RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy522
(131 letters)
>gnl|CDD|185575 PTZ00361, PTZ00361, 26 proteosome regulatory subunit 4-like
protein; Provisional.
Length = 438
Score = 282 bits (722), Expect = 7e-96
Identities = 118/131 (90%), Positives = 127/131 (96%)
Query: 1 LFRVAEEHAPSIVFIDEIDAVGTKRYDSNSGGEREIQRTMLELLNQLDGFDSRGDVKVIM 60
LFRVAEE+APSIVFIDEIDA+GTKRYD+ SGGE+EIQRTMLELLNQLDGFDSRGDVKVIM
Sbjct: 268 LFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSRGDVKVIM 327
Query: 61 ATNRIETLDPALIRPGRIDRKIEFPLPDEKTKRRIFNIHTSRMTLAEDVNLQELIMAKDD 120
ATNRIE+LDPALIRPGRIDRKIEFP PDEKTKRRIF IHTS+MTLAEDV+L+E IMAKD+
Sbjct: 328 ATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAEDVDLEEFIMAKDE 387
Query: 121 LSGADIKAICT 131
LSGADIKAICT
Sbjct: 388 LSGADIKAICT 398
>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 406
Score = 247 bits (634), Expect = 7e-83
Identities = 89/131 (67%), Positives = 107/131 (81%)
Query: 1 LFRVAEEHAPSIVFIDEIDAVGTKRYDSNSGGEREIQRTMLELLNQLDGFDSRGDVKVIM 60
LF +A E APSI+FIDEIDA+G KR+DS + G+RE+QRTMLELLNQLDGFD RG+VKVIM
Sbjct: 236 LFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRGNVKVIM 295
Query: 61 ATNRIETLDPALIRPGRIDRKIEFPLPDEKTKRRIFNIHTSRMTLAEDVNLQELIMAKDD 120
ATNR + LDPAL+RPGR DRKIEFPLPDE+ + I IHT +M LA+DV+L+ L +
Sbjct: 296 ATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDVDLELLARLTEG 355
Query: 121 LSGADIKAICT 131
SGAD+KAICT
Sbjct: 356 FSGADLKAICT 366
>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase;
Provisional.
Length = 389
Score = 209 bits (534), Expect = 5e-68
Identities = 79/131 (60%), Positives = 103/131 (78%)
Query: 1 LFRVAEEHAPSIVFIDEIDAVGTKRYDSNSGGEREIQRTMLELLNQLDGFDSRGDVKVIM 60
LF +A E APSI+FIDEIDA+ KR DS + G+RE+QRT+++LL ++DGFD RG+VK+I
Sbjct: 216 LFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRGNVKIIA 275
Query: 61 ATNRIETLDPALIRPGRIDRKIEFPLPDEKTKRRIFNIHTSRMTLAEDVNLQELIMAKDD 120
ATNRI+ LDPA++RPGR DR IE PLPDE+ + I IHT +M LA+DV+L+EL +
Sbjct: 276 ATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVDLEELAELTEG 335
Query: 121 LSGADIKAICT 131
SGAD+KAICT
Sbjct: 336 ASGADLKAICT 346
>gnl|CDD|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like
protein; Provisional.
Length = 398
Score = 197 bits (503), Expect = 2e-63
Identities = 79/130 (60%), Positives = 107/130 (82%)
Query: 1 LFRVAEEHAPSIVFIDEIDAVGTKRYDSNSGGEREIQRTMLELLNQLDGFDSRGDVKVIM 60
+FR+A E+APSI+FIDE+D++ TKR+D+ +G +RE+QR +LELLNQ+DGFD +VKVIM
Sbjct: 230 VFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTNVKVIM 289
Query: 61 ATNRIETLDPALIRPGRIDRKIEFPLPDEKTKRRIFNIHTSRMTLAEDVNLQELIMAKDD 120
ATNR +TLDPAL+RPGR+DRKIEFPLPD + KR IF TS+M L+E+V+L++ + +
Sbjct: 290 ATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEVDLEDFVSRPEK 349
Query: 121 LSGADIKAIC 130
+S ADI AIC
Sbjct: 350 ISAADIAAIC 359
>gnl|CDD|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family. Many
proteins may score above the trusted cutoff because an
internal.
Length = 364
Score = 185 bits (471), Expect = 6e-59
Identities = 78/131 (59%), Positives = 101/131 (77%)
Query: 1 LFRVAEEHAPSIVFIDEIDAVGTKRYDSNSGGEREIQRTMLELLNQLDGFDSRGDVKVIM 60
+F +A+E APSI+FIDEIDA+ KR DS + G+RE+QRT+++LL +LDGFD RG+VKVI
Sbjct: 207 IFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRGNVKVIA 266
Query: 61 ATNRIETLDPALIRPGRIDRKIEFPLPDEKTKRRIFNIHTSRMTLAEDVNLQELIMAKDD 120
ATNR + LDPAL+RPGR DR IE PLPD + + I IHT +M LAEDV+L+ + +
Sbjct: 267 ATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAEDVDLEAIAKMTEG 326
Query: 121 LSGADIKAICT 131
SGAD+KAICT
Sbjct: 327 ASGADLKAICT 337
>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 = 134 bits (340), Expect = 2e-38
Identities = 58/130 (44%), Positives = 81/130 (62%)
Query: 1 LFRVAEEHAPSIVFIDEIDAVGTKRYDSNSGGEREIQRTMLELLNQLDGFDSRGDVKVIM 60
LF A+++AP I+FIDEIDAVG +R GG E ++T+ +LL ++DGF + V VI
Sbjct: 139 LFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTGVIVIA 198
Query: 61 ATNRIETLDPALIRPGRIDRKIEFPLPDEKTKRRIFNIHTSRMTLAEDVNLQELIMAKDD 120
ATNR + LDPAL+RPGR DR++ LPD K + I +H LA DV+L+ +
Sbjct: 199 ATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAPDVDLKAVARRTPG 258
Query: 121 LSGADIKAIC 130
SGAD+ +
Sbjct: 259 FSGADLANLL 268
>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational
modification, protein turnover, chaperones].
Length = 494
Score = 126 bits (319), Expect = 2e-35
Identities = 64/132 (48%), Positives = 81/132 (61%), Gaps = 5/132 (3%)
Query: 1 LFRVAEEHAPSIVFIDEIDAVGTKRYDSNSGGEREIQRTMLELLNQLDGFDSRGDVKVIM 60
LF A + APSI+FIDEID++ + R S G R R + +LL +LDG + V VI
Sbjct: 327 LFEKARKLAPSIIFIDEIDSLASGRGPSEDGSGR---RVVGQLLTELDGIEKAEGVLVIA 383
Query: 61 ATNRIETLDPALIRPGRIDRKIEFPLPDEKTKRRIFNIHTSRM--TLAEDVNLQELIMAK 118
ATNR + LDPAL+RPGR DR I PLPD + + IF IH LAEDV+L+EL
Sbjct: 384 ATNRPDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRDKKPPLAEDVDLEELAEIT 443
Query: 119 DDLSGADIKAIC 130
+ SGADI A+
Sbjct: 444 EGYSGADIAALV 455
Score = 84.5 bits (209), Expect = 3e-20
Identities = 57/127 (44%), Positives = 70/127 (55%), Gaps = 4/127 (3%)
Query: 5 AEEHAPSIVFIDEIDAVGTKRYDSNSGGEREIQRTMLELLNQLDGFDSRGDVKVIMATNR 64
AE+ APSI+FIDEIDA+ KR ER + +L L++ L RG V VI ATNR
Sbjct: 72 AEKLAPSIIFIDEIDALAPKRSSDQGEVERRVVAQLLALMDGL----KRGQVIVIGATNR 127
Query: 65 IETLDPALIRPGRIDRKIEFPLPDEKTKRRIFNIHTSRMTLAEDVNLQELIMAKDDLSGA 124
+ LDPA RPGR DR+IE LPDE + I IHT M L + L SGA
Sbjct: 128 PDGLDPAKRRPGRFDREIEVNLPDEAGRLEILQIHTRLMFLGPPGTGKTLAARTVGKSGA 187
Query: 125 DIKAICT 131
D+ A+
Sbjct: 188 DLGALAK 194
>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 = 125 bits (316), Expect = 1e-34
Identities = 61/130 (46%), Positives = 82/130 (63%), Gaps = 2/130 (1%)
Query: 1 LFRVAEEHAPSIVFIDEIDAVGTKRYDSNSGGEREIQRTMLELLNQLDGFDSRGDVKVIM 60
+FR A + AP+I+F DEIDA+ R R + +LL ++DG +V VI
Sbjct: 538 IFRKARQAAPAIIFFDEIDAIAPAR--GARFDTSVTDRIVNQLLTEMDGIQELSNVVVIA 595
Query: 61 ATNRIETLDPALIRPGRIDRKIEFPLPDEKTKRRIFNIHTSRMTLAEDVNLQELIMAKDD 120
ATNR + LDPAL+RPGR DR I P PDE+ ++ IF IHT M LAEDV+L+EL +
Sbjct: 596 ATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEMTEG 655
Query: 121 LSGADIKAIC 130
+GADI+A+C
Sbjct: 656 YTGADIEAVC 665
Score = 116 bits (293), Expect = 2e-31
Identities = 63/130 (48%), Positives = 85/130 (65%), Gaps = 3/130 (2%)
Query: 1 LFRVAEEHAPSIVFIDEIDAVGTKRYDSNSGGEREIQRTMLELLNQLDGFDSRGDVKVIM 60
+F+ AEE+APSI+FIDEIDA+ KR + GE E +R + +LL +DG RG V VI
Sbjct: 263 IFKEAEENAPSIIFIDEIDAIAPKREEVT--GEVE-KRVVAQLLTLMDGLKGRGRVIVIG 319
Query: 61 ATNRIETLDPALIRPGRIDRKIEFPLPDEKTKRRIFNIHTSRMTLAEDVNLQELIMAKDD 120
ATNR + LDPAL RPGR DR+I +PD++ ++ I +HT M LAEDV+L +L
Sbjct: 320 ATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMPLAEDVDLDKLAEVTHG 379
Query: 121 LSGADIKAIC 130
GAD+ A+
Sbjct: 380 FVGADLAALA 389
>gnl|CDD|223541 COG0465, HflB, ATP-dependent Zn proteases [Posttranslational
modification, protein turnover, chaperones].
Length = 596
Score = 119 bits (300), Expect = 1e-32
Identities = 60/126 (47%), Positives = 82/126 (65%)
Query: 1 LFRVAEEHAPSIVFIDEIDAVGTKRYDSNSGGEREIQRTMLELLNQLDGFDSRGDVKVIM 60
LF A+++AP I+FIDEIDAVG +R GG E ++T+ +LL ++DGF V VI
Sbjct: 234 LFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGNEGVIVIA 293
Query: 61 ATNRIETLDPALIRPGRIDRKIEFPLPDEKTKRRIFNIHTSRMTLAEDVNLQELIMAKDD 120
ATNR + LDPAL+RPGR DR+I LPD K + +I +H LAEDV+L+++
Sbjct: 294 ATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLAEDVDLKKIARGTPG 353
Query: 121 LSGADI 126
SGAD+
Sbjct: 354 FSGADL 359
>gnl|CDD|214386 CHL00176, ftsH, cell division protein; Validated.
Length = 638
Score = 117 bits (296), Expect = 7e-32
Identities = 57/126 (45%), Positives = 80/126 (63%)
Query: 1 LFRVAEEHAPSIVFIDEIDAVGTKRYDSNSGGEREIQRTMLELLNQLDGFDSRGDVKVIM 60
LF+ A+E++P IVFIDEIDAVG +R GG E ++T+ +LL ++DGF V VI
Sbjct: 267 LFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGVIVIA 326
Query: 61 ATNRIETLDPALIRPGRIDRKIEFPLPDEKTKRRIFNIHTSRMTLAEDVNLQELIMAKDD 120
ATNR++ LD AL+RPGR DR+I LPD + + I +H L+ DV+L+ +
Sbjct: 327 ATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKLSPDVSLELIARRTPG 386
Query: 121 LSGADI 126
SGAD+
Sbjct: 387 FSGADL 392
>gnl|CDD|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed.
Length = 644
Score = 106 bits (266), Expect = 6e-28
Identities = 53/126 (42%), Positives = 80/126 (63%)
Query: 1 LFRVAEEHAPSIVFIDEIDAVGTKRYDSNSGGEREIQRTMLELLNQLDGFDSRGDVKVIM 60
+F A++ AP I+FIDEIDAVG +R GG E ++T+ ++L ++DGF+ + VI
Sbjct: 236 MFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIA 295
Query: 61 ATNRIETLDPALIRPGRIDRKIEFPLPDEKTKRRIFNIHTSRMTLAEDVNLQELIMAKDD 120
ATNR + LDPAL+RPGR DR++ LPD + + +I +H R+ LA D++ +
Sbjct: 296 ATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPG 355
Query: 121 LSGADI 126
SGAD+
Sbjct: 356 FSGADL 361
>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 = 96.9 bits (242), Expect = 5e-27
Identities = 47/87 (54%), Positives = 59/87 (67%), Gaps = 5/87 (5%)
Query: 1 LFRVAEEHAPSIVFIDEIDAVGTKRYDSNSGGEREIQRTMLELLNQLDGFDSRGD-VKVI 59
LF A++ AP ++FIDEIDA+ R SGG+ E +R + +LL +LDGF S V VI
Sbjct: 49 LFEAAKKLAPCVIFIDEIDALAGSR---GSGGDSESRRVVNQLLTELDGFTSSLSKVIVI 105
Query: 60 MATNRIETLDPALIRPGRIDRKIEFPL 86
ATNR + LDPAL+R GR DR IEFPL
Sbjct: 106 AATNRPDKLDPALLR-GRFDRIIEFPL 131
>gnl|CDD|224144 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 368
Score = 84.1 bits (208), Expect = 3e-20
Identities = 51/128 (39%), Positives = 68/128 (53%), Gaps = 6/128 (4%)
Query: 1 LFRVAEEHAPSIVFIDEIDAVG-TKRYDSNSGGEREIQRTMLELLNQLDGFDSRGDVKVI 59
L+ A + AP IVFIDE+DA+ +RY G EI LL +LDG V I
Sbjct: 202 LYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNA---LLTELDGIKENEGVVTI 258
Query: 60 MATNRIETLDPALIRPGRIDRKIEFPLPDEKTKRRIFNIHTSRMTLAEDVNLQELIMAKD 119
ATNR E LDPA IR R + +IEF LP+++ + I + + L D +L+ L
Sbjct: 259 AATNRPELLDPA-IR-SRFEEEIEFKLPNDEERLEILEYYAKKFPLPVDADLRYLAAKTK 316
Query: 120 DLSGADIK 127
+SG DIK
Sbjct: 317 GMSGRDIK 324
>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 = 75.5 bits (186), Expect = 5e-17
Identities = 46/128 (35%), Positives = 71/128 (55%), Gaps = 9/128 (7%)
Query: 3 RVAEEHAPSIVFIDEIDAVGTKRYDSNSGGEREIQRTML-ELLNQLDGFDSRGDVKVIMA 61
A E P IVF DE+D++ R SG +++ T++ +LL ++DG +S +V VI A
Sbjct: 283 EKASEGRPVIVFFDEMDSLFRTR---GSGVSSDVETTVVPQLLAEIDGVESLDNVIVIGA 339
Query: 62 TNRIETLDPALIRPGRIDRKIEFPLPDEKTKRRIFNIHTSRMTLAEDVNLQELIMAKDDL 121
+NR + +DPA++RPGR+D KI PD + IF + L +D+ L E + A D
Sbjct: 340 SNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFAKY-----LTDDLPLPEDLAAHDGD 394
Query: 122 SGADIKAI 129
A A+
Sbjct: 395 REATAAAL 402
>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 = 55.2 bits (133), Expect = 1e-10
Identities = 31/87 (35%), Positives = 43/87 (49%), Gaps = 12/87 (13%)
Query: 1 LFRVAEEHAPSIVFIDEIDAVGTKRYDSNSGGEREIQRTMLELLNQL-DGFDSRGDVKVI 59
LF +AE+ P ++FIDEID++ R Q +L +L L D R +V+VI
Sbjct: 76 LFELAEKAKPGVLFIDEIDSLS-----------RGAQNALLRVLETLNDLRIDRENVRVI 124
Query: 60 MATNRIETLDPALIRPGRIDRKIEFPL 86
ATNR D R+D +I PL
Sbjct: 125 GATNRPLLGDLDRALYDRLDIRIVIPL 151
>gnl|CDD|177094 CHL00195, ycf46, Ycf46; Provisional.
Length = 489
Score = 55.0 bits (133), Expect = 7e-10
Identities = 35/128 (27%), Positives = 60/128 (46%), Gaps = 8/128 (6%)
Query: 3 RVAEEHAPSIVFIDEIDAVGTKRYDSN-SGGEREIQRTMLELLNQLDGFDSRGDVKVIMA 61
R+AE +P I++IDEID + SG + T + L++ + V V+
Sbjct: 312 RIAEALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSE-----KKSPVFVVAT 366
Query: 62 TNRIETLDPALIRPGRIDRKIEFPLPDEKTKRRIFNIHTS--RMTLAEDVNLQELIMAKD 119
N I+ L ++R GR D LP + + +IF IH R + ++++L +
Sbjct: 367 ANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKSWKKYDIKKLSKLSN 426
Query: 120 DLSGADIK 127
SGA+I+
Sbjct: 427 KFSGAEIE 434
>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 = 47.4 bits (112), Expect = 1e-07
Identities = 26/88 (29%), Positives = 41/88 (46%), Gaps = 9/88 (10%)
Query: 1 LFRVAEEHAPSIVFIDEIDAVGTKRYDSNSGGEREIQRTMLELLNQLDGFDSRGDVKVIM 60
+A + P ++ +DEI ++ E+E +LE L L S ++ VI+
Sbjct: 70 ALALARKLKPDVLILDEITSLLDA--------EQEALLLLLEELRLLLLLKSEKNLTVIL 121
Query: 61 ATNRIETLDPALIRPGRIDRKIEFPLPD 88
TN + L PAL+R R DR+I L
Sbjct: 122 TTNDEKDLGPALLRR-RFDRRIVLLLIL 148
>gnl|CDD|224141 COG1220, HslU, ATP-dependent protease HslVU (ClpYQ), ATPase subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 444
Score = 31.5 bits (72), Expect = 0.099
Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 3/41 (7%)
Query: 5 AEEHAPSIVFIDEIDAVGTKRYDSNSGGERE-IQRTMLELL 44
AE++ IVFIDEID + + RE +QR +L L+
Sbjct: 248 AEQNG--IVFIDEIDKIAKRGGSGGPDVSREGVQRDLLPLV 286
>gnl|CDD|235364 PRK05201, hslU, ATP-dependent protease ATP-binding subunit HslU;
Provisional.
Length = 443
Score = 30.8 bits (71), Expect = 0.14
Identities = 16/40 (40%), Positives = 24/40 (60%), Gaps = 7/40 (17%)
Query: 5 AEEHAPSIVFIDEIDAVGTKRYDSNSGGE--RE-IQRTML 41
E++ IVFIDEID + + +SG + RE +QR +L
Sbjct: 247 VEQNG--IVFIDEIDKIAAR--GGSSGPDVSREGVQRDLL 282
>gnl|CDD|226135 COG3608, COG3608, Predicted deacylase [General function prediction
only].
Length = 331
Score = 30.4 bits (69), Expect = 0.21
Identities = 20/91 (21%), Positives = 28/91 (30%), Gaps = 14/91 (15%)
Query: 28 SNSGGEREIQRTMLELLNQLDGFDSRGDVKVIMATNRIETLDPALIRPGR------IDRK 81
G E + L+ LD D G V ++ N PA GR +
Sbjct: 56 GVHGDELPGVIALRRLIPALDPADISGTVIIVPIANP-----PAFEAQGRFSPGDDTNLN 110
Query: 82 IEFP-LPDEKTKRRIFNIHTSRMTLAEDVNL 111
FP PD RI + L ++
Sbjct: 111 RAFPGRPDGSATERIADRLKR--LLLPLADI 139
>gnl|CDD|223786 COG0714, COG0714, MoxR-like ATPases [General function prediction
only].
Length = 329
Score = 28.2 bits (63), Expect = 1.1
Identities = 25/122 (20%), Positives = 44/122 (36%), Gaps = 25/122 (20%)
Query: 12 IVFIDEIDAVGTKRYDSNSGGEREIQRTMLELLNQ-------LDGFDSRGDVKVIMATNR 64
I+ +DEI+ E+Q +LE L + L VI N
Sbjct: 115 ILLLDEINRAP-----------PEVQNALLEALEERQVTVPGLTTIRLPPPFIVIATQNP 163
Query: 65 IE-----TLDPALIRPGRIDRKIEFPLPDEKTKRRIFNIHTSRMTLAEDVNLQELIMAKD 119
E L AL+ R +I PD + + RI + + +L + +++ +
Sbjct: 164 GEYEGTYPLPEALLD--RFLLRIYVDYPDSEEEERIILARVGGVDELDLESLVKPVLSDE 221
Query: 120 DL 121
+L
Sbjct: 222 EL 223
>gnl|CDD|165252 PHA02942, PHA02942, putative transposase; Provisional.
Length = 383
Score = 28.1 bits (62), Expect = 1.6
Identities = 13/48 (27%), Positives = 26/48 (54%), Gaps = 8/48 (16%)
Query: 73 IRPGRIDRKIEFPLPDEKTKRRIFNIHTSRMTLAEDVNLQELIMAKDD 120
I+ G+ K+ F +EK K + ++A D+N+ ++++ KDD
Sbjct: 156 IKDGKAFLKVTFEKEEEKIK--------PKDSVAVDINMNDIVVGKDD 195
>gnl|CDD|214019 cd12926, iSH2_PIK3R2, Inter-Src homology 2 (iSH2) helical domain of
Class IA Phosphoinositide 3-kinase Regulatory subunit 2,
PIK3R2, also called p85beta. PI3Ks catalyze the
transfer of the gamma-phosphoryl group from ATP to the
3-hydroxyl of the inositol ring of
D-myo-phosphatidylinositol (PtdIns) or its derivatives.
They play an important role in a variety of fundamental
cellular processes, including cell motility, the Ras
pathway, vesicle trafficking and secretion, immune cell
activation, and apoptosis. They are classified according
to their substrate specificity, regulation, and domain
structure. Class IA PI3Ks are heterodimers of a p110
catalytic (C) subunit and a p85-related regulatory (R)
subunit. The R subunit down-regulates PI3K basal
activity, stabilizes the C subunit, and plays a role in
the activation downstream of tyrosine kinases. All R
subunits contain two SH2 domains that flank an
intervening helical domain (iSH2), which binds to the
N-terminal adaptor-binding domain (ABD) of the catalytic
subunit. p85beta, also called PIK3R2, contains
N-terminal SH3 and GAP domains. It is expressed
ubiquitously but at lower levels than p85alpha. Its
expression is increased in breast and colon cancer,
correlates with tumor progression, and enhanced
invasion. During viral infection, the viral
nonstructural (NS1) protein binds p85beta specifically,
which leads to PI3K activation and the promotion of
viral replication. Mice deficient with PIK3R2 develop
normally and exhibit moderate metabolic and
immunological defects.
Length = 161
Score = 27.7 bits (61), Expect = 1.6
Identities = 22/86 (25%), Positives = 38/86 (44%), Gaps = 5/86 (5%)
Query: 28 SNSGGEREIQRTMLELLNQ-LDGFDSRGDVKVIMATNRIETLDPALIRPGRIDRKIEFPL 86
+ + E +++RT +E N+ + F+ +G + + +E R G L
Sbjct: 32 TRTSQELQMKRTAIEAFNETIKIFEEQGQTQEKCSKEYLERFR----REGNEKEMQRILL 87
Query: 87 PDEKTKRRIFNIHTSRMTLAEDVNLQ 112
E+ K RI IH SR L +D+ Q
Sbjct: 88 NSERLKSRIAEIHESRTKLEQDLRAQ 113
>gnl|CDD|213527 TIGR00390, hslU, ATP-dependent protease HslVU, ATPase subunit.
This model represents the ATPase subunit of HslVU, while
the proteasome-related peptidase subunit is HslV.
Residues 54-61 of the model contain a P-loop ATP-binding
motif. Cys-287 of E. coli (position 308 in the seed
alignment), studied in MEDLINE:98389714, is Ser in other
members of the seed alignment [Protein fate, Protein
folding and stabilization].
Length = 441
Score = 27.1 bits (60), Expect = 2.8
Identities = 15/41 (36%), Positives = 23/41 (56%), Gaps = 3/41 (7%)
Query: 5 AEEHAPSIVFIDEIDAVGTKRYDSNSGGERE-IQRTMLELL 44
E+ I+FIDEID + K S + RE +QR +L ++
Sbjct: 245 VEQSG--IIFIDEIDKIAKKGESSGADVSREGVQRDLLPIV 283
>gnl|CDD|213220 cd03253, ABCC_ATM1_transporter, ATP-binding cassette domain of
iron-sulfur clusters transporter, subfamily C. ATM1 is
an ABC transporter that is expressed in the
mitochondria. Although the specific function of ATM1 is
unknown, its disruption results in the accumulation of
excess mitochondrial iron, loss of mitochondrial
cytochromes, oxidative damage to mitochondrial DNA, and
decreased levels of cytosolic heme proteins. 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 = 236
Score = 26.4 bits (59), Expect = 4.7
Identities = 11/37 (29%), Positives = 19/37 (51%), Gaps = 6/37 (16%)
Query: 9 APSIVFIDEIDAVGTKRYDSNSGGEREIQRTMLELLN 45
P I+ +DE T D+++ EREIQ + ++
Sbjct: 155 NPPILLLDE----ATSALDTHT--EREIQAALRDVSK 185
>gnl|CDD|214018 cd12925, iSH2_PIK3R3, Inter-Src homology 2 (iSH2) helical domain of
Class IA Phosphoinositide 3-kinase Regulatory subunit 3,
PIK3R3, also called p55gamma. PI3Ks catalyze the
transfer of the gamma-phosphoryl group from ATP to the
3-hydroxyl of the inositol ring of
D-myo-phosphatidylinositol (PtdIns) or its derivatives.
They play an important role in a variety of fundamental
cellular processes, including cell motility, the Ras
pathway, vesicle trafficking and secretion, immune cell
activation, and apoptosis. They are classified according
to their substrate specificity, regulation, and domain
structure. Class IA PI3Ks are heterodimers of a p110
catalytic (C) subunit and a p85-related regulatory (R)
subunit. The R subunit down-regulates PI3K basal
activity, stabilizes the C subunit, and plays a role in
the activation downstream of tyrosine kinases. All R
subunits contain two SH2 domains that flank an
intervening helical domain (iSH2), which binds to the
N-terminal adaptor-binding domain (ABD) of the catalytic
subunit. p55gamma, also called PIK3R3 or p55PIK, also
contains a unique N-terminal 24-amino acid residue (N24)
that interacts with cell cycle modulators to promote
cell cycle progression.
Length = 161
Score = 25.8 bits (56), Expect = 6.8
Identities = 33/120 (27%), Positives = 55/120 (45%), Gaps = 26/120 (21%)
Query: 16 DEIDAVG-------------TKRYD------SNSGGEREIQRTMLELLNQ-LDGFDSRGD 55
D IDAVG +K YD + + E +++RT +E N+ + F+ +
Sbjct: 1 DNIDAVGRKLQEYHSQYQEKSKEYDRLYEEYTKTSQEIQMKRTAIEAFNETIKIFEEQCH 60
Query: 56 VKVIMATNRIETLDPALIRPGRIDRKIEFPLPD-EKTKRRIFNIHTSRMTLAEDVNLQEL 114
+ + IE R G +++IE + + EK K R+ IH S+M L +D+ Q L
Sbjct: 61 TQERYSKEYIERFR----REGN-EKEIERIMMNYEKLKSRLGEIHDSKMRLEQDLKTQAL 115
>gnl|CDD|215558 PLN03073, PLN03073, ABC transporter F family; Provisional.
Length = 718
Score = 26.0 bits (57), Expect = 6.8
Identities = 12/32 (37%), Positives = 18/32 (56%), Gaps = 3/32 (9%)
Query: 59 IMATNRIETLDPALIRPGRIDRKIEFPLPDEK 90
I A +R+ +D + P D K EFP PD++
Sbjct: 475 IKALDRLGHVDAVVNDP---DYKFEFPTPDDR 503
>gnl|CDD|235561 PRK05686, fliG, flagellar motor switch protein G; Validated.
Length = 339
Score = 25.9 bits (58), Expect = 8.1
Identities = 25/96 (26%), Positives = 37/96 (38%), Gaps = 31/96 (32%)
Query: 37 QRTMLELLNQLDGFDSRGDVKVIMATNRIETLDPALIRPGRIDRKIEFPLPDEKTKRRIF 96
+T+ E+LN LD R K I+ + +E DP L EK K +F
Sbjct: 204 VKTVAEILNNLD----RQTEKTILES--LEEEDPELA---------------EKIKDLMF 242
Query: 97 ---NI----HTSRMTLAEDVNLQELIMAKDDLSGAD 125
++ S L +V+ L +A L GA
Sbjct: 243 VFEDLVDLDDRSIQRLLREVDNDVLALA---LKGAS 275
>gnl|CDD|238541 cd01121, Sms, Sms (bacterial radA) DNA repair protein. This protein
is not related to archael radA any more than is to other
RecA-like NTPases. Sms has a role in recombination and
recombinational repair and is responsible for the
stabilization or processing of branched DNA molecules.
Length = 372
Score = 25.7 bits (57), Expect = 8.4
Identities = 12/43 (27%), Positives = 18/43 (41%)
Query: 3 RVAEEHAPSIVFIDEIDAVGTKRYDSNSGGEREIQRTMLELLN 45
EE P +V ID I V + S G +++ EL+
Sbjct: 152 ASIEELKPDLVIIDSIQTVYSSELTSAPGSVSQVRECTAELMR 194
>gnl|CDD|214396 CHL00206, ycf2, Ycf2; Provisional.
Length = 2281
Score = 25.6 bits (56), Expect = 9.9
Identities = 22/86 (25%), Positives = 41/86 (47%), Gaps = 12/86 (13%)
Query: 2 FRVAEEHAPSIVFIDEIDAVGTKRYDSNSGGEREIQRTMLELLNQLDGFDSRGDVK---V 58
F +A+ +P I++I I + +SN ++ L+N L R + V
Sbjct: 1725 FELAKAMSPCIIWIPNIHDLNVN--ESNY-------LSLGLLVNSLSRDCERCSTRNILV 1775
Query: 59 IMATNRIETLDPALIRPGRIDRKIEF 84
I +T+ + +DPALI P +++ I+
Sbjct: 1776 IASTHIPQKVDPALIAPNKLNTCIKI 1801
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
0.320 0.138 0.384
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: 6,957,151
Number of extensions: 637712
Number of successful extensions: 639
Number of sequences better than 10.0: 1
Number of HSP's gapped: 625
Number of HSP's successfully gapped: 63
Length of query: 131
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 45
Effective length of database: 7,123,158
Effective search space: 320542110
Effective search space used: 320542110
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: 53 (24.6 bits)