RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3629
(358 letters)
>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 = 157 bits (398), Expect = 1e-42
Identities = 117/365 (32%), Positives = 170/365 (46%), Gaps = 67/365 (18%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRSY 60
MDG++ ++VIG TNR D +D AL RPGR + ++ I +P++ R +IL++HT M
Sbjct: 306 MDGLKGRGRVIVIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNM--- 362
Query: 61 KKLADDVNLKELAALTKNFSGAELEGLVRAAQSCAMNRLIKATNKVEVDPQA-------L 113
LA+DV+L +LA +T F GA+L L + A A+ R I + +++ +A L
Sbjct: 363 -PLAEDVDLDKLAEVTHGFVGADLAALAKEAAMAALRRFI---REGKINFEAEEIPAEVL 418
Query: 114 EKLCITRADFLHALETDIKPAFGSSDESLEHFLSRGILNWGTPVQECLEAGRIFIQQSKD 173
++L +T DF+ AL K
Sbjct: 419 KELKVTMKDFMEAL--------------------------------------------KM 434
Query: 174 TESSGLVSVLLEVDKVPTDELSLSNFAAANKDDFVE-DTKHIEVTTGPG-RHYIFTLAYS 231
E S + VL+EV V ++ + VE KH E+ G R L +
Sbjct: 435 VEPSAIREVLVEVPNVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFG 494
Query: 232 PDVKRGFIGFSLLQRKWAELSLHQDIDVK-PFFFNP-KNTSEFLCTIILEAGPNSGLHII 289
P G +LL + A S I V+ P + SE I + II
Sbjct: 495 PPGT----GKTLLAKAVATESGANFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAII 550
Query: 290 IFDEIDAICKARGTAGGNTGVHDTVVNQLLSKMDGVERLNNILVIGMTNRRDMIDEALLR 349
FDEIDAI ARG T V D +VNQLL++MDG++ L+N++VI TNR D++D ALLR
Sbjct: 551 FFDEIDAIAPARGARFD-TSVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLR 609
Query: 350 PGRLE 354
PGR +
Sbjct: 610 PGRFD 614
Score = 111 bits (279), Expect = 8e-27
Identities = 53/142 (37%), Positives = 86/142 (60%), Gaps = 8/142 (5%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRSY 60
MDG++ L+N++VI TNR D++D ALLRPGR + + + P+E+ R +I +IHT M
Sbjct: 582 MDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSM--- 638
Query: 61 KKLADDVNLKELAALTKNFSGAELEGLVRAAQSCAMNRLIKATNK---VEVDPQALEKLC 117
LA+DV+L+ELA +T+ ++GA++E + R A A+ I + K + + L+ L
Sbjct: 639 -PLAEDVDLEELAEMTEGYTGADIEAVCREAAMAALRESIGSPAKEKLEVGEEEFLKDLK 697
Query: 118 ITRADFLHALETDIKPAFGSSD 139
+ FL AL+ +KP+ D
Sbjct: 698 VEMRHFLEALKK-VKPSVSKED 718
Score = 65.7 bits (160), Expect = 1e-11
Identities = 39/86 (45%), Positives = 48/86 (55%), Gaps = 3/86 (3%)
Query: 269 TSEFLCTIILEAGPNSGLHIIIFDEIDAICKARGTAGGNTGVHDTVVNQLLSKMDGVERL 328
+ E L I EA N+ II DEIDAI R G V VV QLL+ MDG++
Sbjct: 256 SEERLREIFKEAEENAP-SIIFIDEIDAIAPKREEVTGE--VEKRVVAQLLTLMDGLKGR 312
Query: 329 NNILVIGMTNRRDMIDEALLRPGRLE 354
++VIG TNR D +D AL RPGR +
Sbjct: 313 GRVIVIGATNRPDALDPALRRPGRFD 338
>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase;
Provisional.
Length = 389
Score = 119 bits (300), Expect = 2e-30
Identities = 53/128 (41%), Positives = 76/128 (59%), Gaps = 19/128 (14%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRSY 60
MDG + N+ +I TNR D++D A+LRPGR + +E+ LP+E+GR++IL+IHT KM
Sbjct: 262 MDGFDPRGNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKM--- 318
Query: 61 KKLADDVNLKELAALTKNFSGAELEGLVRAAQSCAMNRLIKATNKVEVDPQALEKLCITR 120
LADDV+L+ELA LT+ SGA+L+ + A M + +V T
Sbjct: 319 -NLADDVDLEELAELTEGASGADLKAICTEA---GMFAIRDDRTEV------------TM 362
Query: 121 ADFLHALE 128
DFL A+E
Sbjct: 363 EDFLKAIE 370
Score = 74.1 bits (183), Expect = 1e-14
Identities = 34/68 (50%), Positives = 46/68 (67%), Gaps = 6/68 (8%)
Query: 289 IIF-DEIDAICKARGTAGGNTG---VHDTVVNQLLSKMDGVERLNNILVIGMTNRRDMID 344
IIF DEIDAI A+ T G +G V T++ QLL++MDG + N+ +I TNR D++D
Sbjct: 227 IIFIDEIDAI-AAKRTDSGTSGDREVQRTLM-QLLAEMDGFDPRGNVKIIAATNRIDILD 284
Query: 345 EALLRPGR 352
A+LRPGR
Sbjct: 285 PAILRPGR 292
>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 406
Score = 113 bits (284), Expect = 4e-28
Identities = 52/115 (45%), Positives = 71/115 (61%), Gaps = 13/115 (11%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRSY 60
+DG + N+ VI TNR D++D ALLRPGR + ++E LP+E+GR +IL+IHT KM
Sbjct: 282 LDGFDPRGNVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKM--- 338
Query: 61 KKLADDVNLKELAALTKNFSGAELEGLVRAAQSCA---------MNRLIKATNKV 106
LADDV+L+ LA LT+ FSGA+L+ + A A M +KA KV
Sbjct: 339 -NLADDVDLELLARLTEGFSGADLKAICTEAGMFAIRERRDEVTMEDFLKAVEKV 392
Score = 73.1 bits (180), Expect = 2e-14
Identities = 31/68 (45%), Positives = 42/68 (61%), Gaps = 3/68 (4%)
Query: 288 IIIFDEIDAICKAR--GTAGGNTGVHDTVVNQLLSKMDGVERLNNILVIGMTNRRDMIDE 345
II DEIDAI R G+ V T++ +LL+++DG + N+ VI TNR D++D
Sbjct: 247 IIFIDEIDAIGAKRFDSGTSGDREVQRTML-ELLNQLDGFDPRGNVKVIMATNRPDILDP 305
Query: 346 ALLRPGRL 353
ALLRPGR
Sbjct: 306 ALLRPGRF 313
>gnl|CDD|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family. Many
proteins may score above the trusted cutoff because an
internal.
Length = 364
Score = 102 bits (257), Expect = 9e-25
Identities = 49/128 (38%), Positives = 76/128 (59%), Gaps = 19/128 (14%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRSY 60
+DG + N+ VI TNR D++D ALLRPGR + +E+ LP+ +GR++IL+IHT KM
Sbjct: 253 LDGFDPRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKM--- 309
Query: 61 KKLADDVNLKELAALTKNFSGAELEGLVRAAQSCAMNRLIKATNKVEVDPQALEKLCITR 120
KLA+DV+L+ +A +T+ SGA+L+ + A A+ E+ +T
Sbjct: 310 -KLAEDVDLEAIAKMTEGASGADLKAICTEAGMFAIRE---------------ERDYVTM 353
Query: 121 ADFLHALE 128
DF+ A+E
Sbjct: 354 DDFIKAVE 361
Score = 66.0 bits (161), Expect = 6e-12
Identities = 32/69 (46%), Positives = 43/69 (62%), Gaps = 3/69 (4%)
Query: 288 IIIFDEIDAICKAR--GTAGGNTGVHDTVVNQLLSKMDGVERLNNILVIGMTNRRDMIDE 345
II DEIDAI R G+ V T++ QLL+++DG + N+ VI TNR D++D
Sbjct: 218 IIFIDEIDAIAAKRTDSGTSGDREVQRTLM-QLLAELDGFDPRGNVKVIAATNRPDILDP 276
Query: 346 ALLRPGRLE 354
ALLRPGR +
Sbjct: 277 ALLRPGRFD 285
>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational
modification, protein turnover, chaperones].
Length = 494
Score = 102 bits (257), Expect = 3e-24
Identities = 51/133 (38%), Positives = 78/133 (58%), Gaps = 17/133 (12%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRSY 60
+DG+E+ +LVI TNR D +D ALLRPGR + + + LP+ + R++I +IH +
Sbjct: 370 LDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRDKK-- 427
Query: 61 KKLADDVNLKELAALTKNFSGAELEGLVRAAQSCAMNRLIKATNKVEVDPQALEKLCITR 120
LA+DV+L+ELA +T+ +SGA++ LVR A +E +A + +T
Sbjct: 428 PPLAEDVDLEELAEITEGYSGADIAALVREA-------------ALEALREARRRE-VTL 473
Query: 121 ADFLHALETDIKP 133
DFL AL+ IKP
Sbjct: 474 DDFLDALKK-IKP 485
Score = 80.6 bits (199), Expect = 1e-16
Identities = 32/67 (47%), Positives = 42/67 (62%), Gaps = 2/67 (2%)
Query: 288 IIIFDEIDAICKARGTAGGNTGVHDTVVNQLLSKMDGVERLNNILVIGMTNRRDMIDEAL 347
II DEID++ RG G VV QLL+++DG+E+ +LVI TNR D +D AL
Sbjct: 338 IIFIDEIDSLASGRGP--SEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPAL 395
Query: 348 LRPGRLE 354
LRPGR +
Sbjct: 396 LRPGRFD 402
Score = 78.3 bits (193), Expect = 7e-16
Identities = 50/128 (39%), Positives = 69/128 (53%), Gaps = 14/128 (10%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRSY 60
MDG++R ++VIG TNR D +D A RPGR + ++E++LP+E GR++ILQIHT M
Sbjct: 111 MDGLKRGQ-VIVIGATNRPDGLDPAKRRPGRFDREIEVNLPDEAGRLEILQIHTRLM--- 166
Query: 61 KKLADDVNLKELAALTKNFSGAELEGLVRAAQSCAMNRLIKATNKVEVDPQALEKLCITR 120
L K LAA T SGA+L L + A + R I E + +T
Sbjct: 167 -FLGPPGTGKTLAARTVGKSGADLGALAKEAALRELRRAID---------LVGEYIGVTE 216
Query: 121 ADFLHALE 128
DF AL+
Sbjct: 217 DDFEEALK 224
Score = 54.4 bits (131), Expect = 4e-08
Identities = 35/85 (41%), Positives = 45/85 (52%), Gaps = 4/85 (4%)
Query: 271 EFLCTIILEAGPNSGLHIIIFDEIDAICKARGTAGGNTGVHDTVVNQLLSKMDGVERLNN 330
L + EA II DEIDA+ R + G V VV QLL+ MDG++R
Sbjct: 63 LRLRELFEEA-EKLAPSIIFIDEIDALAPKRSSDQG--EVERRVVAQLLALMDGLKRGQ- 118
Query: 331 ILVIGMTNRRDMIDEALLRPGRLEV 355
++VIG TNR D +D A RPGR +
Sbjct: 119 VIVIGATNRPDGLDPAKRRPGRFDR 143
>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 = 97.7 bits (244), Expect = 2e-22
Identities = 44/115 (38%), Positives = 67/115 (58%), Gaps = 5/115 (4%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRSY 60
MDG ++VI TNR D++D ALLRPGR + Q+ + LP+ GR +IL++H
Sbjct: 185 MDGFGTNTGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKN---- 240
Query: 61 KKLADDVNLKELAALTKNFSGAELEGLVRAAQSCAMNRLIKATNKVEVDPQALEK 115
KKLA DV+LK +A T FSGA+L L+ A A + +++ +A+++
Sbjct: 241 KKLAPDVDLKAVARRTPGFSGADLANLLNEAALLAARKNKTEITMNDIE-EAIDR 294
Score = 72.7 bits (179), Expect = 5e-14
Identities = 34/67 (50%), Positives = 42/67 (62%), Gaps = 3/67 (4%)
Query: 288 IIIFDEIDAICKARGT--AGGNTGVHDTVVNQLLSKMDGVERLNNILVIGMTNRRDMIDE 345
II DEIDA+ + RG GGN T+ NQLL +MDG ++VI TNR D++D
Sbjct: 150 IIFIDEIDAVGRQRGAGLGGGNDEREQTL-NQLLVEMDGFGTNTGVIVIAATNRPDVLDP 208
Query: 346 ALLRPGR 352
ALLRPGR
Sbjct: 209 ALLRPGR 215
>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 = 93.2 bits (232), Expect = 7e-21
Identities = 38/68 (55%), Positives = 55/68 (80%), Gaps = 1/68 (1%)
Query: 288 IIIFDEIDAICKARGTAGGNTGVHDTVVNQLLSKMDGVERLNNILVIGMTNRRDMIDEAL 347
I+ FDE+D++ + RG+ G ++ V TVV QLL+++DGVE L+N++VIG +NR DMID A+
Sbjct: 292 IVFFDEMDSLFRTRGS-GVSSDVETTVVPQLLAEIDGVESLDNVIVIGASNREDMIDPAI 350
Query: 348 LRPGRLEV 355
LRPGRL+V
Sbjct: 351 LRPGRLDV 358
Score = 67.4 bits (165), Expect = 2e-12
Identities = 33/83 (39%), Positives = 49/83 (59%), Gaps = 10/83 (12%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRSY 60
+DGVE L+N++VIG +NR DMID A+LRPGRL++++ I P+ + I
Sbjct: 325 IDGVESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIF---------A 375
Query: 61 KKLADDVNL-KELAALTKNFSGA 82
K L DD+ L ++LAA +
Sbjct: 376 KYLTDDLPLPEDLAAHDGDREAT 398
>gnl|CDD|214386 CHL00176, ftsH, cell division protein; Validated.
Length = 638
Score = 92.0 bits (229), Expect = 2e-20
Identities = 45/116 (38%), Positives = 69/116 (59%), Gaps = 5/116 (4%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRSY 60
MDG + ++VI TNR D++D ALLRPGR + Q+ +SLP+ +GR+ IL++H
Sbjct: 313 MDGFKGNKGVIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARN---- 368
Query: 61 KKLADDVNLKELAALTKNFSGAELEGLVRAAQSCAMNRLIKATNKVEVDPQALEKL 116
KKL+ DV+L+ +A T FSGA+L L+ A R E+D A++++
Sbjct: 369 KKLSPDVSLELIARRTPGFSGADLANLLNEAAILTARRKKATITMKEID-TAIDRV 423
Score = 75.9 bits (187), Expect = 5e-15
Identities = 31/66 (46%), Positives = 43/66 (65%), Gaps = 1/66 (1%)
Query: 288 IIIFDEIDAICKARGTA-GGNTGVHDTVVNQLLSKMDGVERLNNILVIGMTNRRDMIDEA 346
I+ DEIDA+ + RG GG + +NQLL++MDG + ++VI TNR D++D A
Sbjct: 278 IVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGVIVIAATNRVDILDAA 337
Query: 347 LLRPGR 352
LLRPGR
Sbjct: 338 LLRPGR 343
>gnl|CDD|223541 COG0465, HflB, ATP-dependent Zn proteases [Posttranslational
modification, protein turnover, chaperones].
Length = 596
Score = 86.6 bits (215), Expect = 1e-18
Identities = 48/122 (39%), Positives = 70/122 (57%), Gaps = 15/122 (12%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRSY 60
MDG ++VI TNR D++D ALLRPGR + Q+ + LP+ GR QIL++H
Sbjct: 280 MDGFGGNEGVIVIAATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHA----KN 335
Query: 61 KKLADDVNLKELAALTKNFSGAELEGLV-RAAQSCAMNRLIKATNKVEVD----PQALEK 115
K LA+DV+LK++A T FSGA+L L+ AA A NK E+ +A+++
Sbjct: 336 KPLAEDVDLKKIARGTPGFSGADLANLLNEAALLAARR------NKKEITMRDIEEAIDR 389
Query: 116 LC 117
+
Sbjct: 390 VI 391
Score = 69.3 bits (170), Expect = 7e-13
Identities = 32/66 (48%), Positives = 41/66 (62%), Gaps = 1/66 (1%)
Query: 288 IIIFDEIDAICKARGTA-GGNTGVHDTVVNQLLSKMDGVERLNNILVIGMTNRRDMIDEA 346
II DEIDA+ + RG GG + +NQLL +MDG ++VI TNR D++D A
Sbjct: 245 IIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGNEGVIVIAATNRPDVLDPA 304
Query: 347 LLRPGR 352
LLRPGR
Sbjct: 305 LLRPGR 310
>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 = 78.0 bits (193), Expect = 1e-17
Identities = 33/80 (41%), Positives = 46/80 (57%), Gaps = 4/80 (5%)
Query: 277 ILEAGPNSGLHIIIFDEIDAICKARGTAGGNTGVHDTVVNQLLSKMDGVE-RLNNILVIG 335
+ EA +I DEIDA+ +RG+ G VVNQLL+++DG L+ ++VI
Sbjct: 49 LFEAAKKLAPCVIFIDEIDALAGSRGS--GGDSESRRVVNQLLTELDGFTSSLSKVIVIA 106
Query: 336 MTNRRDMIDEALLRPGRLEV 355
TNR D +D ALLR GR +
Sbjct: 107 ATNRPDKLDPALLR-GRFDR 125
Score = 45.3 bits (108), Expect = 4e-06
Identities = 18/41 (43%), Positives = 25/41 (60%), Gaps = 2/41 (4%)
Query: 1 MDGVE-RLNNILVIGMTNRRDMIDEALLRPGRLELQMEISL 40
+DG L+ ++VI TNR D +D ALLR GR + +E L
Sbjct: 92 LDGFTSSLSKVIVIAATNRPDKLDPALLR-GRFDRIIEFPL 131
>gnl|CDD|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed.
Length = 644
Score = 74.3 bits (182), Expect = 2e-14
Identities = 41/91 (45%), Positives = 56/91 (61%), Gaps = 4/91 (4%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRSY 60
MDG E I+VI TNR D++D ALLRPGR + Q+ + LP+ GR QIL++H ++
Sbjct: 282 MDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRV--- 338
Query: 61 KKLADDVNLKELAALTKNFSGAELEGLVRAA 91
LA D++ +A T FSGA+L LV A
Sbjct: 339 -PLAPDIDAAIIARGTPGFSGADLANLVNEA 368
Score = 65.4 bits (159), Expect = 1e-11
Identities = 33/68 (48%), Positives = 43/68 (63%), Gaps = 1/68 (1%)
Query: 288 IIIFDEIDAICKARGTA-GGNTGVHDTVVNQLLSKMDGVERLNNILVIGMTNRRDMIDEA 346
II DEIDA+ + RG GG + +NQ+L +MDG E I+VI TNR D++D A
Sbjct: 247 IIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPA 306
Query: 347 LLRPGRLE 354
LLRPGR +
Sbjct: 307 LLRPGRFD 314
>gnl|CDD|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like
protein; Provisional.
Length = 398
Score = 71.7 bits (176), Expect = 8e-14
Identities = 37/109 (33%), Positives = 61/109 (55%), Gaps = 6/109 (5%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRSY 60
MDG ++ N+ VI TNR D +D ALLRPGRL+ ++E LP+ + I Q T+KM
Sbjct: 276 MDGFDQTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKM--- 332
Query: 61 KKLADDVNLKELAALTKNFSGAELEGLVRAA--QSCAMNRLIKATNKVE 107
L+++V+L++ + + S A++ + + A Q+ NR + E
Sbjct: 333 -NLSEEVDLEDFVSRPEKISAADIAAICQEAGMQAVRKNRYVILPKDFE 380
Score = 59.4 bits (144), Expect = 7e-10
Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 3/69 (4%)
Query: 288 IIIFDEIDAICKARGTA--GGNTGVHDTVVNQLLSKMDGVERLNNILVIGMTNRRDMIDE 345
II DE+D+I R A G + V ++ +LL++MDG ++ N+ VI TNR D +D
Sbjct: 241 IIFIDEVDSIATKRFDAQTGADREVQRILL-ELLNQMDGFDQTTNVKVIMATNRADTLDP 299
Query: 346 ALLRPGRLE 354
ALLRPGRL+
Sbjct: 300 ALLRPGRLD 308
>gnl|CDD|185575 PTZ00361, PTZ00361, 26 proteosome regulatory subunit 4-like
protein; Provisional.
Length = 438
Score = 70.6 bits (173), Expect = 2e-13
Identities = 37/105 (35%), Positives = 62/105 (59%), Gaps = 5/105 (4%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRSY 60
+DG + ++ VI TNR + +D AL+RPGR++ ++E P+E + +I +IHT+KM
Sbjct: 314 LDGFDSRGDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKM--- 370
Query: 61 KKLADDVNLKELAALTKNFSGAELEGLVRAAQSCAM-NRLIKATN 104
LA+DV+L+E SGA+++ + A A+ R +K T
Sbjct: 371 -TLAEDVDLEEFIMAKDELSGADIKAICTEAGLLALRERRMKVTQ 414
Score = 54.4 bits (131), Expect = 3e-08
Identities = 28/69 (40%), Positives = 45/69 (65%), Gaps = 3/69 (4%)
Query: 288 IIIFDEIDAICKAR--GTAGGNTGVHDTVVNQLLSKMDGVERLNNILVIGMTNRRDMIDE 345
I+ DEIDAI R T+GG + T++ +LL+++DG + ++ VI TNR + +D
Sbjct: 279 IVFIDEIDAIGTKRYDATSGGEKEIQRTML-ELLNQLDGFDSRGDVKVIMATNRIESLDP 337
Query: 346 ALLRPGRLE 354
AL+RPGR++
Sbjct: 338 ALIRPGRID 346
>gnl|CDD|215012 smart01073, CDC48_N, Cell division protein 48 (CDC48) N-terminal
domain. This domain has a double psi-beta barrel fold
and includes VCP-like ATPase and N-ethylmaleimide
sensitive fusion protein N-terminal domains. Both the
VAT and NSF N-terminal functional domains consist of two
structural domains of which this is at the N-terminus.
The VAT-N domain found in AAA ATPases is a substrate
185-residue recognition domain.
Length = 82
Score = 52.2 bits (126), Expect = 5e-09
Identities = 18/85 (21%), Positives = 35/85 (41%), Gaps = 9/85 (10%)
Query: 184 LEVDKVPTDELSLSNFAAANKDDF----VEDTKHIEVTTGPGRHYIFTLAYS--PDVKRG 237
L V + P+DE A + +D + ++ +T G+ + + P+ G
Sbjct: 1 LRVAEAPSDEDVGRGIARLSPEDMDELGLFPGDYVLIT---GKRRTVAIVWPAYPEDPGG 57
Query: 238 FIGFSLLQRKWAELSLHQDIDVKPF 262
I +QRK A +S+ + V+
Sbjct: 58 IIRIDGVQRKNAGVSIGDTVTVRKA 82
>gnl|CDD|216993 pfam02359, CDC48_N, Cell division protein 48 (CDC48), N-terminal
domain. This domain has a double psi-beta barrel fold
and includes VCP-like ATPase and N-ethylmaleimide
sensitive fusion protein N-terminal domains. Both the
VAT and NSF N-terminal functional domains consist of two
structural domains of which this is at the N-terminus.
The VAT-N domain found in AAA ATPases pfam00004 is a
substrate 185-residue recognition domain.
Length = 84
Score = 49.5 bits (119), Expect = 5e-08
Identities = 19/84 (22%), Positives = 32/84 (38%), Gaps = 6/84 (7%)
Query: 184 LEVDKVPTDELSLSNFAAANKDDFVE-DTKHIEVTTGPGRH----YIFTLAYSPDVKRGF 238
L V + P D A + D E ++ G+ ++ A D G
Sbjct: 1 LRVAEAPNDRDVGRGIARLSPKDMDELGLFPGDIVEIKGKRRTVAIVWP-ARPEDEGPGI 59
Query: 239 IGFSLLQRKWAELSLHQDIDVKPF 262
I +QRK A +S+ ++ V+P
Sbjct: 60 IRMDGVQRKNAGVSIGDEVTVRPA 83
>gnl|CDD|177094 CHL00195, ycf46, Ycf46; Provisional.
Length = 489
Score = 53.9 bits (130), Expect = 6e-08
Identities = 28/83 (33%), Positives = 48/83 (57%), Gaps = 6/83 (7%)
Query: 5 ERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMR--SYKK 62
E+ + + V+ N D++ +LR GR + + LP+ + R +I +IH K R S+KK
Sbjct: 356 EKKSPVFVVATANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKSWKK 415
Query: 63 LADDVNLKELAALTKNFSGAELE 85
++K+L+ L+ FSGAE+E
Sbjct: 416 Y----DIKKLSKLSNKFSGAEIE 434
>gnl|CDD|224144 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 368
Score = 52.9 bits (127), Expect = 9e-08
Identities = 28/84 (33%), Positives = 49/84 (58%), Gaps = 6/84 (7%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISLPNEDGRVQILQIHTAKMRSY 60
+DG++ ++ I TNR +++D A+ R E ++E LPN++ R++IL+ + K
Sbjct: 246 LDGIKENEGVVTIAATNRPELLDPAI--RSRFEEEIEFKLPNDEERLEILEYYAKKF--- 300
Query: 61 KKLADDVNLKELAALTKNFSGAEL 84
L D +L+ LAA TK SG ++
Sbjct: 301 -PLPVDADLRYLAAKTKGMSGRDI 323
Score = 41.7 bits (98), Expect = 3e-04
Identities = 20/60 (33%), Positives = 35/60 (58%), Gaps = 1/60 (1%)
Query: 288 IIIFDEIDAICKARGTAGGNTGVHDTVVNQLLSKMDGVERLNNILVIGMTNRRDMIDEAL 347
I+ DE+DAI R V + +VN LL+++DG++ ++ I TNR +++D A+
Sbjct: 213 IVFIDELDAIALDRRYQELRGDVSE-IVNALLTELDGIKENEGVVTIAATNRPELLDPAI 271
>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 = 43.7 bits (103), Expect = 2e-05
Identities = 18/76 (23%), Positives = 31/76 (40%), Gaps = 9/76 (11%)
Query: 279 EAGPNSGLHIIIFDEIDAICKARGTAGGNTGVHDTVVNQLLSKMDGVERLNNILVIGMTN 338
E + ++ DEID++ + G + ++ L + D N+ VIG TN
Sbjct: 78 ELAEKAKPGVLFIDEIDSL---------SRGAQNALLRVLETLNDLRIDRENVRVIGATN 128
Query: 339 RRDMIDEALLRPGRLE 354
R + D RL+
Sbjct: 129 RPLLGDLDRALYDRLD 144
Score = 29.4 bits (66), Expect = 1.6
Identities = 13/40 (32%), Positives = 19/40 (47%)
Query: 1 MDGVERLNNILVIGMTNRRDMIDEALLRPGRLELQMEISL 40
D N+ VIG TNR + D RL++++ I L
Sbjct: 112 NDLRIDRENVRVIGATNRPLLGDLDRALYDRLDIRIVIPL 151
>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 = 32.0 bits (72), Expect = 0.20
Identities = 16/63 (25%), Positives = 27/63 (42%), Gaps = 7/63 (11%)
Query: 288 IIIFDEIDAICKARGTAGGNTGVHDTVVNQLLSKMDGVERLNNILVIGMTNRRDMIDEAL 347
++I DEI ++ A A + + L + ++ N+ VI TN + AL
Sbjct: 81 VLILDEITSLLDAEQEALLL-------LLEELRLLLLLKSEKNLTVILTTNDEKDLGPAL 133
Query: 348 LRP 350
LR
Sbjct: 134 LRR 136
>gnl|CDD|220154 pfam09250, Prim-Pol, Bifunctional DNA primase/polymerase,
N-terminal. Members of this family adopt a structure
consisting of a core of antiparallel beta sheets. They
are found in various bacterial hypothetical proteins,
and have been shown to harbour both primase and
polymerase activities.
Length = 160
Score = 30.1 bits (68), Expect = 0.89
Identities = 18/63 (28%), Positives = 28/63 (44%), Gaps = 6/63 (9%)
Query: 174 TESSGLVSVLLEVDKVPTDELSLSNFAAANKDDFVEDTKHIEVTTGPGRHYIFTLAYSPD 233
T SGLV + ++D +L+ AA + T + T GRH F + P+
Sbjct: 53 TGRSGLVVI--DID-TKEGGDALAALEAAGGP--LPPT-LVVRTPSGGRHLYFRVPDGPE 106
Query: 234 VKR 236
+KR
Sbjct: 107 LKR 109
>gnl|CDD|182611 PRK10642, PRK10642, proline/glycine betaine transporter;
Provisional.
Length = 490
Score = 30.4 bits (69), Expect = 1.4
Identities = 11/16 (68%), Positives = 12/16 (75%)
Query: 225 IFTLAYSPDVKRGFIG 240
IF YSPD KRGF+G
Sbjct: 141 IFVAEYSPDRKRGFMG 156
>gnl|CDD|238124 cd00203, ZnMc, Zinc-dependent metalloprotease. This super-family of
metalloproteases contains two major branches, the
astacin-like proteases and the
adamalysin/reprolysin-like proteases. Both branches have
wide phylogenetic distribution, and contain
sub-families, which are involved in vertebrate
development and disease.
Length = 167
Score = 29.0 bits (65), Expect = 2.5
Identities = 24/114 (21%), Positives = 37/114 (32%), Gaps = 11/114 (9%)
Query: 180 VSVLLEVDKVPTDELSLSNF--AAANK-DDFVEDTKHI---EVTTGPGRHYIFTLAYSPD 233
+ ++ D +E +LS + D +I V + I L D
Sbjct: 3 IPYVVVADDRDVEEENLSAQIQSLILIAMQIWRDYLNIRFVLVGVEIDKADIAILVTRQD 62
Query: 234 VKRGFIGFSLLQRKWAELSLHQDIDVKPFFFNPKNTSEFLCTIILEAGPNSGLH 287
G G++ L R SL ++ N T E TI E G G +
Sbjct: 63 FDGGTGGWAYLGR--VCDSLRGVGVLQD---NQSGTKEGAQTIAHELGHALGFY 111
>gnl|CDD|234727 PRK00325, algL, poly(beta-D-mannuronate) lyase; Provisional.
Length = 359
Score = 29.3 bits (66), Expect = 3.2
Identities = 18/55 (32%), Positives = 29/55 (52%), Gaps = 11/55 (20%)
Query: 5 ERLNN--------ILVIGM-TNRRDMIDEAL--LRPGRLELQMEISLPNEDGRVQ 48
E++NN ++ G+ T+RRD+ D A+ R G ++ + LPNE R Q
Sbjct: 191 EKINNHSYWAAWAVMATGVATDRRDLFDWAVKEYRVGINQIDDDGFLPNEMKRGQ 245
>gnl|CDD|218022 pfam04315, DUF462, Protein of unknown function, DUF462. This
family consists of bacterial proteins of uncharacterized
function.
Length = 165
Score = 28.3 bits (64), Expect = 3.8
Identities = 18/55 (32%), Positives = 23/55 (41%), Gaps = 10/55 (18%)
Query: 105 KVEVDPQALEKLCITRADF--------LHALETDIKPAFGSS-DESLEHFLSRGI 150
KVE+ PQALE L A F L E D + AF + +L G+
Sbjct: 84 KVEIKPQALEWLFSVAAGFKFRVSVDNLSGDEPDRQ-AFKRKVHAQVLRYLENGL 137
>gnl|CDD|214927 smart00943, Prim-Pol, Bifunctional DNA primase/polymerase,
N-terminal. Members of this family adopt a structure
consisting of a core of antiparallel beta sheets. They
are found in various bacterial hypothetical proteins,
and have been shown to harbour both primase and
polymerase activities.
Length = 154
Score = 28.1 bits (63), Expect = 3.9
Identities = 12/45 (26%), Positives = 17/45 (37%), Gaps = 5/45 (11%)
Query: 199 FAAANKDDFVEDTKHIEVTTGP-GRHYIFTLAYSPDVKR--GFIG 240
AA + + T V T GRH F + P + GF+
Sbjct: 72 LAALAELGLLPATPT--VRTPSGGRHLYFRVPDGPKLPPNPGFLK 114
>gnl|CDD|172658 PRK14170, PRK14170, bifunctional 5,10-methylene-tetrahydrofolate
dehydrogenase/ 5,10-methylene-tetrahydrofolate
cyclohydrolase; Provisional.
Length = 284
Score = 28.5 bits (63), Expect = 5.6
Identities = 16/48 (33%), Positives = 29/48 (60%), Gaps = 1/48 (2%)
Query: 162 EAGRIFIQ-QSKDTESSGLVSVLLEVDKVPTDELSLSNFAAANKDDFV 208
+A R +++ + K TE +G+ SVL+E+ + T+E LS N+D +
Sbjct: 43 QASRTYVRNKQKRTEEAGMKSVLIELPENVTEEKLLSVVEELNEDKTI 90
>gnl|CDD|181631 PRK09059, PRK09059, dihydroorotase; Validated.
Length = 429
Score = 28.5 bits (64), Expect = 5.8
Identities = 14/31 (45%), Positives = 20/31 (64%), Gaps = 2/31 (6%)
Query: 67 VNLKELAALTKNFSGAELE--GLVRAAQSCA 95
VN+ AA+TK +G E+ GL+RAA + A
Sbjct: 124 VNIHPAAAITKGLAGEEMTEFGLLRAAGAVA 154
>gnl|CDD|235364 PRK05201, hslU, ATP-dependent protease ATP-binding subunit HslU;
Provisional.
Length = 443
Score = 28.5 bits (65), Expect = 6.8
Identities = 11/30 (36%), Positives = 16/30 (53%), Gaps = 4/30 (13%)
Query: 278 LEAGPNSGLHIIIF-DEIDAICKARGTAGG 306
+E +G I+F DEID I G++G
Sbjct: 244 IERVEQNG---IVFIDEIDKIAARGGSSGP 270
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
0.319 0.137 0.389
Gapped
Lambda K H
0.267 0.0774 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 18,692,814
Number of extensions: 1847573
Number of successful extensions: 1486
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1448
Number of HSP's successfully gapped: 53
Length of query: 358
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 260
Effective length of database: 6,590,910
Effective search space: 1713636600
Effective search space used: 1713636600
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 (21.7 bits)
S2: 60 (26.8 bits)