDP/GTP exchange, and
that activated (GTP-bound) Bms1 delivers Rc11 to the
preribosomes.
Length = 231
Score = 28.5 bits (64), Expect = 6.0
Identities = 10/23 (43%), Positives = 17/23 (73%)
Query: 176 PKPKGILLYGPPGCAKTSLVRTL 198
P P +++ GPPG K++L+R+L
Sbjct: 37 PPPLVVVVVGPPGVGKSTLIRSL 59
>gnl|CDD|184582 PRK14236, PRK14236, phosphate transporter ATP-binding protein;
Provisional.
Length = 272
Score = 28.5 bits (64), Expect = 6.3
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 173 LAIPKPKGILLYGPPGCAKTSLVRTL 198
+ IPK + GP GC K++L+R
Sbjct: 46 MRIPKNRVTAFIGPSGCGKSTLLRCF 71
>gnl|CDD|218719 pfam05729, NACHT, NACHT domain. This NTPase domain is found in
apoptosis proteins as well as those involved in MHC
transcription activation. This family is closely related
to pfam00931.
Length = 165
Score = 28.0 bits (63), Expect = 6.4
Identities = 7/19 (36%), Positives = 13/19 (68%)
Query: 181 ILLYGPPGCAKTSLVRTLA 199
++L G G KT+L++ +A
Sbjct: 3 VILQGEAGSGKTTLLQKIA 21
>gnl|CDD|216619 pfam01637, Arch_ATPase, Archaeal ATPase. This family contain a
conserved P-loop motif that is involved in binding ATP.
This family is almost exclusively found in
archaebacteria and particularly in Methanococcus
jannaschii that encodes sixteen members of this family.
Length = 223
Score = 28.0 bits (63), Expect = 6.6
Identities = 9/16 (56%), Positives = 13/16 (81%)
Query: 181 ILLYGPPGCAKTSLVR 196
I++YGP C KT+L+R
Sbjct: 23 IVVYGPRRCGKTALLR 38
>gnl|CDD|130254 TIGR01186, proV, glycine betaine/L-proline transport ATP binding
subunit. This model describes the glycine
betaine/L-proline ATP binding subunit in bacteria and
its equivalents in archaea. This transport system belong
to the larger ATP-Binding Cassette (ABC) transporter
superfamily. The characteristic feature of these
transporter is the obligatory coupling of ATP hydrolysis
to substrate translocation. The minimal configuration of
bacterial ABC transport system: an ATPase or ATP binding
subunit; An integral membrane protein; a hydrophilic
polypetpide, which likely functions as substrate binding
protein. Functionally, this transport system is involved
in osmoregulation. Under conditions of stress, the
organism recruits these transport system to accumulate
glycine betaine and other solutes which offer
osmo-protection. It has been demonstrated that glycine
betaine uptake is accompanied by symport with sodium
ions. The locus has been named variously as proU or
opuA. A gene library from L.lactis functionally
complements an E.coli proU mutant. The comlementing
locus is similar to a opuA locus in B.sutlis. This
clarifies the differences in nomenclature [Transport and
binding proteins, Amino acids, peptides and amines].
Length = 363
Score = 28.3 bits (63), Expect = 6.6
Identities = 16/62 (25%), Positives = 29/62 (46%), Gaps = 5/62 (8%)
Query: 173 LAIPKPKGILLYGPPGCAKTSLVRTLAAHSVYRVLAASAAQLYSPYVGEAEQNVTQLFHR 232
LAI K + ++ G G K++ VR L R++ +A Q++ +Q+ +L
Sbjct: 14 LAIAKGEIFVIMGLSGSGKSTTVRMLN-----RLIEPTAGQIFIDGENIMKQSPVELREV 68
Query: 233 AR 234
R
Sbjct: 69 RR 70
>gnl|CDD|235244 PRK04182, PRK04182, cytidylate kinase; Provisional.
Length = 180
Score = 27.8 bits (63), Expect = 6.7
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 185 GPPGCAKTSLVRTLAAH 201
GPPG KT++ R LA
Sbjct: 7 GPPGSGKTTVARLLAEK 23
>gnl|CDD|217429 pfam03215, Rad17, Rad17 cell cycle checkpoint protein.
Length = 490
Score = 28.5 bits (63), Expect = 6.7
Identities = 9/26 (34%), Positives = 15/26 (57%)
Query: 181 ILLYGPPGCAKTSLVRTLAAHSVYRV 206
+LL GP GC K++ V+ L+ +
Sbjct: 48 LLLTGPSGCGKSTTVKVLSKELGIEI 73
>gnl|CDD|216999 pfam02367, UPF0079, Uncharacterized P-loop hydrolase UPF0079. This
uncharacterized family contains a P-loop.
Length = 123
Score = 27.2 bits (61), Expect = 6.8
Identities = 14/33 (42%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 171 ERLAIPKPKG--ILLYGPPGCAKTSLVRTLAAH 201
+RLA G +LL G G KT+ VR LA
Sbjct: 6 KRLAQLLKAGDVVLLSGDLGAGKTTFVRGLAQG 38
>gnl|CDD|182692 PRK10744, pstB, phosphate transporter ATP-binding protein;
Provisional.
Length = 260
Score = 28.1 bits (63), Expect = 6.9
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 173 LAIPKPKGILLYGPPGCAKTSLVRTL 198
L I K + GP GC K++L+RT
Sbjct: 34 LDIAKNQVTAFIGPSGCGKSTLLRTF 59
>gnl|CDD|144608 pfam01078, Mg_chelatase, Magnesium chelatase, subunit ChlI.
Magnesium-chelatase is a three-component enzyme that
catalyzes the insertion of Mg2+ into protoporphyrin IX.
This is the first unique step in the synthesis of
(bacterio)chlorophyll. Due to this, it is thought that
Mg-chelatase has an important role in channelling inter-
mediates into the (bacterio)chlorophyll branch in
response to conditions suitable for photosynthetic
growth. ChlI and BchD have molecular weight between
38-42 kDa.
Length = 207
Score = 27.9 bits (63), Expect = 6.9
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 181 ILLYGPPGCAKTSLVRTLAA 200
+L+ GPPG KT L + L
Sbjct: 25 LLMIGPPGSGKTMLAKRLPG 44
>gnl|CDD|221983 pfam13207, AAA_17, AAA domain.
Length = 114
Score = 27.3 bits (60), Expect = 7.4
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 181 ILLYGPPGCAKTSLVRTLAAH 201
IL+ GPPG K++L + LA
Sbjct: 2 ILITGPPGSGKSTLAKKLAEK 22
>gnl|CDD|236982 PRK11784, PRK11784, tRNA 2-selenouridine synthase; Provisional.
Length = 345
Score = 28.3 bits (64), Expect = 7.5
Identities = 10/32 (31%), Positives = 14/32 (43%), Gaps = 1/32 (3%)
Query: 169 EFERLAIPKPKGILLYGPPGCAKTSLVRTLAA 200
E P ++L G G KT L++ LA
Sbjct: 133 TLEEAPAQFPL-VVLGGNTGSGKTELLQALAN 163
>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger. [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 1096
Score = 28.4 bits (63), Expect = 7.5
Identities = 23/91 (25%), Positives = 32/91 (35%), Gaps = 1/91 (1%)
Query: 58 QGRETELPFTKLNEEVELSENVQREEEGIAGENLQRGGGEEGIELREGGQRNGGEGGIGL 117
+ +E + EEVE + E GE GEE +E G+ G
Sbjct: 700 EAKEADHKGETEAEEVEHEGETEAEGTEDEGEIETGEEGEE-VEDEGEGEAEGKHEVETE 758
Query: 118 NERVQRIGEGREERRDWEGEEEGAFVPELGG 148
+R + EG E E E+EG G
Sbjct: 759 GDRKETEHEGETEAEGKEDEDEGEIQAGEDG 789
>gnl|CDD|172749 PRK14261, PRK14261, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 253
Score = 27.9 bits (62), Expect = 7.7
Identities = 11/24 (45%), Positives = 17/24 (70%)
Query: 173 LAIPKPKGILLYGPPGCAKTSLVR 196
++IPK + L GP GC K++L+R
Sbjct: 27 ISIPKNRVTALIGPSGCGKSTLLR 50
>gnl|CDD|227616 COG5297, CelA, Cellobiohydrolase A (1,4-beta-cellobiosidase A)
[Carbohydrate transport and metabolism].
Length = 544
Score = 28.5 bits (63), Expect = 8.0
Identities = 12/36 (33%), Positives = 16/36 (44%), Gaps = 1/36 (2%)
Query: 339 AQNANTANKP-RIQRTKREYREQTADTANKPRIQRI 373
A N +QR KREY + A N P+ + I
Sbjct: 122 ASNGELPLTEEGLQRYKREYIDTIASIFNNPKYKDI 157
>gnl|CDD|227519 COG5192, BMS1, GTP-binding protein required for 40S ribosome
biogenesis [Translation, ribosomal structure and
biogenesis].
Length = 1077
Score = 28.6 bits (63), Expect = 8.0
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 176 PKPKGILLYGPPGCAKTSLVRTL 198
P P + + GPPG K++L+R+L
Sbjct: 67 PPPFIVAVVGPPGTGKSTLIRSL 89
>gnl|CDD|233761 TIGR02173, cyt_kin_arch, cytidylate kinase, putative. Proteins in
this family are believed to be cytidylate kinase.
Members of this family are found in the archaea and in
spirochaetes, and differ considerably from the common
bacterial form of cytidylate kinase described by
TIGR00017.
Length = 171
Score = 27.4 bits (61), Expect = 8.6
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 181 ILLYGPPGCAKTSLVRTLAAHSVYRVLAA 209
I + GPPG KT++ + LA ++++A
Sbjct: 3 ITISGPPGSGKTTVAKILAEKLSLKLISA 31
>gnl|CDD|216506 pfam01443, Viral_helicase1, Viral (Superfamily 1) RNA helicase.
Helicase activity for this family has been demonstrated
and NTPase activity. This helicase has multiple roles at
different stages of viral RNA replication, as dissected
by mutational analysis.
Length = 226
Score = 27.7 bits (62), Expect = 8.7
Identities = 18/72 (25%), Positives = 31/72 (43%), Gaps = 10/72 (13%)
Query: 181 ILLYGPPGCAKTSLVRTLA--AHSVYRVLAASAAQLYSPYVGEAEQNVTQLFHRARLAAP 238
I+++G PGC K++L+R L +V R A+L + + + +A
Sbjct: 1 IVVHGVPGCGKSTLIRKLLRTDLTVIR----PTAELRTEGKPDLPNLNVRTVDTFLMALL 56
Query: 239 A----ILFIDEI 246
IL +DE
Sbjct: 57 KPTGKILILDEY 68
>gnl|CDD|224141 COG1220, HslU, ATP-dependent protease HslVU (ClpYQ), ATPase subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 444
Score = 28.0 bits (63), Expect = 8.7
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 178 PKGILLYGPPGCAKTSLVRTLA 199
PK IL+ GP G KT + R LA
Sbjct: 50 PKNILMIGPTGVGKTEIARRLA 71
>gnl|CDD|224045 COG1120, FepC, ABC-type cobalamin/Fe3+-siderophores transport
systems, ATPase components [Inorganic ion transport and
metabolism / Coenzyme metabolism].
Length = 258
Score = 27.9 bits (63), Expect = 8.9
Identities = 13/29 (44%), Positives = 19/29 (65%), Gaps = 4/29 (13%)
Query: 173 LAIPKPK--GILLYGPPGCAKTSLVRTLA 199
+IPK + GIL GP G K++L++ LA
Sbjct: 23 FSIPKGEITGIL--GPNGSGKSTLLKCLA 49
>gnl|CDD|224337 COG1419, FlhF, Flagellar GTP-binding protein [Cell motility and
secretion].
Length = 407
Score = 28.1 bits (63), Expect = 9.2
Identities = 12/39 (30%), Positives = 17/39 (43%), Gaps = 1/39 (2%)
Query: 168 REFERLAIPKPKGIL-LYGPPGCAKTSLVRTLAAHSVYR 205
I + K ++ L GP G KT+ + LAA V
Sbjct: 192 LSLIENLIVEQKRVIALVGPTGVGKTTTLAKLAARYVML 230
>gnl|CDD|223543 COG0467, RAD55, RecA-superfamily ATPases implicated in signal
transduction [Signal transduction mechanisms].
Length = 260
Score = 27.8 bits (62), Expect = 9.4
Identities = 11/39 (28%), Positives = 16/39 (41%), Gaps = 4/39 (10%)
Query: 169 EFERLAIPKPKGILLYGPPGCAKTSLVRTLAAHSVYRVL 207
E +P+ +L+ GPPG KT A +Y
Sbjct: 14 EILGGGLPRGSVVLITGPPGTGKT----IFALQFLYEGA 48
>gnl|CDD|236153 PRK08116, PRK08116, hypothetical protein; Validated.
Length = 268
Score = 27.7 bits (62), Expect = 9.4
Identities = 33/136 (24%), Positives = 50/136 (36%), Gaps = 35/136 (25%)
Query: 164 FKYAREFERLAIPKPKGILLYGPPGCAKTSLVRTLAAHSV---YRVLAASAAQL------ 214
KY ++FE + + G+LL+G G KT L +A + V+ + QL
Sbjct: 101 RKYVKKFEEMK-KENVGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNFPQLLNRIKS 159
Query: 215 -YSPYVGEAEQNVTQLFHRARLAAPAILFIDEI----------ERTYNC---EYREQTAD 260
Y E E + + A L L +D++ E+ YN YR+
Sbjct: 160 TYKSSGKEDENEIIRSLVNADL-----LILDDLGAERDTEWAREKVYNIIDSRYRKG--- 211
Query: 261 NAKKPRIPRTNGGYRE 276
P I TN E
Sbjct: 212 ---LPTIVTTNLSLEE 224
>gnl|CDD|130679 TIGR01618, phage_P_loop, phage nucleotide-binding protein. This
model represents an uncharacterized family of proteins
from a number of phage of Gram-positive bacteria. This
protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near
its amino end. The function of this protein is unknown
[Mobile and extrachromosomal element functions, Prophage
functions].
Length = 220
Score = 27.5 bits (61), Expect = 10.0
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 181 ILLYGPPGCAKTSLVRTLAAHSV 203
L+YG PG KTS ++ L ++
Sbjct: 15 YLIYGKPGTGKTSTIKYLPGKTL 37
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.314 0.132 0.382
Gapped
Lambda K H
0.267 0.0534 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 19,679,442
Number of extensions: 1920079
Number of successful extensions: 1800
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1772
Number of HSP's successfully gapped: 183
Length of query: 390
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 291
Effective length of database: 6,546,556
Effective search space: 1905047796
Effective search space used: 1905047796
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 60 (27.3 bits)