RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5642
(237 letters)
>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 406
Score = 187 bits (476), Expect = 2e-57
Identities = 84/206 (40%), Positives = 119/206 (57%), Gaps = 30/206 (14%)
Query: 14 IGPELFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVL 73
+G EL +KY+GE R VR++F+ AR+ +PS+IF DE+D++ +R D G G VQ R +
Sbjct: 217 VGSELVQKYIGEGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQ-RTM 275
Query: 74 AQMLTEMDGIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRL 133
++L ++DG P NV ++ ATNRPD +D ALLRPGR DR I PLPD+ RA ILKI
Sbjct: 276 LELLNQLDGFDPRGNVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHT 335
Query: 134 ARSPLGEDVCVEELVRLTEGYSGAEQSLSKHRAKKIRPRRESNPGPPACKPSIVAVCDEA 193
+ L +DV +E L RLTEG+SGA+ + A+C EA
Sbjct: 336 RKMNLADDVDLELLARLTEGFSGAD---------------------------LKAICTEA 368
Query: 194 ALSALENNLEAAYVSHQDFLTALQLV 219
+ A+ V+ +DFL A++ V
Sbjct: 369 GMFAIRE--RRDEVTMEDFLKAVEKV 392
>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase;
Provisional.
Length = 389
Score = 186 bits (475), Expect = 2e-57
Identities = 88/207 (42%), Positives = 122/207 (58%), Gaps = 30/207 (14%)
Query: 14 IGPELFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVL 73
+G EL +K++GE R VR++F+ AR+ +PS+IF DE+D++A +R D G G VQ R L
Sbjct: 197 VGSELVQKFIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQ-RTL 255
Query: 74 AQMLTEMDGIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRL 133
Q+L EMDG P NV I+AATNR D +D A+LRPGR DR+I VPLPD+ R ILKI
Sbjct: 256 MQLLAEMDGFDPRGNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHT 315
Query: 134 ARSPLGEDVCVEELVRLTEGYSGAEQSLSKHRAKKIRPRRESNPGPPACKPSIVAVCDEA 193
+ L +DV +EEL LTEG SGA+ + A+C EA
Sbjct: 316 RKMNLADDVDLEELAELTEGASGAD---------------------------LKAICTEA 348
Query: 194 ALSALENNLEAAYVSHQDFLTALQLVK 220
+ A+ ++ V+ +DFL A++ V
Sbjct: 349 GMFAIRDDRT--EVTMEDFLKAIEKVM 373
>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational
modification, protein turnover, chaperones].
Length = 494
Score = 180 bits (459), Expect = 4e-54
Identities = 98/214 (45%), Positives = 124/214 (57%), Gaps = 34/214 (15%)
Query: 10 VVESIGPELFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQ 69
+ G EL K+VGESE+ +R++F++AR+++PS+IF DE+DSLA RG G G
Sbjct: 304 FISVKGSELLSKWVGESEKNIRELFEKARKLAPSIIFIDEIDSLASGRGPSEDGSG---- 359
Query: 70 ERVLAQMLTEMDGIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAIL 129
RV+ Q+LTE+DGI V ++AATNRPD +D ALLRPGR DRLIYVPLPD R I
Sbjct: 360 RRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPDLEERLEIF 419
Query: 130 KIRLARS--PLGEDVCVEELVRLTEGYSGAEQSLSKHRAKKIRPRRESNPGPPACKPSIV 187
KI L PL EDV +EEL +TEGYSGA+ I
Sbjct: 420 KIHLRDKKPPLAEDVDLEELAEITEGYSGAD---------------------------IA 452
Query: 188 AVCDEAALSALENNLEAAYVSHQDFLTALQLVKP 221
A+ EAAL AL V+ DFL AL+ +KP
Sbjct: 453 ALVREAALEALREAR-RREVTLDDFLDALKKIKP 485
Score = 96.4 bits (240), Expect = 5e-23
Identities = 79/211 (37%), Positives = 106/211 (50%), Gaps = 36/211 (17%)
Query: 15 GPELFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLA 74
GPE+ KYVGESE +R++F+ A +++PS+IF DE+D+LA +R G V+ RV+A
Sbjct: 50 GPEILSKYVGESELRLRELFEEAEKLAPSIIFIDEIDALAPKRSSDQGE----VERRVVA 105
Query: 75 QMLTEMDGIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRLA 134
Q+L MDG + V ++ ATNRPD +D A RPGR DR I V LPD+ R IL+I
Sbjct: 106 QLLALMDG-LKRGQVIVIGATNRPDGLDPAKRRPGRFDREIEVNLPDEAGRLEILQIHTR 164
Query: 135 RSPLGEDVCVEELVRLTEGYSGAEQSLSKHRAKKIRPRRESNPGPPACKPSIVAVCDEAA 194
LG + L T G SGA+ + A+ EAA
Sbjct: 165 LMFLGPPGTGKTLAARTVGKSGAD---------------------------LGALAKEAA 197
Query: 195 LSALEN----NLEAAYVSHQDFLTALQLVKP 221
L L E V+ DF AL+ V P
Sbjct: 198 LRELRRAIDLVGEYIGVTEDDFEEALKKVLP 228
>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 = 184 bits (468), Expect = 4e-54
Identities = 100/238 (42%), Positives = 136/238 (57%), Gaps = 46/238 (19%)
Query: 15 GPELFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLA 74
GPE+ K+VGESE+ +R++F++ARQ +P++IFFDE+D++A RG ++V +R++
Sbjct: 520 GPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARG---ARFDTSVTDRIVN 576
Query: 75 QMLTEMDGIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRLA 134
Q+LTEMDGI L+NV ++AATNRPD +D ALLRPGR DRLI VP PD+ R I KI
Sbjct: 577 QLLTEMDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTR 636
Query: 135 RSPLGEDVCVEELVRLTEGYSGAEQSLSKHRAKKIRPRRESNPGPPACKPSIVAVCDEAA 194
PL EDV +EEL +TEGY+GA+ I AVC EAA
Sbjct: 637 SMPLAEDVDLEELAEMTEGYTGAD---------------------------IEAVCREAA 669
Query: 195 LSAL----------------ENNLEAAYVSHQDFLTALQLVKPRTPPQLIKLYENYIK 236
++AL E L+ V + FL AL+ VKP + + YE K
Sbjct: 670 MAALRESIGSPAKEKLEVGEEEFLKDLKVEMRHFLEALKKVKPSVSKEDMLRYERLAK 727
Score = 136 bits (343), Expect = 1e-36
Identities = 80/207 (38%), Positives = 118/207 (57%), Gaps = 14/207 (6%)
Query: 15 GPELFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLA 74
GPE+ KY GESE +R++FK A + +PS+IF DE+D++A +R + G V++RV+A
Sbjct: 245 GPEIMSKYYGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTG----EVEKRVVA 300
Query: 75 QMLTEMDGIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRLA 134
Q+LT MDG+ V ++ ATNRPD +D AL RPGR DR I + +PD R ILK+
Sbjct: 301 QLLTLMDGLKGRGRVIVIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTR 360
Query: 135 RSPLGEDVCVEELVRLTEGYSGAEQSLSKHRAKKIRPRRESNPGPPACKPSIVAVCDEAA 194
PL EDV +++L +T G+ GA+ + A RR G I +E
Sbjct: 361 NMPLAEDVDLDKLAEVTHGFVGADLAALAKEAAMAALRRFIREG------KINFEAEEIP 414
Query: 195 LSALENNLEAAYVSHQDFLTALQLVKP 221
L+ V+ +DF+ AL++V+P
Sbjct: 415 AEVLKE----LKVTMKDFMEALKMVEP 437
>gnl|CDD|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family. Many
proteins may score above the trusted cutoff because an
internal.
Length = 364
Score = 165 bits (419), Expect = 2e-49
Identities = 88/207 (42%), Positives = 121/207 (58%), Gaps = 30/207 (14%)
Query: 14 IGPELFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVL 73
+G EL RKY+GE R VR++F+ A++ +PS+IF DE+D++A +R D G G VQ R L
Sbjct: 188 VGSELVRKYIGEGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQ-RTL 246
Query: 74 AQMLTEMDGIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRL 133
Q+L E+DG P NV ++AATNRPD +D ALLRPGR DR+I VPLPD R ILKI
Sbjct: 247 MQLLAELDGFDPRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHT 306
Query: 134 ARSPLGEDVCVEELVRLTEGYSGAEQSLSKHRAKKIRPRRESNPGPPACKPSIVAVCDEA 193
+ L EDV +E + ++TEG SGA+ + A+C EA
Sbjct: 307 RKMKLAEDVDLEAIAKMTEGASGAD---------------------------LKAICTEA 339
Query: 194 ALSALENNLEAAYVSHQDFLTALQLVK 220
+ A+ E YV+ DF+ A++ V
Sbjct: 340 GMFAIRE--ERDYVTMDDFIKAVEKVL 364
>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 = 148 bits (375), Expect = 7e-42
Identities = 63/136 (46%), Positives = 89/136 (65%), Gaps = 3/136 (2%)
Query: 23 VGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLAQMLTEMDG 82
VG S VRD+F++A++ +P +IF DE+D++ +RG G GGG++ +E+ L Q+L EMDG
Sbjct: 131 VGASR--VRDLFEQAKKNAPCIIFIDEIDAVGRQRG-AGLGGGNDEREQTLNQLLVEMDG 187
Query: 83 IVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRLARSPLGEDV 142
V ++AATNRPD +D ALLRPGR DR + V LPD R ILK+ L DV
Sbjct: 188 FGTNTGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAPDV 247
Query: 143 CVEELVRLTEGYSGAE 158
++ + R T G+SGA+
Sbjct: 248 DLKAVARRTPGFSGAD 263
>gnl|CDD|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like
protein; Provisional.
Length = 398
Score = 138 bits (350), Expect = 6e-39
Identities = 73/188 (38%), Positives = 101/188 (53%), Gaps = 28/188 (14%)
Query: 14 IGPELFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVL 73
+G E +KY+GE R VRDVF+ AR+ +PS+IF DE+DS+A +R D G VQ R+L
Sbjct: 211 VGSEFVQKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQ-RIL 269
Query: 74 AQMLTEMDGIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRL 133
++L +MDG NV ++ ATNR D +D ALLRPGRLDR I PLPD + I +
Sbjct: 270 LELLNQMDGFDQTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTIT 329
Query: 134 ARSPLGEDVCVEELVRLTEGYSGAEQSLSKHRAKKIRPRRESNPGPPACKPSIVAVCDEA 193
++ L E+V +E+ V E S A+ I A+C EA
Sbjct: 330 SKMNLSEEVDLEDFVSRPEKISAAD---------------------------IAAICQEA 362
Query: 194 ALSALENN 201
+ A+ N
Sbjct: 363 GMQAVRKN 370
>gnl|CDD|214386 CHL00176, ftsH, cell division protein; Validated.
Length = 638
Score = 139 bits (352), Expect = 5e-38
Identities = 67/144 (46%), Positives = 91/144 (63%), Gaps = 1/144 (0%)
Query: 15 GPELFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLA 74
G E +VG VRD+FK+A++ SP ++F DE+D++ +RG G GGG++ +E+ L
Sbjct: 249 GSEFVEMFVGVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRG-AGIGGGNDEREQTLN 307
Query: 75 QMLTEMDGIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRLA 134
Q+LTEMDG V ++AATNR D +D ALLRPGR DR I V LPD R ILK+
Sbjct: 308 QLLTEMDGFKGNKGVIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHAR 367
Query: 135 RSPLGEDVCVEELVRLTEGYSGAE 158
L DV +E + R T G+SGA+
Sbjct: 368 NKKLSPDVSLELIARRTPGFSGAD 391
>gnl|CDD|223541 COG0465, HflB, ATP-dependent Zn proteases [Posttranslational
modification, protein turnover, chaperones].
Length = 596
Score = 135 bits (342), Expect = 8e-37
Identities = 65/138 (47%), Positives = 92/138 (66%), Gaps = 1/138 (0%)
Query: 22 YVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLAQMLTEMD 81
+VG VRD+F++A++ +P +IF DE+D++ +RG G GGG++ +E+ L Q+L EMD
Sbjct: 223 FVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRG-AGLGGGNDEREQTLNQLLVEMD 281
Query: 82 GIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRLARSPLGED 141
G V ++AATNRPD +D ALLRPGR DR I V LPD R ILK+ PL ED
Sbjct: 282 GFGGNEGVIVIAATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLAED 341
Query: 142 VCVEELVRLTEGYSGAEQ 159
V ++++ R T G+SGA+
Sbjct: 342 VDLKKIARGTPGFSGADL 359
>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 = 123 bits (310), Expect = 7e-36
Identities = 56/106 (52%), Positives = 76/106 (71%), Gaps = 6/106 (5%)
Query: 15 GPELFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLA 74
G EL KYVGESE+ +R++F+ A++++P VIF DE+D+LAG RG GG RV+
Sbjct: 31 GSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSRGSGGDS----ESRRVVN 86
Query: 75 QMLTEMDGI-VPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPL 119
Q+LTE+DG L+ V ++AATNRPD++D ALLR GR DR+I PL
Sbjct: 87 QLLTELDGFTSSLSKVIVIAATNRPDKLDPALLR-GRFDRIIEFPL 131
>gnl|CDD|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed.
Length = 644
Score = 126 bits (317), Expect = 3e-33
Identities = 64/144 (44%), Positives = 91/144 (63%), Gaps = 1/144 (0%)
Query: 15 GPELFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLA 74
G + +VG VRD+F++A++ +P +IF DE+D++ +RG G GGG + +E+ L
Sbjct: 218 GSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRG-AGLGGGHDEREQTLN 276
Query: 75 QMLTEMDGIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRLA 134
QML EMDG + ++AATNRPD +D ALLRPGR DR + V LPD R ILK+ +
Sbjct: 277 QMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMR 336
Query: 135 RSPLGEDVCVEELVRLTEGYSGAE 158
R PL D+ + R T G+SGA+
Sbjct: 337 RVPLAPDIDAAIIARGTPGFSGAD 360
>gnl|CDD|185575 PTZ00361, PTZ00361, 26 proteosome regulatory subunit 4-like
protein; Provisional.
Length = 438
Score = 123 bits (311), Expect = 4e-33
Identities = 68/203 (33%), Positives = 110/203 (54%), Gaps = 32/203 (15%)
Query: 14 IGPELFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVL 73
+G EL +KY+G+ + VR++F+ A + +PS++F DE+D++ +R D GG +Q R +
Sbjct: 249 VGSELIQKYLGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQ-RTM 307
Query: 74 AQMLTEMDGIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRL 133
++L ++DG +V ++ ATNR + +D AL+RPGR+DR I P PD+ T+ I +I
Sbjct: 308 LELLNQLDGFDSRGDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHT 367
Query: 134 ARSPLGEDVCVEELVRLTEGYSGAEQSLSKHRAKKIRPRRESNPGPPACKPSIVAVCDEA 193
++ L EDV +EE + + SGA+ I A+C EA
Sbjct: 368 SKMTLAEDVDLEEFIMAKDELSGAD---------------------------IKAICTEA 400
Query: 194 ALSAL-ENNLEAAYVSHQDFLTA 215
L AL E ++ V+ DF A
Sbjct: 401 GLLALRERRMK---VTQADFRKA 420
>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 = 118 bits (297), Expect = 8e-31
Identities = 62/132 (46%), Positives = 82/132 (62%), Gaps = 8/132 (6%)
Query: 15 GPELFRKYVGESERCVRDVFKRARQV----SPSVIFFDELDSLAGERGDGGGGGGSNVQE 70
GPEL KYVGE+ER +R +F+RAR+ P ++FFDE+DSL RG G S+V+
Sbjct: 259 GPELLNKYVGETERQIRLIFQRAREKASEGRPVIVFFDEMDSLFRTRGSGVS---SDVET 315
Query: 71 RVLAQMLTEMDGIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILK 130
V+ Q+L E+DG+ L+NV ++ A+NR D ID A+LRPGRLD I + PD A I
Sbjct: 316 TVVPQLLAEIDGVESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFA 375
Query: 131 IRLARS-PLGED 141
L PL ED
Sbjct: 376 KYLTDDLPLPED 387
>gnl|CDD|224144 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 368
Score = 95.3 bits (237), Expect = 6e-23
Identities = 52/143 (36%), Positives = 81/143 (56%), Gaps = 5/143 (3%)
Query: 16 PELFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLAQ 75
EL ++VG+ R + ++++RAR+ +P ++F DELD++A +R G +V E V A
Sbjct: 185 TELIGEHVGDGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRG--DVSEIVNA- 241
Query: 76 MLTEMDGIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRLAR 135
+LTE+DGI V +AATNRP+ +D A+ R + I LP+D R IL+ +
Sbjct: 242 LLTELDGIKENEGVVTIAATNRPELLDPAI--RSRFEEEIEFKLPNDEERLEILEYYAKK 299
Query: 136 SPLGEDVCVEELVRLTEGYSGAE 158
PL D + L T+G SG +
Sbjct: 300 FPLPVDADLRYLAAKTKGMSGRD 322
>gnl|CDD|177094 CHL00195, ycf46, Ycf46; Provisional.
Length = 489
Score = 67.0 bits (164), Expect = 7e-13
Identities = 47/144 (32%), Positives = 73/144 (50%), Gaps = 9/144 (6%)
Query: 18 LFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLAQML 77
LF VGESE +R + + A +SP +++ DE+D G G +N RVLA +
Sbjct: 295 LFGGIVGESESRMRQMIRIAEALSPCILWIDEIDKAFSNSESKGDSGTTN---RVLATFI 351
Query: 78 TEM-DGIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLPDDLTRAAILKIRLARS 136
T + + P V +VA N D + +LR GR D + ++ LP R I KI L +
Sbjct: 352 TWLSEKKSP---VFVVATANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKF 408
Query: 137 -PLG-EDVCVEELVRLTEGYSGAE 158
P + +++L +L+ +SGAE
Sbjct: 409 RPKSWKKYDIKKLSKLSNKFSGAE 432
>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 = 61.4 bits (149), Expect = 5e-12
Identities = 32/113 (28%), Positives = 46/113 (40%), Gaps = 14/113 (12%)
Query: 10 VVESIGPELFRKYVGESER---CVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGS 66
+ +L V VR +F+ A + P V+F DE+DSL+
Sbjct: 50 FLYLNASDLLEGLVVAELFGHFLVRLLFELAEKAKPGVLFIDEIDSLSRG---------- 99
Query: 67 NVQERVLAQMLTEMDGIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPL 119
Q +L + T D + NV ++ ATNRP D RLD I +PL
Sbjct: 100 -AQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLDRALYDRLDIRIVIPL 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 = 57.0 bits (137), Expect = 2e-10
Identities = 29/121 (23%), Positives = 47/121 (38%), Gaps = 10/121 (8%)
Query: 1 MEDLGGLTEVVESIGPELFRKYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDG 60
ED+ + +K G E +R AR++ P V+ DE+ SL +
Sbjct: 38 GEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKLKPDVLILDEITSLLDAEQE- 96
Query: 61 GGGGGSNVQERVLAQMLTEMDGIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYVPLP 120
+L + L + + N+T++ TN + ALLR R DR I + L
Sbjct: 97 --------ALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRR-RFDRRIVLLLI 147
Query: 121 D 121
Sbjct: 148 L 148
>gnl|CDD|238450 cd00885, cinA, Competence-damaged protein. CinA is the first gene
in the competence- inducible (cin) operon and is thought
to be specifically required at some stage in the process
of transformation. This domain is closely related to a
domain, found in a variety of proteins involved in
biosynthesis of molybdopterin cofactor, where the domain
is presumed to bind molybdopterin.
Length = 170
Score = 33.2 bits (77), Expect = 0.060
Identities = 24/73 (32%), Positives = 32/73 (43%), Gaps = 12/73 (16%)
Query: 73 LAQMLTEMDGIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYV-----PLPDDLTRAA 127
LA+ L E+ GI + VT+V + DRI +AL R L+ P DDLTR A
Sbjct: 24 LAKELAEL-GI-EVYRVTVVG--DDEDRIAEALRRASERADLVITTGGLGPTHDDLTREA 79
Query: 128 I---LKIRLARSP 137
+ L
Sbjct: 80 VAKAFGRPLVLDE 92
>gnl|CDD|214396 CHL00206, ycf2, Ycf2; Provisional.
Length = 2281
Score = 33.0 bits (75), Expect = 0.14
Identities = 10/28 (35%), Positives = 20/28 (71%)
Query: 88 NVTIVAATNRPDRIDKALLRPGRLDRLI 115
N+ ++A+T+ P ++D AL+ P +L+ I
Sbjct: 1772 NILVIASTHIPQKVDPALIAPNKLNTCI 1799
>gnl|CDD|190042 pfam01567, Hanta_G1, Hantavirus glycoprotein G1. The medium (M)
genome segment of hantaviruses (family Bunyaviridae)
encodes the two virion glycoproteins. G1 and G2, as a
precursor protein in the complementary sense RNA.
Length = 525
Score = 32.0 bits (73), Expect = 0.29
Identities = 13/27 (48%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 115 IYVPLPDDLTRAAILKIRLARSPLGED 141
+YVP DD R+A + R+ R+P GED
Sbjct: 239 LYVPSLDDF-RSAEIFSRMLRNPHGED 264
>gnl|CDD|223616 COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ
chaperones [Posttranslational modification, protein
turnover, chaperones].
Length = 786
Score = 30.3 bits (69), Expect = 0.87
Identities = 14/46 (30%), Positives = 23/46 (50%), Gaps = 3/46 (6%)
Query: 21 KYVGESERCVRDVFKRARQVSPSVIFFDELDSLAGERGDGGGGGGS 66
KY GE E ++ V K + ++F DE+ ++ G G GG+
Sbjct: 242 KYRGEFEERLKAVLKEVEKSKNVILFIDEIHTIV---GAGATEGGA 284
>gnl|CDD|173876 cd08511, PBP2_NikA_DppA_OppA_like_5, The substrate-binding
component of an uncharacterized ABC-type
nickel/dipeptide/oligopeptide-like import system
contains the type 2 periplasmic binding fold. This
family represents the substrate-binding domain of an
uncharacterized ATP-binding cassette (ABC) type
nickel/dipeptide/oligopeptide-like transporter. The
oligopeptide-binding protein OppA and the
dipeptide-binding protein DppA show significant sequence
similarity to NikA, the initial nickel receptor. The
DppA binds dipeptides and some tripeptides and is
involved in chemotaxis toward dipeptides, whereas the
OppA binds peptides of a wide range of lengths (2-35
amino acid residues) and plays a role in recycling of
cell wall peptides, which precludes any involvement in
chemotaxis. Most of other periplasmic binding proteins
are comprised of only two globular subdomains
corresponding to domains I and III of the
dipeptide/oligopeptide binding proteins. The structural
topology of these domains is most similar to that of the
type 2 periplasmic binding proteins (PBP2), which are
responsible for the uptake of a variety of substrates
such as phosphate, sulfate, polysaccharides,
lysine/arginine/ornithine, and histidine. The PBP2 bind
their ligand in the cleft between these domains in a
manner resembling a Venus flytrap. After binding their
specific ligand with high affinity, they can interact
with a cognate membrane transport complex comprised of
two integral membrane domains and two cytoplasmically
located ATPase domains. This interaction triggers the
ligand translocation across the cytoplasmic membrane
energized by ATP hydrolysis. Besides transport
proteins, the PBP2 superfamily includes the
ligand-binding domains from ionotropic glutamate
receptors, LysR-type transcriptional regulators, and
unorthodox sensor proteins involved in signal
transduction.
Length = 467
Score = 29.9 bits (68), Expect = 1.2
Identities = 11/20 (55%), Positives = 14/20 (70%)
Query: 111 LDRLIYVPLPDDLTRAAILK 130
LDRL+Y P+PD R A L+
Sbjct: 187 LDRLVYRPIPDATVRLANLR 206
>gnl|CDD|215526 PLN02974, PLN02974, adenosylmethionine-8-amino-7-oxononanoate
transaminase.
Length = 817
Score = 29.3 bits (66), Expect = 2.3
Identities = 21/68 (30%), Positives = 30/68 (44%), Gaps = 10/68 (14%)
Query: 37 ARQVSPSVIFFDELDSLAGERGDGGGGGGSNVQERVLAQMLTEMDGIV--PLNNVT--IV 92
R VS + ELD+ +G G G S++ R + + L DGI PL NV +
Sbjct: 743 ERVVSLGTVLALELDA------EGSGSGYSSLYARSVVRRLRREDGIYARPLGNVVYLMC 796
Query: 93 AATNRPDR 100
T P+
Sbjct: 797 GPTTSPET 804
>gnl|CDD|173860 cd08495, PBP2_NikA_DppA_OppA_like_8, The substrate-binding
component of an uncharacterized ABC-type
nickel/dipeptide/oligopeptide-like import system
contains the type 2 periplasmic binding fold. This CD
represents the substrate-binding domain of an
uncharacterized ATP-binding cassette (ABC) type
nickel/dipeptide/oligopeptide-like transporter. The
oligopeptide-binding protein OppA and the
dipeptide-binding protein DppA show significant sequence
similarity to NikA, the initial nickel receptor. The
DppA binds dipeptides and some tripeptides and is
involved in chemotaxis toward dipeptides, whereas the
OppA binds peptides of a wide range of lengths (2-35
amino acid residues) and plays a role in recycling of
cell wall peptides, which precludes any involvement in
chemotaxis. Most of other periplasmic binding proteins
are comprised of only two globular subdomains
corresponding to domains I and III of the
dipeptide/oligopeptide binding proteins. The structural
topology of these domains is most similar to that of the
type 2 periplasmic binding proteins (PBP2), which are
responsible for the uptake of a variety of substrates
such as phosphate, sulfate, polysaccharides,
lysine/arginine/ornithine, and histidine. The PBP2 bind
their ligand in the cleft between these domains in a
manner resembling a Venus flytrap. After binding their
specific ligand with high affinity, they can interact
with a cognate membrane transport complex comprised of
two integral membrane domains and two cytoplasmically
located ATPase domains. This interaction triggers the
ligand translocation across the cytoplasmic membrane
energized by ATP hydrolysis. Besides transport
proteins, the PBP2 superfamily includes the
ligand-binding domains from ionotropic glutamate
receptors, LysR-type transcriptional regulators, and
unorthodox sensor proteins involved in signal
transduction.
Length = 482
Score = 28.8 bits (65), Expect = 2.3
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 107 RPGRLDRLIYVPLPDDLTRAAIL 129
RP + D+L+ +P+PD R A L
Sbjct: 195 RPPKNDKLVLIPMPDANARLAAL 217
>gnl|CDD|216230 pfam00994, MoCF_biosynth, Probable molybdopterin binding domain.
This domain is found a variety of proteins involved in
biosynthesis of molybdopterin cofactor. The domain is
presumed to bind molybdopterin. The structure of this
domain is known, and it forms an alpha/beta structure.
In the known structure of Gephyrin this domain mediates
trimerisation.
Length = 140
Score = 27.6 bits (62), Expect = 3.6
Identities = 20/75 (26%), Positives = 33/75 (44%), Gaps = 9/75 (12%)
Query: 73 LAQMLTEMDGIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYV-----PLPDDLTRAA 127
LA +L E G + IV + P+ I +AL ++ P PDD+T A
Sbjct: 22 LAALLREA-GAEVIR-YGIVP--DDPEAIKEALAAAADEADVVITTGGTGPGPDDVTPEA 77
Query: 128 ILKIRLARSPLGEDV 142
+ ++ P GE++
Sbjct: 78 LAELGGRELPGGEEL 92
>gnl|CDD|173864 cd08499, PBP2_Ylib_like, The substrate-binding component of an
uncharacterized ABC-type peptide import system Ylib
contains the type 2 periplasmic binding fold. This
family represents the periplasmic substrate-binding
component of an uncharacterized ATP-binding cassette
(ABC)-type peptide transport system YliB. Although the
ligand specificity of Ylib protein is not known, it
shares significant sequence similarity to the ABC-type
dipeptide and oligopeptide binding proteins. Most of
other periplasmic binding proteins are comprised of only
two globular subdomains corresponding to domains I and
III of the dipeptide/oligopeptide binding proteins. The
structural topology of these domains is most similar to
that of the type 2 periplasmic binding proteins (PBP2),
which are responsible for the uptake of a variety of
substrates such as phosphate, sulfate, polysaccharides,
lysine/arginine/ornithine, and histidine. The PBP2 bind
their ligand in the cleft between these domains in a
manner resembling a Venus flytrap. After binding their
specific ligand with high affinity, they can interact
with a cognate membrane transport complex comprised of
two integral membrane domains and two cytoplasmically
located ATPase domains. This interaction triggers the
ligand translocation across the cytoplasmic membrane
energized by ATP hydrolysis. Besides transport
proteins, the PBP2 superfamily includes the
ligand-binding domains from ionotropic glutamate
receptors, LysR-type transcriptional regulators, and
unorthodox sensor proteins involved in signal
transduction.
Length = 474
Score = 28.0 bits (63), Expect = 4.7
Identities = 7/23 (30%), Positives = 15/23 (65%)
Query: 108 PGRLDRLIYVPLPDDLTRAAILK 130
++D + + +P+D TR A+L+
Sbjct: 183 LPKVDTVTFKVVPEDGTRVAMLE 205
>gnl|CDD|215031 PLN00020, PLN00020, ribulose bisphosphate carboxylase/oxygenase
activase -RuBisCO activase (RCA); Provisional.
Length = 413
Score = 27.8 bits (62), Expect = 5.3
Identities = 39/166 (23%), Positives = 65/166 (39%), Gaps = 34/166 (20%)
Query: 6 GLTEVVESIGPELFRKYVGESERCVRDVFKRARQVS-----PSVIFFDELDSLAGERGDG 60
G+ +V S G EL + GE + +R ++ A + S +F ++LD+ AG G
Sbjct: 173 GIEPIVMSAG-ELESENAGEPGKLIRQRYREAADIIKKKGKMSCLFINDLDAGAGRFGT- 230
Query: 61 GGGGGSNVQERVLAQML--TEMD-----GIVPL----------NNVTIVAATNRPDRIDK 103
Q V QM+ T M+ V L V I+ N +
Sbjct: 231 -------TQYTVNNQMVNGTLMNIADNPTNVSLGGDWREKEEIPRVPIIVTGNDFSTLYA 283
Query: 104 ALLRPGRLDRLIYVPLPDDLTRAAILKIRLARSPLGEDVCVEELVR 149
L+R GR+++ + P +D R ++ + R V +LV
Sbjct: 284 PLIRDGRMEKFYWAPTRED--RIGVVH-GIFRDDGVSREDVVKLVD 326
>gnl|CDD|223986 COG1058, CinA, Predicted nucleotide-utilizing enzyme related to
molybdopterin-biosynthesis enzyme MoeA [General function
prediction only].
Length = 255
Score = 27.6 bits (62), Expect = 5.3
Identities = 24/65 (36%), Positives = 31/65 (47%), Gaps = 13/65 (20%)
Query: 73 LAQMLTEMDGIVPLNNVTIVAATNRPDRIDKALLRPGRLDRLIYV-------PLPDDLTR 125
LA LTE+ G+ L +T V + PDRI +AL +R V P DDLT
Sbjct: 26 LADELTEL-GV-DLARITTVG--DNPDRIVEALRE--ASERADVVITTGGLGPTHDDLTA 79
Query: 126 AAILK 130
A+ K
Sbjct: 80 EAVAK 84
>gnl|CDD|179579 PRK03437, PRK03437, 3-isopropylmalate dehydrogenase; Provisional.
Length = 344
Score = 27.2 bits (61), Expect = 9.0
Identities = 8/13 (61%), Positives = 11/13 (84%)
Query: 27 ERCVRDVFKRARQ 39
ER VRD F+RA++
Sbjct: 163 ERVVRDAFERAQK 175
>gnl|CDD|219519 pfam07693, KAP_NTPase, KAP family P-loop domain. The KAP (after
Kidins220/ARMS and PifA) family of predicted NTPases are
sporadically distributed across a wide phylogenetic
range in bacteria and in animals. Many of the
prokaryotic KAP NTPases are encoded in plasmids and tend
to undergo disruption to form pseudogenes. A unique
feature of all eukaryotic and certain bacterial KAP
NTPases is the presence of two or four transmembrane
helices inserted into the P-loop NTPase domain. These
transmembrane helices anchor KAP NTPases in the membrane
such that the P-loop domain is located on the
intracellular side.
Length = 301
Score = 27.0 bits (60), Expect = 9.8
Identities = 20/108 (18%), Positives = 36/108 (33%), Gaps = 27/108 (25%)
Query: 44 VIFFDELDSLAGERGDGGGGGGSNVQERVLAQMLTEMDGIVPLNNVTIVAATNRPDRIDK 103
V+ D+LD E ++L + + NV + A + + I K
Sbjct: 163 VVIIDDLDRCEPEE---------------AVELLEAVRLLFDFPNVVFILAYD-EEIIKK 206
Query: 104 AL---LRPGR------LDRLIYVP--LPDDLTRAAILKIRLARSPLGE 140
A+ G L+++I +P LP R + L +
Sbjct: 207 AIEHNYGGGEIDGQDYLEKIIQLPFKLPPLGLRELRRFLMTLFDALEK 254
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
0.317 0.137 0.391
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: 12,569,519
Number of extensions: 1242653
Number of successful extensions: 1249
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1216
Number of HSP's successfully gapped: 53
Length of query: 237
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 143
Effective length of database: 6,768,326
Effective search space: 967870618
Effective search space used: 967870618
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 57 (26.2 bits)