RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6523
(713 letters)
>gnl|CDD|238113 cd00190, Tryp_SPc, Trypsin-like serine protease; Many of these are
synthesized as inactive precursor zymogens that are
cleaved during limited proteolysis to generate their
active forms. Alignment contains also inactive enzymes
that have substitutions of the catalytic triad residues.
Length = 232
Score = 215 bits (549), Expect = 4e-65
Identities = 81/188 (43%), Positives = 112/188 (59%), Gaps = 7/188 (3%)
Query: 194 IVGGWTTEVNEYPWVVALE-QAGKFFCGGTLISDRYVLTAAHCVRSSKRQKDLIVVISEH 252
IVGG ++ +PW V+L+ G+ FCGG+LIS R+VLTAAHCV SS + V + H
Sbjct: 1 IVGGSEAKIGSFPWQVSLQYTGGRHFCGGSLISPRWVLTAAHCVYSSAP-SNYTVRLGSH 59
Query: 253 NRATVYETQIETRRVVKVLTHPKYNAQGAKSHDHDIALLKLDTPLEFKPTVSPVCLPQLG 312
+ + E + +V KV+ HP YN ++D+DIALLKL P+ V P+CLP G
Sbjct: 60 DL-SSNEGGGQVIKVKKVIVHPNYNPS---TYDNDIALLKLKRPVTLSDNVRPICLPSSG 115
Query: 313 EKFTQ-RTGTVVGWGRVEESGQIASDLRATQVPVMSNQECRQFPGFEAKLTGNMMCAGYV 371
T TV GWGR E G + L+ VP++SN EC++ + +T NM+CAG +
Sbjct: 116 YNLPAGTTCTVSGWGRTSEGGPLPDVLQEVNVPIVSNAECKRAYSYGGTITDNMLCAGGL 175
Query: 372 EGGKDSCQ 379
EGGKD+CQ
Sbjct: 176 EGGKDACQ 183
>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 406
Score = 213 bits (545), Expect = 2e-62
Identities = 78/125 (62%), Positives = 94/125 (75%), Gaps = 3/125 (2%)
Query: 491 REVVET--PLL-HLDGFDPRGNIKVLMATNRPDTLDPALMRPGRLDRKVEFGLPDLEGRT 547
REV T LL LDGFDPRGN+KV+MATNRPD LDPAL+RPGR DRK+EF LPD EGR
Sbjct: 269 REVQRTMLELLNQLDGFDPRGNVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRA 328
Query: 548 HIFKIHARSMSVERDIRFELLARLCPNSTGAEIRSVCTEAGMFAIRARRKVASEKDFLEA 607
I KIH R M++ D+ ELLARL +GA+++++CTEAGMFAIR RR + +DFL+A
Sbjct: 329 EILKIHTRKMNLADDVDLELLARLTEGFSGADLKAICTEAGMFAIRERRDEVTMEDFLKA 388
Query: 608 VNKVA 612
V KV
Sbjct: 389 VEKVV 393
Score = 136 bits (345), Expect = 9e-35
Identities = 45/103 (43%), Positives = 67/103 (65%), Gaps = 4/103 (3%)
Query: 611 VARCTKIINADSENPKYIINVKQFAKFVVDLADSVAPTDIEEGMRVGVDRNKYQIHIPLP 670
V +++ ++ + I+ KFVV++ V +E GMRV ++R+ Y I LP
Sbjct: 75 VGTVLEVL----DDGRAIVKSSTGPKFVVNILSFVDRDLLEPGMRVALNRDSYSIVRVLP 130
Query: 671 PKIDPTVTMMQVEEKPDVTYSDIGGCKEQIEKLREVVETPLLH 713
P++DP V++M+VEEKPDVTY DIGG EQI+++REVVE PL +
Sbjct: 131 PEVDPRVSVMEVEEKPDVTYEDIGGLDEQIQEIREVVELPLKN 173
Score = 126 bits (318), Expect = 3e-31
Identities = 51/88 (57%), Positives = 66/88 (75%), Gaps = 3/88 (3%)
Query: 89 MIDAIGGARFDDGAGGDNEVQ--RTMLEL-INQPEKFVNLGIEPPKGVLLFGPPGTGKTL 145
++ ++D G D ++Q R ++EL + PE F LGI+PPKGVLL+GPPGTGKTL
Sbjct: 141 EVEEKPDVTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTL 200
Query: 146 CARAVANRTDACFIRVIGSELVQKYVGE 173
A+AVAN+TDA FIRV+GSELVQKY+GE
Sbjct: 201 LAKAVANQTDATFIRVVGSELVQKYIGE 228
Score = 115 bits (290), Expect = 1e-27
Identities = 48/86 (55%), Positives = 54/86 (62%), Gaps = 20/86 (23%)
Query: 61 AVANRTDACFIRVIGSELVQKYVGEGARM--------------------IDAIGGARFDD 100
AVAN+TDA FIRV+GSELVQKY+GEGAR+ IDAIG RFD
Sbjct: 204 AVANQTDATFIRVVGSELVQKYIGEGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDS 263
Query: 101 GAGGDNEVQRTMLELINQPEKFVNLG 126
G GD EVQRTMLEL+NQ + F G
Sbjct: 264 GTSGDREVQRTMLELLNQLDGFDPRG 289
Score = 101 bits (254), Expect = 5e-23
Identities = 48/181 (26%), Positives = 72/181 (39%), Gaps = 59/181 (32%)
Query: 390 LKSYGQGQYTKSIKAVEDDIQAVIKRVNELTGIKESDTGLAPPALWDLTADKQTLQNEQP 449
L+SY +Y ++ + + KR+ L + GL D ++ E P
Sbjct: 13 LESYEPQEYLNKLEDTKLKLLEKEKRLLLLEEQRLEAEGLRLKREVDRLREEIERLKEPP 72
Query: 450 LQI--------------------------------------------------HIPLPPK 459
L + LPP+
Sbjct: 73 LIVGTVLEVLDDGRAIVKSSTGPKFVVNILSFVDRDLLEPGMRVALNRDSYSIVRVLPPE 132
Query: 460 IDPTVTMMQVEEKPDVTYSDIGGCKEQIEKLREVVETPLLHLDGFD------PRGNIKVL 513
+DP V++M+VEEKPDVTY DIGG EQI+++REVVE PL + + F+ P+G VL
Sbjct: 133 VDPRVSVMEVEEKPDVTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKG---VL 189
Query: 514 M 514
+
Sbjct: 190 L 190
>gnl|CDD|214473 smart00020, Tryp_SPc, Trypsin-like serine protease. Many of these
are synthesised as inactive precursor zymogens that are
cleaved during limited proteolysis to generate their
active forms. A few, however, are active as single chain
molecules, and others are inactive due to substitutions
of the catalytic triad residues.
Length = 229
Score = 207 bits (529), Expect = 3e-62
Identities = 82/190 (43%), Positives = 111/190 (58%), Gaps = 9/190 (4%)
Query: 193 RIVGGWTTEVNEYPWVVALEQAG-KFFCGGTLISDRYVLTAAHCVRSSKRQKDLIVVISE 251
RIVGG + +PW V+L+ G + FCGG+LIS R+VLTAAHCVR S ++ V +
Sbjct: 1 RIVGGSEANIGSFPWQVSLQYGGGRHFCGGSLISPRWVLTAAHCVRGSDPS-NIRVRLGS 59
Query: 252 HNRATVYETQIETRRVVKVLTHPKYNAQGAKSHDHDIALLKLDTPLEFKPTVSPVCLPQL 311
H+ ++ E Q +V KV+ HP YN ++D+DIALLKL P+ V P+CLP
Sbjct: 60 HDLSSGEEGQ--VIKVSKVIIHPNYNPS---TYDNDIALLKLKEPVTLSDNVRPICLPSS 114
Query: 312 GEKF-TQRTGTVVGWGRVEES-GQIASDLRATQVPVMSNQECRQFPGFEAKLTGNMMCAG 369
T TV GWGR E G + L+ VP++SN CR+ +T NM+CAG
Sbjct: 115 NYNVPAGTTCTVSGWGRTSEGAGSLPDTLQEVNVPIVSNATCRRAYSGGGAITDNMLCAG 174
Query: 370 YVEGGKDSCQ 379
+EGGKD+CQ
Sbjct: 175 GLEGGKDACQ 184
>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase;
Provisional.
Length = 389
Score = 178 bits (454), Expect = 1e-49
Identities = 67/125 (53%), Positives = 88/125 (70%), Gaps = 5/125 (4%)
Query: 491 REVVETPLLHL----DGFDPRGNIKVLMATNRPDTLDPALMRPGRLDRKVEFGLPDLEGR 546
REV T L+ L DGFDPRGN+K++ ATNR D LDPA++RPGR DR +E LPD EGR
Sbjct: 249 REVQRT-LMQLLAEMDGFDPRGNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGR 307
Query: 547 THIFKIHARSMSVERDIRFELLARLCPNSTGAEIRSVCTEAGMFAIRARRKVASEKDFLE 606
I KIH R M++ D+ E LA L ++GA+++++CTEAGMFAIR R + +DFL+
Sbjct: 308 LEILKIHTRKMNLADDVDLEELAELTEGASGADLKAICTEAGMFAIRDDRTEVTMEDFLK 367
Query: 607 AVNKV 611
A+ KV
Sbjct: 368 AIEKV 372
Score = 118 bits (297), Expect = 1e-28
Identities = 46/80 (57%), Positives = 63/80 (78%), Gaps = 3/80 (3%)
Query: 97 RFDDGAGGDNEVQ--RTMLEL-INQPEKFVNLGIEPPKGVLLFGPPGTGKTLCARAVANR 153
++D G + +++ R +EL + +PE F +GIEPPKGVLL+GPPGTGKTL A+AVA+
Sbjct: 129 TYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHE 188
Query: 154 TDACFIRVIGSELVQKYVGE 173
T+A FIRV+GSELVQK++GE
Sbjct: 189 TNATFIRVVGSELVQKFIGE 208
Score = 94.5 bits (236), Expect = 1e-20
Identities = 38/86 (44%), Positives = 50/86 (58%), Gaps = 20/86 (23%)
Query: 61 AVANRTDACFIRVIGSELVQKYVGEGARM--------------------IDAIGGARFDD 100
AVA+ T+A FIRV+GSELVQK++GEGAR+ IDAI R D
Sbjct: 184 AVAHETNATFIRVVGSELVQKFIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDS 243
Query: 101 GAGGDNEVQRTMLELINQPEKFVNLG 126
G GD EVQRT+++L+ + + F G
Sbjct: 244 GTSGDREVQRTLMQLLAEMDGFDPRG 269
Score = 89.1 bits (222), Expect = 6e-19
Identities = 33/85 (38%), Positives = 50/85 (58%), Gaps = 2/85 (2%)
Query: 631 VKQFA--KFVVDLADSVAPTDIEEGMRVGVDRNKYQIHIPLPPKIDPTVTMMQVEEKPDV 688
VK +F+V+++ + ++ G RV +++ I LP + DP V M+V E P+V
Sbjct: 69 VKSSGGPQFLVNVSPFIDREKLKPGARVALNQQSLAIVEVLPSEKDPRVQAMEVIESPNV 128
Query: 689 TYSDIGGCKEQIEKLREVVETPLLH 713
TY DIGG +EQI ++RE VE PL
Sbjct: 129 TYEDIGGLEEQIREVREAVELPLKK 153
Score = 74.1 bits (183), Expect = 5e-14
Identities = 30/60 (50%), Positives = 39/60 (65%)
Query: 446 NEQPLQIHIPLPPKIDPTVTMMQVEEKPDVTYSDIGGCKEQIEKLREVVETPLLHLDGFD 505
N+Q L I LP + DP V M+V E P+VTY DIGG +EQI ++RE VE PL + F+
Sbjct: 99 NQQSLAIVEVLPSEKDPRVQAMEVIESPNVTYEDIGGLEEQIREVREAVELPLKKPELFE 158
>gnl|CDD|215708 pfam00089, Trypsin, Trypsin.
Length = 218
Score = 154 bits (391), Expect = 5e-43
Identities = 80/188 (42%), Positives = 106/188 (56%), Gaps = 15/188 (7%)
Query: 194 IVGGWTTEVNEYPWVVALE-QAGKFFCGGTLISDRYVLTAAHCVRSSKRQKDLIVVISEH 252
IVGG + +PW V+L+ +GK FCGG+LIS+ +VLTAAHCV ++ K + VV+ H
Sbjct: 1 IVGGDEAQPGSFPWQVSLQVSSGKHFCGGSLISENWVLTAAHCVSNA---KSVRVVLGAH 57
Query: 253 NRATVYETQIETRRVVKVLTHPKYNAQGAKSHDHDIALLKLDTPLEFKPTVSPVCLPQLG 312
N + E + V KV+ HP YN D+DIALLKL +P+ TV P+CLP
Sbjct: 58 NI-VLREGGEQKFDVKKVIVHPNYNPDT----DNDIALLKLKSPVTLGDTVRPICLPTAS 112
Query: 313 EKF-TQRTGTVVGWGRVEESGQIASDLRATQVPVMSNQECRQFPGFEAKLTGNMMCAGYV 371
T TV GWG + G L+ VPV+S + CR G +T NM+CAG
Sbjct: 113 SDLPVGTTCTVSGWGNTKTLGL-PDTLQEVTVPVVSRETCRSAYG--GTVTDNMICAGA- 168
Query: 372 EGGKDSCQ 379
GGKD+CQ
Sbjct: 169 -GGKDACQ 175
>gnl|CDD|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family. Many
proteins may score above the trusted cutoff because an
internal.
Length = 364
Score = 153 bits (389), Expect = 4e-41
Identities = 68/124 (54%), Positives = 87/124 (70%), Gaps = 3/124 (2%)
Query: 491 REVVETP---LLHLDGFDPRGNIKVLMATNRPDTLDPALMRPGRLDRKVEFGLPDLEGRT 547
REV T L LDGFDPRGN+KV+ ATNRPD LDPAL+RPGR DR +E LPD EGR
Sbjct: 240 REVQRTLMQLLAELDGFDPRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRL 299
Query: 548 HIFKIHARSMSVERDIRFELLARLCPNSTGAEIRSVCTEAGMFAIRARRKVASEKDFLEA 607
I KIH R M + D+ E +A++ ++GA+++++CTEAGMFAIR R + DF++A
Sbjct: 300 EILKIHTRKMKLAEDVDLEAIAKMTEGASGADLKAICTEAGMFAIREERDYVTMDDFIKA 359
Query: 608 VNKV 611
V KV
Sbjct: 360 VEKV 363
Score = 102 bits (255), Expect = 2e-23
Identities = 46/80 (57%), Positives = 62/80 (77%), Gaps = 3/80 (3%)
Query: 97 RFDDGAGGDNEVQ--RTMLEL-INQPEKFVNLGIEPPKGVLLFGPPGTGKTLCARAVANR 153
++D G + +++ R +EL + PE F +GIEPPKGVLL+GPPGTGKTL A+AVA+
Sbjct: 120 SYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHE 179
Query: 154 TDACFIRVIGSELVQKYVGE 173
T+A FIRV+GSELV+KY+GE
Sbjct: 180 TNATFIRVVGSELVRKYIGE 199
Score = 79.8 bits (197), Expect = 6e-16
Identities = 35/98 (35%), Positives = 54/98 (55%), Gaps = 10/98 (10%)
Query: 616 KIINADSENPKYIINVKQFAKFVVDLADSVAPTDIEEGMRVGVDRNKYQIHIPLPPKIDP 675
+++ S P +++NV F + ++ G RV +++ I LP DP
Sbjct: 57 RVVVKSSTGPNFVVNVSAF----------IDRKSLKPGARVALNQQTLTIVDVLPTSKDP 106
Query: 676 TVTMMQVEEKPDVTYSDIGGCKEQIEKLREVVETPLLH 713
V M+VEE+P+V+Y DIGG +EQI ++RE VE PL H
Sbjct: 107 LVKGMEVEERPNVSYEDIGGLEEQIREIREAVELPLKH 144
Score = 77.5 bits (191), Expect = 3e-15
Identities = 38/86 (44%), Positives = 50/86 (58%), Gaps = 20/86 (23%)
Query: 61 AVANRTDACFIRVIGSELVQKYVGEGARM--------------------IDAIGGARFDD 100
AVA+ T+A FIRV+GSELV+KY+GEGAR+ IDAI R D
Sbjct: 175 AVAHETNATFIRVVGSELVRKYIGEGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDS 234
Query: 101 GAGGDNEVQRTMLELINQPEKFVNLG 126
G GD EVQRT+++L+ + + F G
Sbjct: 235 GTSGDREVQRTLMQLLAELDGFDPRG 260
Score = 69.8 bits (171), Expect = 1e-12
Identities = 32/63 (50%), Positives = 42/63 (66%)
Query: 446 NEQPLQIHIPLPPKIDPTVTMMQVEEKPDVTYSDIGGCKEQIEKLREVVETPLLHLDGFD 505
N+Q L I LP DP V M+VEE+P+V+Y DIGG +EQI ++RE VE PL H + F+
Sbjct: 90 NQQTLTIVDVLPTSKDPLVKGMEVEERPNVSYEDIGGLEEQIREIREAVELPLKHPELFE 149
Query: 506 PRG 508
G
Sbjct: 150 EVG 152
>gnl|CDD|185575 PTZ00361, PTZ00361, 26 proteosome regulatory subunit 4-like
protein; Provisional.
Length = 438
Score = 127 bits (320), Expect = 2e-31
Identities = 60/134 (44%), Positives = 87/134 (64%), Gaps = 4/134 (2%)
Query: 478 SDIGGCKEQIEKLREVVETPLLHLDGFDPRGNIKVLMATNRPDTLDPALMRPGRLDRKVE 537
+ GG KE + E+ L LDGFD RG++KV+MATNR ++LDPAL+RPGR+DRK+E
Sbjct: 295 ATSGGEKEIQRTMLEL----LNQLDGFDSRGDVKVIMATNRIESLDPALIRPGRIDRKIE 350
Query: 538 FGLPDLEGRTHIFKIHARSMSVERDIRFELLARLCPNSTGAEIRSVCTEAGMFAIRARRK 597
F PD + + IF+IH M++ D+ E +GA+I+++CTEAG+ A+R RR
Sbjct: 351 FPNPDEKTKRRIFEIHTSKMTLAEDVDLEEFIMAKDELSGADIKAICTEAGLLALRERRM 410
Query: 598 VASEKDFLEAVNKV 611
++ DF +A KV
Sbjct: 411 KVTQADFRKAKEKV 424
Score = 97.1 bits (242), Expect = 2e-21
Identities = 42/79 (53%), Positives = 61/79 (77%), Gaps = 3/79 (3%)
Query: 98 FDDGAGGDNEVQ--RTMLEL-INQPEKFVNLGIEPPKGVLLFGPPGTGKTLCARAVANRT 154
+ D G + ++Q + +EL + PE + ++GI+PPKGV+L+GPPGTGKTL A+AVAN T
Sbjct: 182 YADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANET 241
Query: 155 DACFIRVIGSELVQKYVGE 173
A F+RV+GSEL+QKY+G+
Sbjct: 242 SATFLRVVGSELIQKYLGD 260
Score = 83.7 bits (207), Expect = 6e-17
Identities = 38/82 (46%), Positives = 51/82 (62%), Gaps = 20/82 (24%)
Query: 61 AVANRTDACFIRVIGSELVQKYVGEGARM--------------------IDAIGGARFDD 100
AVAN T A F+RV+GSEL+QKY+G+G ++ IDAIG R+D
Sbjct: 236 AVANETSATFLRVVGSELIQKYLGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDA 295
Query: 101 GAGGDNEVQRTMLELINQPEKF 122
+GG+ E+QRTMLEL+NQ + F
Sbjct: 296 TSGGEKEIQRTMLELLNQLDGF 317
Score = 56.7 bits (137), Expect = 2e-08
Identities = 30/96 (31%), Positives = 53/96 (55%), Gaps = 10/96 (10%)
Query: 618 INADSENPKYIINVKQFAKFVVDLADSVAPTDIEEGMRVGVDRNKYQIHIPLPPKIDPTV 677
I + S P+Y +N+ F V +E G V + + + L ++DP V
Sbjct: 120 IVSSSVGPEYYVNILSF----------VDKEQLEPGCSVLLHNKTHSVVGILLDEVDPLV 169
Query: 678 TMMQVEEKPDVTYSDIGGCKEQIEKLREVVETPLLH 713
++M+V++ P +Y+DIGG ++QI++++E VE PL H
Sbjct: 170 SVMKVDKAPLESYADIGGLEQQIQEIKEAVELPLTH 205
Score = 56.3 bits (136), Expect = 3e-08
Identities = 23/57 (40%), Positives = 40/57 (70%), Gaps = 6/57 (10%)
Query: 460 IDPTVTMMQVEEKPDVTYSDIGGCKEQIEKLREVVETPLLHLDGFD------PRGNI 510
+DP V++M+V++ P +Y+DIGG ++QI++++E VE PL H + +D P+G I
Sbjct: 165 VDPLVSVMKVDKAPLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVI 221
>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 = 127 bits (321), Expect = 4e-31
Identities = 46/114 (40%), Positives = 72/114 (63%)
Query: 498 LLHLDGFDPRGNIKVLMATNRPDTLDPALMRPGRLDRKVEFGLPDLEGRTHIFKIHARSM 557
L+ +DGF + V+ ATNRPD LDPAL+RPGR DR+V LPD++GR I K+HA++
Sbjct: 182 LVEMDGFGTNTGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNK 241
Query: 558 SVERDIRFELLARLCPNSTGAEIRSVCTEAGMFAIRARRKVASEKDFLEAVNKV 611
+ D+ + +AR P +GA++ ++ EA + A R + + D EA+++V
Sbjct: 242 KLAPDVDLKAVARRTPGFSGADLANLLNEAALLAARKNKTEITMNDIEEAIDRV 295
Score = 83.9 bits (208), Expect = 6e-17
Identities = 36/78 (46%), Positives = 46/78 (58%), Gaps = 2/78 (2%)
Query: 97 RFDDGAGGDNEVQRTM--LELINQPEKFVNLGIEPPKGVLLFGPPGTGKTLCARAVANRT 154
F D AG D + M ++ + P KF LG + PKGVLL GPPGTGKTL A+AVA
Sbjct: 53 TFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA 112
Query: 155 DACFIRVIGSELVQKYVG 172
F + GS+ V+ +VG
Sbjct: 113 GVPFFSISGSDFVEMFVG 130
Score = 34.6 bits (80), Expect = 0.17
Identities = 13/29 (44%), Positives = 19/29 (65%)
Query: 467 MQVEEKPDVTYSDIGGCKEQIEKLREVVE 495
+ EEKP VT+ D+ G E E+L E+V+
Sbjct: 44 LLNEEKPKVTFKDVAGIDEAKEELMEIVD 72
Score = 34.6 bits (80), Expect = 0.17
Identities = 13/29 (44%), Positives = 19/29 (65%)
Query: 680 MQVEEKPDVTYSDIGGCKEQIEKLREVVE 708
+ EEKP VT+ D+ G E E+L E+V+
Sbjct: 44 LLNEEKPKVTFKDVAGIDEAKEELMEIVD 72
Score = 30.7 bits (70), Expect = 2.7
Identities = 26/92 (28%), Positives = 39/92 (42%), Gaps = 26/92 (28%)
Query: 35 AVANRTDACFIRVIGSELVQKYVGEGAV--------ANRTDACFIRVIGSELVQKYVGEG 86
AVA F + GS+ V+ +VG GA A + C I ++ E
Sbjct: 107 AVAGEAGVPFFSISGSDFVEMFVGVGASRVRDLFEQAKKNAPCII----------FIDE- 155
Query: 87 ARMIDAIGGARFDDGAGGDNEVQRTMLELINQ 118
IDA+G R GG++E ++T+ NQ
Sbjct: 156 ---IDAVGRQRGAGLGGGNDEREQTL----NQ 180
>gnl|CDD|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like
protein; Provisional.
Length = 398
Score = 122 bits (307), Expect = 6e-30
Identities = 53/116 (45%), Positives = 70/116 (60%)
Query: 498 LLHLDGFDPRGNIKVLMATNRPDTLDPALMRPGRLDRKVEFGLPDLEGRTHIFKIHARSM 557
L +DGFD N+KV+MATNR DTLDPAL+RPGRLDRK+EF LPD + IF+ M
Sbjct: 273 LNQMDGFDQTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKM 332
Query: 558 SVERDIRFELLARLCPNSTGAEIRSVCTEAGMFAIRARRKVASEKDFLEAVNKVAR 613
++ ++ E + A+I ++C EAGM A+R R V KDF + V R
Sbjct: 333 NLSEEVDLEDFVSRPEKISAADIAAICQEAGMQAVRKNRYVILPKDFEKGYKTVVR 388
Score = 97.1 bits (242), Expect = 2e-21
Identities = 44/79 (55%), Positives = 58/79 (73%), Gaps = 3/79 (3%)
Query: 98 FDDGAGGDNEVQ--RTMLEL-INQPEKFVNLGIEPPKGVLLFGPPGTGKTLCARAVANRT 154
+ D G D + Q R +EL + PE + +GI+PP+GVLL+GPPGTGKT+ A+AVA+ T
Sbjct: 144 YSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHT 203
Query: 155 DACFIRVIGSELVQKYVGE 173
A FIRV+GSE VQKY+GE
Sbjct: 204 TATFIRVVGSEFVQKYLGE 222
Score = 81.0 bits (200), Expect = 3e-16
Identities = 38/82 (46%), Positives = 46/82 (56%), Gaps = 20/82 (24%)
Query: 61 AVANRTDACFIRVIGSELVQKYVGEGARM--------------------IDAIGGARFDD 100
AVA+ T A FIRV+GSE VQKY+GEG RM +D+I RFD
Sbjct: 198 AVAHHTTATFIRVVGSEFVQKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDA 257
Query: 101 GAGGDNEVQRTMLELINQPEKF 122
G D EVQR +LEL+NQ + F
Sbjct: 258 QTGADREVQRILLELLNQMDGF 279
Score = 69.4 bits (170), Expect = 2e-12
Identities = 38/119 (31%), Positives = 61/119 (51%), Gaps = 12/119 (10%)
Query: 400 KSIKAVEDDIQAVIKRVNELTGIKESDTGLAPPALWDLTADKQTLQNEQPLQIHIP---- 455
K I++V I ++ ++ GI S +G T +++ L+ + +H
Sbjct: 60 KRIQSVPLVIGQFLEMIDSNYGIVSSTSGSNYYVRILSTLNRELLKPNASVALHRHSHAV 119
Query: 456 ---LPPKIDPTVTMMQVEEKPDVTYSDIGGCKEQIEKLREVVETPLLHLD-----GFDP 506
LPP+ D ++ ++Q+ EKPDVTYSDIGG Q +++RE VE PL + G DP
Sbjct: 120 VDILPPEADSSIQLLQMSEKPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDP 178
Score = 68.6 bits (168), Expect = 3e-12
Identities = 26/65 (40%), Positives = 41/65 (63%)
Query: 649 DIEEGMRVGVDRNKYQIHIPLPPKIDPTVTMMQVEEKPDVTYSDIGGCKEQIEKLREVVE 708
++ V + R+ + + LPP+ D ++ ++Q+ EKPDVTYSDIGG Q +++RE VE
Sbjct: 103 LLKPNASVALHRHSHAVVDILPPEADSSIQLLQMSEKPDVTYSDIGGLDIQKQEIREAVE 162
Query: 709 TPLLH 713
PL
Sbjct: 163 LPLTC 167
>gnl|CDD|223541 COG0465, HflB, ATP-dependent Zn proteases [Posttranslational
modification, protein turnover, chaperones].
Length = 596
Score = 113 bits (284), Expect = 4e-26
Identities = 45/111 (40%), Positives = 72/111 (64%)
Query: 501 LDGFDPRGNIKVLMATNRPDTLDPALMRPGRLDRKVEFGLPDLEGRTHIFKIHARSMSVE 560
+DGF + V+ ATNRPD LDPAL+RPGR DR++ LPD++GR I K+HA++ +
Sbjct: 280 MDGFGGNEGVIVIAATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLA 339
Query: 561 RDIRFELLARLCPNSTGAEIRSVCTEAGMFAIRARRKVASEKDFLEAVNKV 611
D+ + +AR P +GA++ ++ EA + A R +K + +D EA+++V
Sbjct: 340 EDVDLKKIARGTPGFSGADLANLLNEAALLAARRNKKEITMRDIEEAIDRV 390
Score = 72.7 bits (179), Expect = 3e-13
Identities = 34/78 (43%), Positives = 46/78 (58%), Gaps = 2/78 (2%)
Query: 97 RFDDGAGGDNEVQRTM--LELINQPEKFVNLGIEPPKGVLLFGPPGTGKTLCARAVANRT 154
F D AG D + ++ + P+K+ LG + PKGVLL GPPGTGKTL A+AVA
Sbjct: 148 TFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEA 207
Query: 155 DACFIRVIGSELVQKYVG 172
F + GS+ V+ +VG
Sbjct: 208 GVPFFSISGSDFVEMFVG 225
Score = 34.2 bits (79), Expect = 0.24
Identities = 15/62 (24%), Positives = 28/62 (45%), Gaps = 8/62 (12%)
Query: 460 IDPTVTMMQVEEKPDVTYSDIGGCKEQIEKLREVVE-----TPLLHLDGFDPRGNIKVLM 514
+ + +E++ VT++D+ G E E+L E+V+ L P+G VL+
Sbjct: 132 FGKSKAKLYLEDQVKVTFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKG---VLL 188
Query: 515 AT 516
Sbjct: 189 VG 190
Score = 31.5 bits (72), Expect = 1.8
Identities = 10/36 (27%), Positives = 21/36 (58%)
Query: 673 IDPTVTMMQVEEKPDVTYSDIGGCKEQIEKLREVVE 708
+ + +E++ VT++D+ G E E+L E+V+
Sbjct: 132 FGKSKAKLYLEDQVKVTFADVAGVDEAKEELSELVD 167
>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 = 112 bits (282), Expect = 1e-25
Identities = 67/223 (30%), Positives = 102/223 (45%), Gaps = 43/223 (19%)
Query: 491 REVVETPLLHLDGFDPRGNIKVLMATNRPDTLDPALMRPGRLDRKVEFGLPDLEGRTHIF 550
+ VV L +DG RG + V+ ATNRPD LDPAL RPGR DR++ +PD R I
Sbjct: 296 KRVVAQLLTLMDGLKGRGRVIVIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEIL 355
Query: 551 KIHARSMSVERDIRFELLARLCPNSTGAEIRSVCTEAGMFAIRARRKVASEKDFLEAVNK 610
K+H R+M + D+ + LA + GA++ ++ EA M A+R
Sbjct: 356 KVHTRNMPLAEDVDLDKLAEVTHGFVGADLAALAKEAAMAALR----------------- 398
Query: 611 VARCTKIINADSENPKYIINVKQFAKFVVDLADSVAPTDIEEGMRVGVDRNKYQIHIPLP 670
+ I N + ++ V+ V D E +++
Sbjct: 399 -----RFIREGKINFE----AEEIPAEVLKEL-KVTMKDFMEALKM-------------- 434
Query: 671 PKIDPTVTMMQVEEKPDVTYSDIGGCKEQIEKLREVVETPLLH 713
++P+ + E P+V +SDIGG +E ++LRE VE PL H
Sbjct: 435 --VEPSAIREVLVEVPNVRWSDIGGLEEVKQELREAVEWPLKH 475
Score = 107 bits (268), Expect = 4e-24
Identities = 59/137 (43%), Positives = 72/137 (52%), Gaps = 18/137 (13%)
Query: 493 VVETPLLHLDGFDPRGNIKVLMATNRPDTLDPALMRPGRLDRKVEFGLPDLEGRTHIFKI 552
+V L +DG N+ V+ ATNRPD LDPAL+RPGR DR + PD E R IFKI
Sbjct: 574 IVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKI 633
Query: 553 HARSMSVERDIRFELLARLCPNSTGAEIRSVCTEAGMFAIRARRK-VASEK--------- 602
H RSM + D+ E LA + TGA+I +VC EA M A+R A EK
Sbjct: 634 HTRSMPLAEDVDLEELAEMTEGYTGADIEAVCREAAMAALRESIGSPAKEKLEVGEEEFL 693
Query: 603 --------DFLEAVNKV 611
FLEA+ KV
Sbjct: 694 KDLKVEMRHFLEALKKV 710
Score = 87.7 bits (217), Expect = 7e-18
Identities = 56/151 (37%), Positives = 80/151 (52%), Gaps = 14/151 (9%)
Query: 29 KNIARGAVANRTDACFIRVIGSELVQKYVGEGAVANRTDACFIRVIGS---ELVQKYVGE 85
K G ++ + + V+ L +V V + A F+ V + E+ +K V E
Sbjct: 113 KEFLLGKPISKGETVIVPVLEGAL--PFV----VVSTQPAGFVYVTEATEVEIREKPVRE 166
Query: 86 GARMIDAIGGARFDDGAGGDNEVQ--RTMLEL-INQPEKFVNLGIEPPKGVLLFGPPGTG 142
+ + ++D G + R M+EL + PE F +LGIEPPKGVLL+GPPGTG
Sbjct: 167 --EIERKVPKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTG 224
Query: 143 KTLCARAVANRTDACFIRVIGSELVQKYVGE 173
KTL A+AVAN A FI + G E++ KY GE
Sbjct: 225 KTLLAKAVANEAGAYFISINGPEIMSKYYGE 255
Score = 82.6 bits (204), Expect = 3e-16
Identities = 43/81 (53%), Positives = 54/81 (66%), Gaps = 5/81 (6%)
Query: 97 RFDDGAGGDNEVQRTMLELI----NQPEKFVNLGIEPPKGVLLFGPPGTGKTLCARAVAN 152
R+ D GG EV++ + E + PE F +GI PPKGVLLFGPPGTGKTL A+AVA
Sbjct: 451 RWSD-IGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVAT 509
Query: 153 RTDACFIRVIGSELVQKYVGE 173
+ A FI V G E++ K+VGE
Sbjct: 510 ESGANFIAVRGPEILSKWVGE 530
Score = 46.8 bits (111), Expect = 4e-05
Identities = 20/36 (55%), Positives = 25/36 (69%)
Query: 473 PDVTYSDIGGCKEQIEKLREVVETPLLHLDGFDPRG 508
P VTY DIGG KE EK+RE+VE P+ H + F+ G
Sbjct: 173 PKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLG 208
Score = 45.7 bits (108), Expect = 8e-05
Identities = 18/28 (64%), Positives = 21/28 (75%)
Query: 686 PDVTYSDIGGCKEQIEKLREVVETPLLH 713
P VTY DIGG KE EK+RE+VE P+ H
Sbjct: 173 PKVTYEDIGGLKEAKEKIREMVELPMKH 200
Score = 38.7 bits (90), Expect = 0.010
Identities = 20/49 (40%), Positives = 31/49 (63%)
Query: 460 IDPTVTMMQVEEKPDVTYSDIGGCKEQIEKLREVVETPLLHLDGFDPRG 508
++P+ + E P+V +SDIGG +E ++LRE VE PL H + F+ G
Sbjct: 435 VEPSAIREVLVEVPNVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMG 483
Score = 34.9 bits (80), Expect = 0.19
Identities = 30/109 (27%), Positives = 45/109 (41%), Gaps = 13/109 (11%)
Query: 29 KNIARGAVANRTDACFIRVIGSELVQKYVGEGAVANRTDACFIRVIGSELVQKYVGEGAR 88
K + AVA + A FI V G E++ K+VGE A R F + + + E
Sbjct: 500 KTLLAKAVATESGANFIAVRGPEILSKWVGESEKAIRE--IFRKARQAAPAIIFFDE--- 554
Query: 89 MIDAIGGARFDDGAGGDNEVQRTMLELINQPEKFVNLGIEPPKGVLLFG 137
IDAI AR G ++NQ ++ GI+ V++
Sbjct: 555 -IDAIAPAR------GARFDTSVTDRIVNQLLTEMD-GIQELSNVVVIA 595
>gnl|CDD|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed.
Length = 644
Score = 111 bits (279), Expect = 1e-25
Identities = 55/131 (41%), Positives = 83/131 (63%), Gaps = 4/131 (3%)
Query: 481 GGCKEQIEKLREVVETPLLHLDGFDPRGNIKVLMATNRPDTLDPALMRPGRLDRKVEFGL 540
GG E+ + L ++ L+ +DGF+ I V+ ATNRPD LDPAL+RPGR DR+V GL
Sbjct: 266 GGHDEREQTLNQM----LVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGL 321
Query: 541 PDLEGRTHIFKIHARSMSVERDIRFELLARLCPNSTGAEIRSVCTEAGMFAIRARRKVAS 600
PD+ GR I K+H R + + DI ++AR P +GA++ ++ EA +FA R ++V S
Sbjct: 322 PDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARGNKRVVS 381
Query: 601 EKDFLEAVNKV 611
+F +A +K+
Sbjct: 382 MVEFEKAKDKI 392
Score = 65.4 bits (159), Expect = 6e-11
Identities = 33/77 (42%), Positives = 47/77 (61%), Gaps = 2/77 (2%)
Query: 98 FDDGAGGDNEVQRT--MLELINQPEKFVNLGIEPPKGVLLFGPPGTGKTLCARAVANRTD 155
F D AG D + ++E + +P +F LG + PKGVL+ GPPGTGKTL A+A+A
Sbjct: 151 FADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAK 210
Query: 156 ACFIRVIGSELVQKYVG 172
F + GS+ V+ +VG
Sbjct: 211 VPFFTISGSDFVEMFVG 227
Score = 29.6 bits (66), Expect = 7.7
Identities = 24/94 (25%), Positives = 45/94 (47%), Gaps = 6/94 (6%)
Query: 29 KNIARGAVANRTDACFIRVIGSELVQKYVGEGAVANRTDACFIRVIGSELVQKYVGEGAR 88
K + A+A F + GS+ V+ +VG G A+R F + + ++ E
Sbjct: 198 KTLLAKAIAGEAKVPFFTISGSDFVEMFVGVG--ASRVRDMFEQAKKAAPCIIFIDE--- 252
Query: 89 MIDAIGGARFDDGAGGDNEVQRTMLELINQPEKF 122
IDA+G R GG +E ++T+ +++ + + F
Sbjct: 253 -IDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGF 285
>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational
modification, protein turnover, chaperones].
Length = 494
Score = 109 bits (274), Expect = 3e-25
Identities = 52/115 (45%), Positives = 71/115 (61%), Gaps = 3/115 (2%)
Query: 501 LDGFDPRGNIKVLMATNRPDTLDPALMRPGRLDRKVEFGLPDLEGRTHIFKIHARSM--S 558
LDG + + V+ ATNRPD LDPAL+RPGR DR + LPDLE R IFKIH R
Sbjct: 370 LDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRDKKPP 429
Query: 559 VERDIRFELLARLCPNSTGAEIRSVCTEAGMFAIR-ARRKVASEKDFLEAVNKVA 612
+ D+ E LA + +GA+I ++ EA + A+R ARR+ + DFL+A+ K+
Sbjct: 430 LAEDVDLEELAEITEGYSGADIAALVREAALEALREARRREVTLDDFLDALKKIK 484
Score = 93.0 bits (231), Expect = 8e-20
Identities = 66/231 (28%), Positives = 90/231 (38%), Gaps = 59/231 (25%)
Query: 483 CKEQIEKLREVVETPLLHLDGFDPRGNIKVLMATNRPDTLDPALMRPGRLDRKVEFGLPD 542
+Q E R VV LL L RG + V+ ATNRPD LDPA RPGR DR++E LPD
Sbjct: 93 SSDQGEVERRVVAQ-LLALMDGLKRGQVIVIGATNRPDGLDPAKRRPGRFDREIEVNLPD 151
Query: 543 LEGRTHIFKIHARSMSVERDIRFELLARLCPNSTGAEIRSVCTEAGMFAIRARRKVASEK 602
GR I +IH R M + + LA +GA++ ++ EA + +R
Sbjct: 152 EAGRLEILQIHTRLMFLGPPGTGKTLAARTVGKSGADLGALAKEAALRELR--------- 202
Query: 603 DFLEAVNKVARCTKIINADSENPKYIINVKQFAKFVVDLADSVAPTDIEEGMRVGVDRNK 662
A +YI + F L + +
Sbjct: 203 ----------------RAIDLVGEYIGVTED--DFEEALKKVLPSRGV------------ 232
Query: 663 YQIHIPLPPKIDPTVTMMQVEEKPDVTYSDIGGCKEQIEKLREVVETPLLH 713
+ E DVT DIGG +E E+L+E +ETPL
Sbjct: 233 -------------------LFEDEDVTLDDIGGLEEAKEELKEAIETPLKR 264
Score = 91.4 bits (227), Expect = 3e-19
Identities = 40/80 (50%), Positives = 53/80 (66%), Gaps = 3/80 (3%)
Query: 97 RFDDGAGGDN---EVQRTMLELINQPEKFVNLGIEPPKGVLLFGPPGTGKTLCARAVANR 153
DD G + E++ + + +PE F LG+ PPKGVLL+GPPGTGKTL A+AVA
Sbjct: 240 TLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALE 299
Query: 154 TDACFIRVIGSELVQKYVGE 173
+ + FI V GSEL+ K+VGE
Sbjct: 300 SRSRFISVKGSELLSKWVGE 319
Score = 53.7 bits (129), Expect = 2e-07
Identities = 38/58 (65%), Positives = 43/58 (74%), Gaps = 1/58 (1%)
Query: 119 PEKFVNLGIEPPKGVLLFGPPGTGKTLCARAVANRTDACFIRVIGSELVQKYVGERVL 176
PE F LGIEPPKGVLL GPPGTGKTL ARA+AN A F+ + G E++ KYVGE L
Sbjct: 7 PELFKKLGIEPPKGVLLHGPPGTGKTLLARALANE-GAEFLSINGPEILSKYVGESEL 63
Score = 42.5 bits (100), Expect = 6e-04
Identities = 28/103 (27%), Positives = 40/103 (38%), Gaps = 14/103 (13%)
Query: 35 AVANRTDACFIRVIGSELVQKYVGEGAVANRTDACFIRVIGSELVQKYVGEGARMIDAIG 94
AVA + + FI V GSEL+ K+VGE F + ++ E ID++
Sbjct: 295 AVALESRSRFISVKGSELLSKWVGE--SEKNIRELFEKARKLAPSIIFIDE----IDSLA 348
Query: 95 GARFDDGAGGDNEVQRTMLELINQPEKFVNLGIEPPKGVLLFG 137
R G V +L GIE +GVL+
Sbjct: 349 SGRGPSEDGSGRRVVGQLL--------TELDGIEKAEGVLVIA 383
Score = 42.1 bits (99), Expect = 0.001
Identities = 20/55 (36%), Positives = 28/55 (50%), Gaps = 2/55 (3%)
Query: 469 VEEKPDVTYSDIGGCKEQIEKLREVVETPLLHLDGFDP--RGNIKVLMATNRPDT 521
+ E DVT DIGG +E E+L+E +ETPL + F K ++ P T
Sbjct: 233 LFEDEDVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGT 287
>gnl|CDD|214386 CHL00176, ftsH, cell division protein; Validated.
Length = 638
Score = 107 bits (269), Expect = 4e-24
Identities = 50/132 (37%), Positives = 76/132 (57%), Gaps = 1/132 (0%)
Query: 498 LLHLDGFDPRGNIKVLMATNRPDTLDPALMRPGRLDRKVEFGLPDLEGRTHIFKIHARSM 557
L +DGF + V+ ATNR D LD AL+RPGR DR++ LPD EGR I K+HAR+
Sbjct: 310 LTEMDGFKGNKGVIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNK 369
Query: 558 SVERDIRFELLARLCPNSTGAEIRSVCTEAGMFAIRARRKVASEKDFLEAVNKV-ARCTK 616
+ D+ EL+AR P +GA++ ++ EA + R ++ + K+ A+++V A
Sbjct: 370 KLSPDVSLELIARRTPGFSGADLANLLNEAAILTARRKKATITMKEIDTAIDRVIAGLEG 429
Query: 617 IINADSENPKYI 628
DS+N + I
Sbjct: 430 TPLEDSKNKRLI 441
Score = 77.4 bits (191), Expect = 1e-14
Identities = 34/80 (42%), Positives = 49/80 (61%), Gaps = 2/80 (2%)
Query: 95 GARFDDGAGGDNEVQR--TMLELINQPEKFVNLGIEPPKGVLLFGPPGTGKTLCARAVAN 152
G F D AG + + ++ + +PE+F +G + PKGVLL GPPGTGKTL A+A+A
Sbjct: 179 GITFRDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAG 238
Query: 153 RTDACFIRVIGSELVQKYVG 172
+ F + GSE V+ +VG
Sbjct: 239 EAEVPFFSISGSEFVEMFVG 258
Score = 30.8 bits (70), Expect = 3.1
Identities = 30/112 (26%), Positives = 49/112 (43%), Gaps = 29/112 (25%)
Query: 35 AVANRTDACFIRVIGSELVQKYVGEGAV--------ANRTDACFIRVIGSELVQKYVGEG 86
A+A + F + GSE V+ +VG GA A C + ++ E
Sbjct: 235 AIAGEAEVPFFSISGSEFVEMFVGVGAARVRDLFKKAKENSPCIV----------FIDE- 283
Query: 87 ARMIDAIGGARFDDGAGGDN-EVQRTMLELINQPEKFVNLGIEPPKGVLLFG 137
IDA+G R G GG N E ++T+ +L+ + + G + KGV++
Sbjct: 284 ---IDAVGRQR-GAGIGGGNDEREQTLNQLLTEMD-----GFKGNKGVIVIA 326
>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 = 69.9 bits (172), Expect = 2e-14
Identities = 27/41 (65%), Positives = 31/41 (75%)
Query: 133 VLLFGPPGTGKTLCARAVANRTDACFIRVIGSELVQKYVGE 173
+LL+GPPGTGKT A+AVA A FI + GSELV KYVGE
Sbjct: 1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGE 41
Score = 54.1 bits (131), Expect = 7e-09
Identities = 28/51 (54%), Positives = 32/51 (62%), Gaps = 2/51 (3%)
Query: 491 REVVETPLLHLDGFDPR-GNIKVLMATNRPDTLDPALMRPGRLDRKVEFGL 540
R VV L LDGF + V+ ATNRPD LDPAL+R GR DR +EF L
Sbjct: 82 RRVVNQLLTELDGFTSSLSKVIVIAATNRPDKLDPALLR-GRFDRIIEFPL 131
Score = 47.2 bits (113), Expect = 2e-06
Identities = 24/76 (31%), Positives = 30/76 (39%), Gaps = 20/76 (26%)
Query: 61 AVANRTDACFIRVIGSELVQKYVGEGARM--------------------IDAIGGARFDD 100
AVA A FI + GSELV KYVGE + IDA+ G+R
Sbjct: 17 AVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSRGSG 76
Query: 101 GAGGDNEVQRTMLELI 116
G V +L +
Sbjct: 77 GDSESRRVVNQLLTEL 92
>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 = 70.1 bits (172), Expect = 2e-12
Identities = 37/89 (41%), Positives = 52/89 (58%), Gaps = 13/89 (14%)
Query: 98 FDDGAGGDNEVQ--RTMLEL-INQPEKFVNLGIEPPKGVLLFGPPGTGKTLCARAVAN-- 152
+ D G ++++ R +EL PE + G++PPKGVLL+GPPG GKTL A+AVAN
Sbjct: 181 YADIGGLGSQIEQIRDAVELPFLHPELYREYGLKPPKGVLLYGPPGCGKTLIAKAVANSL 240
Query: 153 --------RTDACFIRVIGSELVQKYVGE 173
+ F+ + G EL+ KYVGE
Sbjct: 241 AARIGAEGGGKSYFLNIKGPELLNKYVGE 269
Score = 59.0 bits (143), Expect = 5e-09
Identities = 26/61 (42%), Positives = 36/61 (59%)
Query: 493 VVETPLLHLDGFDPRGNIKVLMATNRPDTLDPALMRPGRLDRKVEFGLPDLEGRTHIFKI 552
VV L +DG + N+ V+ A+NR D +DPA++RPGRLD K+ PD E IF
Sbjct: 317 VVPQLLAEIDGVESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFAK 376
Query: 553 H 553
+
Sbjct: 377 Y 377
Score = 53.9 bits (130), Expect = 2e-07
Identities = 30/76 (39%), Positives = 43/76 (56%), Gaps = 3/76 (3%)
Query: 638 VVDLADSVAPTDIEEGMRVGVDRNKYQIHIPLPPKIDPTVTMMQVEEKPDVTYSDIGGCK 697
VV LA ++A + G + VD + P+ + V + +EE PDVTY+DIGG
Sbjct: 132 VVKLAGALADEGLRPGDTLLVDP-RAGYAFEAIPRTE--VEDLVLEEVPDVTYADIGGLG 188
Query: 698 EQIEKLREVVETPLLH 713
QIE++R+ VE P LH
Sbjct: 189 SQIEQIRDAVELPFLH 204
Score = 52.4 bits (126), Expect = 5e-07
Identities = 20/36 (55%), Positives = 27/36 (75%)
Query: 469 VEEKPDVTYSDIGGCKEQIEKLREVVETPLLHLDGF 504
+EE PDVTY+DIGG QIE++R+ VE P LH + +
Sbjct: 173 LEEVPDVTYADIGGLGSQIEQIRDAVELPFLHPELY 208
Score = 33.1 bits (76), Expect = 0.49
Identities = 17/50 (34%), Positives = 22/50 (44%), Gaps = 5/50 (10%)
Query: 49 GSELVQKYV----GEGAVANRTD-ACFIRVIGSELVQKYVGEGARMIDAI 93
G L+ K V A + F+ + G EL+ KYVGE R I I
Sbjct: 228 GKTLIAKAVANSLAARIGAEGGGKSYFLNIKGPELLNKYVGETERQIRLI 277
>gnl|CDD|224144 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 368
Score = 65.6 bits (160), Expect = 2e-11
Identities = 30/80 (37%), Positives = 46/80 (57%), Gaps = 5/80 (6%)
Query: 96 ARFDDGAGGDNEVQ--RTMLELINQPEKFVNLGIEPPKGVLLFGPPGTGKTLCARAVANR 153
DD G + + R ++E + PE+F G PK VL +GPPGTGKT+ A+A+AN
Sbjct: 118 ITLDDVIGQEEAKRKCRLIMEYLENPERF---GDWAPKNVLFYGPPGTGKTMMAKALANE 174
Query: 154 TDACFIRVIGSELVQKYVGE 173
+ V +EL+ ++VG+
Sbjct: 175 AKVPLLLVKATELIGEHVGD 194
Score = 63.3 bits (154), Expect = 1e-10
Identities = 37/120 (30%), Positives = 57/120 (47%), Gaps = 3/120 (2%)
Query: 492 EVVETPLLHLDGFDPRGNIKVLMATNRPDTLDPALMRPGRLDRKVEFGLPDLEGRTHIFK 551
E+V L LDG + + ATNRP+ LDPA+ R + ++EF LP+ E R I +
Sbjct: 237 EIVNALLTELDGIKENEGVVTIAATNRPELLDPAIR--SRFEEEIEFKLPNDEERLEILE 294
Query: 552 IHARSMSVERDIRFELLARLCPNSTGAEIRS-VCTEAGMFAIRARRKVASEKDFLEAVNK 610
+A+ + D LA +G +I+ V A AI R+ +D +A+ K
Sbjct: 295 YYAKKFPLPVDADLRYLAAKTKGMSGRDIKEKVLKTALHRAIAEDREKVEREDIEKALKK 354
Score = 35.6 bits (82), Expect = 0.074
Identities = 12/30 (40%), Positives = 19/30 (63%)
Query: 61 AVANRTDACFIRVIGSELVQKYVGEGARMI 90
A+AN + V +EL+ ++VG+GAR I
Sbjct: 170 ALANEAKVPLLLVKATELIGEHVGDGARRI 199
Score = 30.2 bits (68), Expect = 4.3
Identities = 10/27 (37%), Positives = 17/27 (62%)
Query: 35 AVANRTDACFIRVIGSELVQKYVGEGA 61
A+AN + V +EL+ ++VG+GA
Sbjct: 170 ALANEAKVPLLLVKATELIGEHVGDGA 196
>gnl|CDD|227927 COG5640, COG5640, Secreted trypsin-like serine protease
[Posttranslational modification, protein turnover,
chaperones].
Length = 413
Score = 63.7 bits (155), Expect = 1e-10
Identities = 60/209 (28%), Positives = 84/209 (40%), Gaps = 33/209 (15%)
Query: 192 DRIVGGWTTEVNEYPWVVAL-EQAGKF----FCGGTLISDRYVLTAAHCVRSSKRQK-DL 245
RI+GG EYP +VAL ++ + FCGG+ + RYVLTAAHC +S D+
Sbjct: 31 SRIIGGSNANAGEYPSLVALVDRISDYVSGTFCGGSKLGGRYVLTAAHCADASSPISSDV 90
Query: 246 IVVISEHNRATVYETQIETRRVVKVLTHPKYNAQGAKSHDHDIALLKL----DTPLEFKP 301
V+ + N +Q E V + H Y+ + +DIA+L+L P K
Sbjct: 91 NRVVVDLND----SSQAERGHVRTIYVHEFYSPG---NLGNDIAVLELARAASLPRV-KI 142
Query: 302 TVSPVCLPQLGEKFTQRTGTVVGWG--------RVEESGQIASDLRATQVPV---MSNQE 350
T L T T +G R G I ++ VP+ +
Sbjct: 143 TSFDASDTFLNSVTTVSPMTNGTFGVTTPSDVPRSSPKGTILHEVAVLFVPLSTCAQYKG 202
Query: 351 CRQFPGFEAKLTGNMMCAGYVEGGKDSCQ 379
C LTG CAG KD+CQ
Sbjct: 203 CANASDGATGLTG--FCAGRP--PKDACQ 227
>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 = 50.2 bits (120), Expect = 3e-07
Identities = 24/50 (48%), Positives = 32/50 (64%), Gaps = 3/50 (6%)
Query: 128 EPPKGVLLFGPPGTGKTLCARAVAN---RTDACFIRVIGSELVQKYVGER 174
PPK +LL+GPPGTGKT ARA+AN R A F+ + S+L++ V
Sbjct: 17 PPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAE 66
Score = 36.0 bits (83), Expect = 0.024
Identities = 18/53 (33%), Positives = 24/53 (45%), Gaps = 3/53 (5%)
Query: 488 EKLREVVETPLLHLDGFDPRGNIKVLMATNRPDTLDPALMRPGRLDRKVEFGL 540
L V+ET D R N++V+ ATNRP D RLD ++ L
Sbjct: 102 NALLRVLET---LNDLRIDRENVRVIGATNRPLLGDLDRALYDRLDIRIVIPL 151
>gnl|CDD|177094 CHL00195, ycf46, Ycf46; Provisional.
Length = 489
Score = 53.1 bits (128), Expect = 4e-07
Identities = 31/102 (30%), Positives = 47/102 (46%), Gaps = 3/102 (2%)
Query: 512 VLMATNRPDTLDPALMRPGRLDRKVEFGLPDLEGRTHIFKIHARSMSVE--RDIRFELLA 569
V+ N D L ++R GR D LP LE R IFKIH + + + + L+
Sbjct: 363 VVATANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKSWKKYDIKKLS 422
Query: 570 RLCPNSTGAEIRSVCTEAGMFAIRARRKVASEKDFLEAVNKV 611
+L +GAEI EA A +R+ ++ D L A+ +
Sbjct: 423 KLSNKFSGAEIEQSIIEAMYIAFYEKREFTTD-DILLALKQF 463
Score = 42.3 bits (100), Expect = 7e-04
Identities = 16/33 (48%), Positives = 24/33 (72%)
Query: 120 EKFVNLGIEPPKGVLLFGPPGTGKTLCARAVAN 152
++ N G+ P+G+LL G GTGK+L A+A+AN
Sbjct: 249 KQASNYGLPTPRGLLLVGIQGTGKSLTAKAIAN 281
>gnl|CDD|226119 COG3591, COG3591, V8-like Glu-specific endopeptidase [Amino acid
transport and metabolism].
Length = 251
Score = 48.2 bits (115), Expect = 6e-06
Identities = 35/133 (26%), Positives = 53/133 (39%), Gaps = 14/133 (10%)
Query: 200 TEVNEYPW--VVALEQA-GKFFCGGTLISDRYVLTAAHCVRSSKRQKDLIVVI---SEHN 253
T+ ++P+ VV E A G+ TLI VLTA HC+ S +D I +
Sbjct: 44 TDTTQFPYSAVVQFEAATGRLCTAATLIGPNTVLTAGHCIYSPDYGEDDIAAAPPGVNSD 103
Query: 254 RATVYE-TQIETRRVVKVLTHPKYNAQGAKSHDHDIALLKLDTPLEFKPTVSPVCLPQLG 312
Y T+IE R V Y GA +D+ L++ + V+ +
Sbjct: 104 GGPFYGITKIEIR----VYPGELYKEDGA---SYDVGEAALESGINIGDVVNYLKRNTAS 156
Query: 313 EKFTQRTGTVVGW 325
E TV+G+
Sbjct: 157 EAKANDRITVIGY 169
>gnl|CDD|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed.
Length = 413
Score = 45.5 bits (109), Expect = 7e-05
Identities = 16/29 (55%), Positives = 21/29 (72%)
Query: 133 VLLFGPPGTGKTLCARAVANRTDACFIRV 161
++L+GPPGTGKT AR +A TDA F +
Sbjct: 39 MILWGPPGTGKTTLARIIAGATDAPFEAL 67
>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 = 40.0 bits (93), Expect = 0.001
Identities = 15/34 (44%), Positives = 20/34 (58%)
Query: 129 PPKGVLLFGPPGTGKTLCARAVANRTDACFIRVI 162
P + +L+ GPPG+GKT ARA+A VI
Sbjct: 1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVI 34
Score = 34.3 bits (78), Expect = 0.094
Identities = 15/51 (29%), Positives = 23/51 (45%), Gaps = 1/51 (1%)
Query: 492 EVVETPLLHLDGFDPRGNIKVLMATNRPDTLDPALMRPGRLDRKVEFGLPD 542
++ L L N+ V++ TN L PAL+R R DR++ L
Sbjct: 99 LLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRR-RFDRRIVLLLIL 148
>gnl|CDD|223786 COG0714, COG0714, MoxR-like ATPases [General function prediction
only].
Length = 329
Score = 40.9 bits (96), Expect = 0.002
Identities = 17/33 (51%), Positives = 21/33 (63%)
Query: 133 VLLFGPPGTGKTLCARAVANRTDACFIRVIGSE 165
VLL GPPG GKTL ARA+A F+R+ +
Sbjct: 46 VLLEGPPGVGKTLLARALARALGLPFVRIQCTP 78
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 40.7 bits (96), Expect = 0.003
Identities = 15/25 (60%), Positives = 19/25 (76%)
Query: 128 EPPKGVLLFGPPGTGKTLCARAVAN 152
+P K +LL+GPPG GKT A A+AN
Sbjct: 37 KPKKALLLYGPPGVGKTSLAHALAN 61
>gnl|CDD|217716 pfam03761, DUF316, Domain of unknown function (DUF316). This
family of proteins with unknown function are from
Caenorhabditis elegans. The protein has GO references
indicating the protein is a positive regulator of growth
rate and is also involved in nematode larval
development.
Length = 280
Score = 40.1 bits (94), Expect = 0.003
Identities = 30/165 (18%), Positives = 54/165 (32%), Gaps = 38/165 (23%)
Query: 175 VLMEGCNNEGCGVPNRMDRIVGGWTTEVNEYPWVVALE----QAGKFFCGGTLISDRYVL 230
+ C N+ +P++ G E +EYPW+V + T IS R++L
Sbjct: 26 QRLSSCGNKTLPLPSQNIN---GIYLEKSEYPWLVKAAFQNGNQKNYKPPATFISTRHIL 82
Query: 231 TAAHCVRSSKR---------------QKDLIVVISEHNRATVYETQIE------TRRVVK 269
T++ + K L V ++ + + + + +
Sbjct: 83 TSSRLFLNGKMLNWKNTGDNDTCSGGLGHLEVPPEVLDKFDIMDLSKKKGKNSFRDNITR 142
Query: 270 VLTHPKYNA-QGAKSHDHDIA---LLKLDTPLEFKPTVSPVCLPQ 310
N KS A L++L+ P P +S CL
Sbjct: 143 AYVL---NICANTKSKFDLSAKPMLVELEGPE---PNISYPCLAD 181
>gnl|CDD|225165 COG2256, MGS1, ATPase related to the helicase subunit of the
Holliday junction resolvase [DNA replication,
recombination, and repair].
Length = 436
Score = 40.3 bits (95), Expect = 0.003
Identities = 15/27 (55%), Positives = 19/27 (70%)
Query: 135 LFGPPGTGKTLCARAVANRTDACFIRV 161
L+GPPGTGKT AR +A T+A F +
Sbjct: 53 LWGPPGTGKTTLARLIAGTTNAAFEAL 79
>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 = 37.9 bits (89), Expect = 0.003
Identities = 14/29 (48%), Positives = 16/29 (55%)
Query: 133 VLLFGPPGTGKTLCARAVANRTDACFIRV 161
VLL G PG KTL AR +A F R+
Sbjct: 2 VLLEGVPGLAKTLLARTLARSLGLDFRRI 30
>gnl|CDD|237354 PRK13341, PRK13341, recombination factor protein RarA/unknown
domain fusion protein; Reviewed.
Length = 725
Score = 39.3 bits (92), Expect = 0.007
Identities = 15/26 (57%), Positives = 18/26 (69%)
Query: 134 LLFGPPGTGKTLCARAVANRTDACFI 159
+L+GPPG GKT AR +AN T A F
Sbjct: 56 ILYGPPGVGKTTLARIIANHTRAHFS 81
>gnl|CDD|236153 PRK08116, PRK08116, hypothetical protein; Validated.
Length = 268
Score = 38.1 bits (89), Expect = 0.012
Identities = 22/75 (29%), Positives = 30/75 (40%), Gaps = 19/75 (25%)
Query: 132 GVLLFGPPGTGKTLCARAVANRTDACFIRVIGSELVQKYVGERVLMEGCNNEGCGVPNRM 191
G+LL+G GTGKT A +AN EL++K V V+ + NR+
Sbjct: 116 GLLLWGSVGTGKTYLAACIAN------------ELIEKGVP--VIFVNFP----QLLNRI 157
Query: 192 DRIVGGWTTEV-NEY 205
E NE
Sbjct: 158 KSTYKSSGKEDENEI 172
>gnl|CDD|225164 COG2255, RuvB, Holliday junction resolvasome, helicase subunit [DNA
replication, recombination, and repair].
Length = 332
Score = 37.9 bits (89), Expect = 0.015
Identities = 15/25 (60%), Positives = 16/25 (64%)
Query: 128 EPPKGVLLFGPPGTGKTLCARAVAN 152
E VLLFGPPG GKT A +AN
Sbjct: 50 EALDHVLLFGPPGLGKTTLAHIIAN 74
>gnl|CDD|224401 COG1484, DnaC, DNA replication protein [DNA replication,
recombination, and repair].
Length = 254
Score = 36.6 bits (85), Expect = 0.029
Identities = 19/69 (27%), Positives = 30/69 (43%), Gaps = 7/69 (10%)
Query: 104 GDNEVQRTMLELINQPEKFVNLGIEPPKGVLLFGPPGTGKTLCARAVANRTDACFIRVI- 162
+ + LE + +F G + ++L GPPG GKT A A+ N I V+
Sbjct: 83 FQPGIDKKALEDLASLVEFFERG----ENLVLLGPPGVGKTHLAIAIGNELLKAGISVLF 138
Query: 163 --GSELVQK 169
+L+ K
Sbjct: 139 ITAPDLLSK 147
>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 = 37.1 bits (86), Expect = 0.033
Identities = 20/47 (42%), Positives = 28/47 (59%), Gaps = 1/47 (2%)
Query: 130 PKGVLLFGPPGTGKTLCARAVANRTDACFIRVIGSELVQ-KYVGERV 175
PK +L+ GP G GKT AR +A +A FI+V ++ + YVG V
Sbjct: 47 PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGRDV 93
>gnl|CDD|215758 pfam00158, Sigma54_activat, Sigma-54 interaction domain.
Length = 168
Score = 35.4 bits (83), Expect = 0.036
Identities = 18/46 (39%), Positives = 23/46 (50%), Gaps = 12/46 (26%)
Query: 133 VLLFGPPGTGKTLCARAV---ANRTDACFIRV---------IGSEL 166
VL+ G GTGK L ARA+ + R D F+ V + SEL
Sbjct: 25 VLITGESGTGKELFARAIHQLSPRADGPFVAVNCAAIPEELLESEL 70
>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 = 36.3 bits (85), Expect = 0.037
Identities = 21/52 (40%), Positives = 25/52 (48%), Gaps = 9/52 (17%)
Query: 110 RTMLELINQPEKFVNLGI---------EPPKGVLLFGPPGTGKTLCARAVAN 152
R + E I Q + NL I E VLL+GPPG GKT A +AN
Sbjct: 21 RRLDEYIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIAN 72
>gnl|CDD|224145 COG1224, TIP49, DNA helicase TIP49, TBP-interacting protein
[Transcription].
Length = 450
Score = 36.6 bits (85), Expect = 0.044
Identities = 17/38 (44%), Positives = 24/38 (63%), Gaps = 2/38 (5%)
Query: 131 KGVLLFGPPGTGKTLCARAVANR--TDACFIRVIGSEL 166
+G+L+ GPPGTGKT A +A D F+ + GSE+
Sbjct: 66 RGILIVGPPGTGKTALAMGIARELGEDVPFVAISGSEI 103
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 34.6 bits (80), Expect = 0.045
Identities = 8/32 (25%), Positives = 13/32 (40%), Gaps = 3/32 (9%)
Query: 133 VLLFGPPGTGKTLCARAVAN---RTDACFIRV 161
+L G G+GKT R +A ++
Sbjct: 7 GVLTGESGSGKTTLLRRLARQLPNRRVVYVEA 38
>gnl|CDD|234619 PRK00080, ruvB, Holliday junction DNA helicase RuvB; Reviewed.
Length = 328
Score = 36.3 bits (85), Expect = 0.051
Identities = 14/25 (56%), Positives = 16/25 (64%)
Query: 128 EPPKGVLLFGPPGTGKTLCARAVAN 152
E VLL+GPPG GKT A +AN
Sbjct: 49 EALDHVLLYGPPGLGKTTLANIIAN 73
>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 = 36.1 bits (84), Expect = 0.054
Identities = 17/52 (32%), Positives = 24/52 (46%), Gaps = 9/52 (17%)
Query: 110 RTMLELINQPEKFVNLGI---------EPPKGVLLFGPPGTGKTLCARAVAN 152
+ + E I Q + L + E +LL+GPPG GKT A +AN
Sbjct: 1 KLLAEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIAN 52
>gnl|CDD|222077 pfam13365, Trypsin_2, Trypsin-like peptidase domain. This family
includes trypsin like peptidase domains.
Length = 138
Score = 34.5 bits (79), Expect = 0.057
Identities = 21/79 (26%), Positives = 31/79 (39%), Gaps = 22/79 (27%)
Query: 221 GTLIS-DRYVLTAAHCVRSSKRQKDLIVVISEHNRATVYETQIETRRVVKVLTHPKYNAQ 279
G ++ D +LT AH V + ++ VV+ + R VV
Sbjct: 3 GFVVGSDGLILTNAHVVEDA-DASEIEVVLPDGGRVPA--------EVVAA--------- 44
Query: 280 GAKSHDHDIALLKLDTPLE 298
D D+ALLK+D PL
Sbjct: 45 ---DPDLDLALLKVDGPLL 60
>gnl|CDD|224141 COG1220, HslU, ATP-dependent protease HslVU (ClpYQ), ATPase subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 444
Score = 36.1 bits (84), Expect = 0.058
Identities = 20/47 (42%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 130 PKGVLLFGPPGTGKTLCARAVANRTDACFIRVIGSELVQ-KYVGERV 175
PK +L+ GP G GKT AR +A A FI+V ++ + YVG V
Sbjct: 50 PKNILMIGPTGVGKTEIARRLAKLAGAPFIKVEATKFTEVGYVGRDV 96
>gnl|CDD|222866 PHA02544, 44, clamp loader, small subunit; Provisional.
Length = 316
Score = 35.7 bits (83), Expect = 0.072
Identities = 17/44 (38%), Positives = 21/44 (47%), Gaps = 1/44 (2%)
Query: 121 KFVNLGIEPPKGVLLFGPPGTGKTLCARAVANRTDACFIRVIGS 164
V G P +L PGTGKT A+A+ N A + V GS
Sbjct: 35 SIVKKG-RIPNMLLHSPSPGTGKTTVAKALCNEVGAEVLFVNGS 77
>gnl|CDD|224142 COG1221, PspF, Transcriptional regulators containing an AAA-type
ATPase domain and a DNA-binding domain [Transcription /
Signal transduction mechanisms].
Length = 403
Score = 35.8 bits (83), Expect = 0.074
Identities = 19/57 (33%), Positives = 26/57 (45%), Gaps = 8/57 (14%)
Query: 109 QRTMLELINQPEKFVNLGIEPPKGVLLFGPPGTGKTLCARAV----ANRTDACFIRV 161
++ EL Q + + G VL+ G GTGK L AR + A R +A FI
Sbjct: 84 SPSLQELREQIKAYAPSG----LPVLIIGETGTGKELFARLIHALSARRAEAPFIAF 136
>gnl|CDD|234063 TIGR02928, TIGR02928, orc1/cdc6 family replication initiation
protein. Members of this protein family are found
exclusively in the archaea. This set of DNA binding
proteins shows homology to the origin recognition
complex subunit 1/cell division control protein 6 family
in eukaryotes. Several members may be found in genome
and interact with each other [DNA metabolism, DNA
replication, recombination, and repair].
Length = 365
Score = 35.7 bits (83), Expect = 0.077
Identities = 15/60 (25%), Positives = 22/60 (36%), Gaps = 15/60 (25%)
Query: 109 QRTMLELINQPEKFVN---------------LGIEPPKGVLLFGPPGTGKTLCARAVANR 153
R +LE P++ V+ L P V ++G GTGKT + V
Sbjct: 4 NRDLLEPDYVPDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKE 63
>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 = 35.6 bits (82), Expect = 0.098
Identities = 13/19 (68%), Positives = 13/19 (68%)
Query: 134 LLFGPPGTGKTLCARAVAN 152
L GPPGTGKT AR VA
Sbjct: 316 LFAGPPGTGKTTIARVVAK 334
>gnl|CDD|221983 pfam13207, AAA_17, AAA domain.
Length = 114
Score = 33.4 bits (76), Expect = 0.11
Identities = 10/27 (37%), Positives = 17/27 (62%)
Query: 133 VLLFGPPGTGKTLCARAVANRTDACFI 159
+L+ GPPG+GK+ A+ +A + I
Sbjct: 2 ILITGPPGSGKSTLAKKLAEKLGIPVI 28
>gnl|CDD|147949 pfam06068, TIP49, TIP49 C-terminus. This family consists of the
C-terminal region of several eukaryotic and archaeal
RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin
or TIP49b) proteins. The N-terminal domain contains the
pfam00004 domain. In zebrafish, the liebeskummer (lik)
mutation, causes development of hyperplastic embryonic
hearts. lik encodes Reptin, a component of a
DNA-stimulated ATPase complex. Beta-catenin and Pontin,
a DNA-stimulated ATPase that is often part of complexes
with Reptin, are in the same genetic pathways. The
Reptin/Pontin ratio serves to regulate heart growth
during development, at least in part via the
beta-catenin pathway. TBP-interacting protein 49 (TIP49)
was originally identified as a TBP-binding protein, and
two related proteins are encoded by individual genes,
tip49a and b. Although the function of this gene family
has not been elucidated, they are supposed to play a
critical role in nuclear events because they interact
with various kinds of nuclear factors and have DNA
helicase activities.TIP49a has been suggested to act as
an autoantigen in some patients with autoimmune
diseases.
Length = 395
Score = 35.0 bits (81), Expect = 0.14
Identities = 17/38 (44%), Positives = 23/38 (60%), Gaps = 2/38 (5%)
Query: 131 KGVLLFGPPGTGKTLCARAVANR--TDACFIRVIGSEL 166
+ VL+ GPPGTGKT A A++ D F + GSE+
Sbjct: 51 RAVLIAGPPGTGKTALAIAISKELGEDTPFCPISGSEV 88
>gnl|CDD|224768 COG1855, COG1855, ATPase (PilT family) [General function prediction
only].
Length = 604
Score = 35.0 bits (81), Expect = 0.16
Identities = 15/45 (33%), Positives = 23/45 (51%)
Query: 108 VQRTMLELINQPEKFVNLGIEPPKGVLLFGPPGTGKTLCARAVAN 152
V + LE +K E +G+L+ G PG GK+ A+A+A
Sbjct: 241 VVKLSLEDYGLSDKLKERLEERAEGILIAGAPGAGKSTFAQALAE 285
>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 = 34.7 bits (80), Expect = 0.17
Identities = 23/63 (36%), Positives = 33/63 (52%), Gaps = 2/63 (3%)
Query: 115 LINQPEKFVNLGIEPPKG-VLLFGPPGTGKTLCARAVANRTDACFIRVIGSELVQK-YVG 172
L + K + G+E K +LL GP G+GKTL A+ +A + F + L + YVG
Sbjct: 100 LNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILNVPFAIADATTLTEAGYVG 159
Query: 173 ERV 175
E V
Sbjct: 160 EDV 162
>gnl|CDD|234763 PRK00440, rfc, replication factor C small subunit; Reviewed.
Length = 319
Score = 34.5 bits (80), Expect = 0.19
Identities = 21/49 (42%), Positives = 26/49 (53%), Gaps = 10/49 (20%)
Query: 110 RTMLELINQPE------KFVNLGIEPPKGVLLF-GPPGTGKTLCARAVA 151
RT+ E++ Q E +V P LLF GPPGTGKT A A+A
Sbjct: 14 RTLDEIVGQEEIVERLKSYVKEKNMPH---LLFAGPPGTGKTTAALALA 59
>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 = 34.4 bits (79), Expect = 0.21
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 10/47 (21%)
Query: 130 PKGVLLFGPPGTGKTLCARAVANRT----------DACFIRVIGSEL 166
P+ ++L+GPPG GKT AR DA F+ V G+ L
Sbjct: 175 PQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTL 221
>gnl|CDD|223542 COG0466, Lon, ATP-dependent Lon protease, bacterial type
[Posttranslational modification, protein turnover,
chaperones].
Length = 782
Score = 34.5 bits (80), Expect = 0.21
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 134 LLFGPPGTGKTLCARAVANRTDACFIRV 161
L GPPG GKT +++A F+R+
Sbjct: 354 CLVGPPGVGKTSLGKSIAKALGRKFVRI 381
>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 = 31.8 bits (73), Expect = 0.28
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 133 VLLFGPPGTGKTLCARAVANR 153
+ L+GPPG GK+ A+ +A
Sbjct: 1 IWLYGPPGCGKSTLAKYLARA 21
>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 = 32.3 bits (74), Expect = 0.31
Identities = 13/24 (54%), Positives = 15/24 (62%)
Query: 132 GVLLFGPPGTGKTLCARAVANRTD 155
GVLL GPPGTGK+ A +A
Sbjct: 1 GVLLVGPPGTGKSELAERLAAALS 24
>gnl|CDD|223718 COG0645, COG0645, Predicted kinase [General function prediction
only].
Length = 170
Score = 32.8 bits (75), Expect = 0.35
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 130 PKGVLLFGPPGTGKTLCARAVANRTDACFIRV 161
+ VL+ G PG+GK+ AR +A A +R
Sbjct: 1 GRLVLVGGLPGSGKSTLARGLAELLGAIRLRS 32
>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 = 32.9 bits (76), Expect = 0.36
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 133 VLLFGPPGTGKTLCARA 149
+L+ GPPG+GKT+ A+
Sbjct: 25 LLMIGPPGSGKTMLAKR 41
>gnl|CDD|214396 CHL00206, ycf2, Ycf2; Provisional.
Length = 2281
Score = 33.7 bits (77), Expect = 0.39
Identities = 12/37 (32%), Positives = 21/37 (56%)
Query: 125 LGIEPPKGVLLFGPPGTGKTLCARAVANRTDACFIRV 161
L + P +G+L+ G GTG++ + +A + FI V
Sbjct: 1625 LALSPSRGILVIGSIGTGRSYLVKYLATNSYVPFITV 1661
>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 = 33.8 bits (78), Expect = 0.40
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 135 LFGPPGTGKTLCARAVANRTDACFIRV 161
L GPPG GKT +++A + F+R
Sbjct: 352 LVGPPGVGKTSLGKSIAKALNRKFVRF 378
>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 = 32.2 bits (73), Expect = 0.49
Identities = 12/33 (36%), Positives = 14/33 (42%)
Query: 129 PPKGVLLFGPPGTGKTLCARAVANRTDACFIRV 161
P VLL GP GTGKT R + +
Sbjct: 23 GPPSVLLTGPSGTGKTSLLRELLEGLLVAAGKC 55
>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 = 32.2 bits (74), Expect = 0.50
Identities = 13/24 (54%), Positives = 15/24 (62%), Gaps = 1/24 (4%)
Query: 130 PKGVLLF-GPPGTGKTLCARAVAN 152
P G LF GP G GKT A+A+A
Sbjct: 2 PIGSFLFLGPTGVGKTELAKALAE 25
>gnl|CDD|238260 cd00464, SK, Shikimate kinase (SK) is the fifth enzyme in the
shikimate pathway, a seven-step biosynthetic pathway
which converts erythrose-4-phosphate to chorismic acid,
found in bacteria, fungi and plants. Chorismic acid is a
important intermediate in the synthesis of aromatic
compounds, such as aromatic amino acids, p-aminobenzoic
acid, folate and ubiquinone. Shikimate kinase catalyses
the phosphorylation of the 3-hydroxyl group of shikimic
acid using ATP.
Length = 154
Score = 31.8 bits (73), Expect = 0.54
Identities = 16/69 (23%), Positives = 22/69 (31%), Gaps = 19/69 (27%)
Query: 135 LFGPPGTGKTLCARAVANRTDACFI-------RVIG---SELVQKYVGE--------RVL 176
L G G GKT R +A F+ + G E+ + GE VL
Sbjct: 4 LIGMMGAGKTTVGRLLAKALGLPFVDLDELIEQRAGMSIPEIFAEE-GEEGFRELEREVL 62
Query: 177 MEGCNNEGC 185
+ E
Sbjct: 63 LLLLTKENA 71
>gnl|CDD|235871 PRK06835, PRK06835, DNA replication protein DnaC; Validated.
Length = 329
Score = 32.6 bits (75), Expect = 0.60
Identities = 10/42 (23%), Positives = 22/42 (52%)
Query: 112 MLELINQPEKFVNLGIEPPKGVLLFGPPGTGKTLCARAVANR 153
M +++ + + F+ + + +L +G GTGKT + +A
Sbjct: 165 MEKILEKCKNFIENFDKNNENLLFYGNTGTGKTFLSNCIAKE 206
>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 = 32.8 bits (75), Expect = 0.68
Identities = 12/21 (57%), Positives = 16/21 (76%)
Query: 130 PKGVLLFGPPGTGKTLCARAV 150
P+ V+++GPPG GKT AR V
Sbjct: 86 PQHVIIYGPPGVGKTAAARLV 106
>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 = 31.4 bits (72), Expect = 0.84
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 124 NLGIEPPKGVLLFGPPGTGKTLCARAVA 151
+ I+P +L+ GP GTGK+ RA+A
Sbjct: 21 SFEIKPGDRLLITGPSGTGKSSLFRALA 48
>gnl|CDD|220189 pfam09342, DUF1986, Domain of unknown function (DUF1986). This
domain is found in serine proteases and is predicted to
contain disulphide bonds.
Length = 267
Score = 31.9 bits (72), Expect = 0.92
Identities = 25/109 (22%), Positives = 44/109 (40%), Gaps = 12/109 (11%)
Query: 204 EYPWVVALEQAGKFFCGGTLISDRYVLTAAHCVR-SSKRQKDLIVVISEHNRATVYETQI 262
+PW+ + G + C G LI +VL + C+ +S + VV+ H +
Sbjct: 15 HWPWIAKVYVEGNYRCTGVLIDLSWVLVSHSCLWDTSLEHSYISVVLGGHKTLKSVKGPY 74
Query: 263 ETRRVVKV-LTHPKYNAQGAKSHDHDIALLKLDTPLEFKPTVSPVCLPQ 310
E ++ +V ++ I+LL L +P F V P +P
Sbjct: 75 E--QIYRVDCRKDLPRSK--------ISLLHLKSPATFSNHVLPTFVPS 113
>gnl|CDD|215651 pfam00006, ATP-synt_ab, ATP synthase alpha/beta family,
nucleotide-binding domain. This family includes the ATP
synthase alpha and beta subunits, the ATP synthase
associated with flagella and the termination factor Rho.
Length = 213
Score = 31.7 bits (73), Expect = 1.0
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 6/42 (14%)
Query: 133 VLLFGPPGTGKTLCARAVANRTDACFIRVIGSELVQKYVGER 174
+ +FG GTGKT+ +A A + V +GER
Sbjct: 18 IGIFGGSGTGKTVLLGMIARNAKADVVEVYVL------IGER 53
>gnl|CDD|184311 PRK13764, PRK13764, ATPase; Provisional.
Length = 602
Score = 32.1 bits (74), Expect = 1.0
Identities = 17/45 (37%), Positives = 24/45 (53%)
Query: 108 VQRTMLELINQPEKFVNLGIEPPKGVLLFGPPGTGKTLCARAVAN 152
V + LE N EK E +G+L+ G PG GK+ A+A+A
Sbjct: 235 VVKLSLEDYNLSEKLKERLEERAEGILIAGAPGAGKSTFAQALAE 279
>gnl|CDD|226646 COG4178, COG4178, ABC-type uncharacterized transport system,
permease and ATPase components [General function
prediction only].
Length = 604
Score = 32.3 bits (74), Expect = 1.1
Identities = 13/43 (30%), Positives = 20/43 (46%), Gaps = 4/43 (9%)
Query: 113 LELINQPEKFV----NLGIEPPKGVLLFGPPGTGKTLCARAVA 151
L L + + N + P + +L+ G G GKT RA+A
Sbjct: 398 LSLRTPDGQTLLSELNFEVRPGERLLITGESGAGKTSLLRALA 440
>gnl|CDD|129465 TIGR00368, TIGR00368, Mg chelatase-related protein. The N-terminal
end matches very strongly a pfam Mg_chelatase domain
[Unknown function, General].
Length = 499
Score = 32.1 bits (73), Expect = 1.1
Identities = 11/16 (68%), Positives = 14/16 (87%)
Query: 133 VLLFGPPGTGKTLCAR 148
+LLFGPPG+GKT+ A
Sbjct: 214 LLLFGPPGSGKTMLAS 229
>gnl|CDD|110677 pfam01695, IstB_IS21, IstB-like ATP binding protein. This protein
contains an ATP/GTP binding P-loop motif. It is found
associated with IS21 family insertion sequences. The
function of this protein is unknown, but it may perform
a transposase function.
Length = 178
Score = 31.1 bits (71), Expect = 1.2
Identities = 17/48 (35%), Positives = 23/48 (47%), Gaps = 7/48 (14%)
Query: 127 IEPPKGVLLFGPPGTGKTLCA-----RAVANRTDACFIRVIGSELVQK 169
IE + +LL GPPG GKT A +A F R +LV++
Sbjct: 44 IEQAENLLLLGPPGVGKTHLACALGHQACRAGYSVLFTRT--PDLVEQ 89
>gnl|CDD|234519 TIGR04244, nitrous_NosZ_RR, nitrous-oxide reductase, TAT-dependent.
Members of this family are the nitrous-oxide reductase
structural protein, NosZ, with an N-terminal
twin-arginine translocation (TAT) signal sequence (see
TIGR01409). The TAT system replaces the Sec system for
export of proteins with bound cofactor.
Length = 627
Score = 32.0 bits (73), Expect = 1.3
Identities = 21/69 (30%), Positives = 28/69 (40%), Gaps = 13/69 (18%)
Query: 446 NEQPLQIHIPLPPKIDPTVTMMQVEEKPDVTYSDIGGCKEQIEKLRE-VVETPLLHL--- 501
N P H K+ PTVT++ V + D+ I R+ VV P L L
Sbjct: 321 NAAPDGKHFICNGKLSPTVTVIDVRKLDDLFDGKI--------DPRDAVVAEPELGLGPL 372
Query: 502 -DGFDPRGN 509
FD +GN
Sbjct: 373 HTAFDGKGN 381
>gnl|CDD|214810 smart00763, AAA_PrkA, PrkA AAA domain. This is a family of PrkA
bacterial and archaeal serine kinases approximately 630
residues long. This is the N-terminal AAA domain.
Length = 361
Score = 31.9 bits (73), Expect = 1.3
Identities = 22/83 (26%), Positives = 33/83 (39%), Gaps = 19/83 (22%)
Query: 87 ARMIDAIGGARFDDGAGGDNEVQR---------TMLELINQPEKFVN------LGIEPPK 131
R++D IG A +D + ++R M E I + FVN G+E K
Sbjct: 22 QRLLDMIGEAGTEDVIENNRGIKRYRFFDHDFFGMEEAIER---FVNYFKSAAQGLEERK 78
Query: 132 GVLLF-GPPGTGKTLCARAVANR 153
+L GP G GK+ +
Sbjct: 79 QILYLLGPVGGGKSSLVECLKRG 101
>gnl|CDD|234203 TIGR03420, DnaA_homol_Hda, DnaA regulatory inactivator Hda.
Members of this protein family are Hda (Homologous to
DnaA). These proteins are about half the length of DnaA
and homologous over length of Hda. In the model species
Escherichia coli, the initiation of DNA replication
requires DnaA bound to ATP rather than ADP; Hda helps
facilitate the conversion of DnaA-ATP to DnaA-ADP [DNA
metabolism, DNA replication, recombination, and repair].
Length = 226
Score = 31.0 bits (71), Expect = 1.5
Identities = 15/76 (19%), Positives = 26/76 (34%), Gaps = 13/76 (17%)
Query: 89 MIDAIGGARFDDGAGGDNEVQRTMLELINQPEKFVNLGIEPPKGVLLFGPPGTGKT---- 144
+ FD+ G N EL+ + + + L+G G+GK+
Sbjct: 5 DVGLPDDPTFDNFYAGGNA------ELLAALRQLAAGKGDRF--LYLWGESGSGKSHLLQ 56
Query: 145 -LCARAVANRTDACFI 159
CA A A ++
Sbjct: 57 AACAAAEERGKSAIYL 72
>gnl|CDD|224140 COG1219, ClpX, ATP-dependent protease Clp, ATPase subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 408
Score = 31.4 bits (72), Expect = 1.5
Identities = 18/44 (40%), Positives = 25/44 (56%), Gaps = 1/44 (2%)
Query: 133 VLLFGPPGTGKTLCARAVANRTDACFIRVIGSELVQK-YVGERV 175
+LL GP G+GKTL A+ +A + F + L + YVGE V
Sbjct: 100 ILLIGPTGSGKTLLAQTLAKILNVPFAIADATTLTEAGYVGEDV 143
>gnl|CDD|224985 COG2074, COG2074, 2-phosphoglycerate kinase [Carbohydrate transport
and metabolism].
Length = 299
Score = 31.6 bits (72), Expect = 1.5
Identities = 16/52 (30%), Positives = 26/52 (50%), Gaps = 8/52 (15%)
Query: 130 PKGVLLFGPPGTGKTLCARAVANRTDACFIR-VIGS----ELVQKYVGERVL 176
P +L+ G G GK+ A +A R IR VI + E+++K + +L
Sbjct: 89 PLIILIGGASGVGKSTIAGELARRLG---IRSVISTDSIREVLRKIISPELL 137
>gnl|CDD|235422 PRK05342, clpX, ATP-dependent protease ATP-binding subunit ClpX;
Provisional.
Length = 412
Score = 31.7 bits (73), Expect = 1.5
Identities = 19/44 (43%), Positives = 25/44 (56%), Gaps = 1/44 (2%)
Query: 133 VLLFGPPGTGKTLCARAVANRTDACFIRVIGSELVQ-KYVGERV 175
+LL GP G+GKTL A+ +A D F + L + YVGE V
Sbjct: 111 ILLIGPTGSGKTLLAQTLARILDVPFAIADATTLTEAGYVGEDV 154
>gnl|CDD|237090 PRK12402, PRK12402, replication factor C small subunit 2; Reviewed.
Length = 337
Score = 31.5 bits (72), Expect = 1.5
Identities = 18/59 (30%), Positives = 28/59 (47%), Gaps = 10/59 (16%)
Query: 96 ARFDDGAGGDNEVQRTMLELINQPEKFVNLGIEPPKGVLLFGPPGTGKTLCARAVANRT 154
A +D G D E++ + + V+ P +L+ GPPG+GKT RA+A
Sbjct: 12 ALLEDILGQD--------EVVERLSRAVDSPNLP--HLLVQGPPGSGKTAAVRALAREL 60
>gnl|CDD|233959 TIGR02639, ClpA, ATP-dependent Clp protease ATP-binding subunit
clpA. [Protein fate, Degradation of proteins, peptides,
and glycopeptides].
Length = 730
Score = 31.9 bits (73), Expect = 1.5
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 130 PKGVLLF-GPPGTGKTLCARAVANRTDACFIRVIGSELVQKY 170
P G LF GP G GKT A+ +A +R SE ++K+
Sbjct: 482 PVGSFLFVGPTGVGKTELAKQLAEELGVHLLRFDMSEYMEKH 523
>gnl|CDD|225114 COG2204, AtoC, Response regulator containing CheY-like receiver,
AAA-type ATPase, and DNA-binding domains [Signal
transduction mechanisms].
Length = 464
Score = 31.5 bits (72), Expect = 1.6
Identities = 21/67 (31%), Positives = 26/67 (38%), Gaps = 16/67 (23%)
Query: 112 MLELINQPEKFVNLGIEPPKGVLLFGPPGTGKTLCARAV---ANRTDACFIRV------- 161
M +L K VL+ G GTGK L ARA+ + R FI V
Sbjct: 150 MQQLRRLIAKVAPSDAS----VLITGESGTGKELVARAIHQASPRAKGPFIAVNCAAIPE 205
Query: 162 --IGSEL 166
+ SEL
Sbjct: 206 NLLESEL 212
>gnl|CDD|235082 PRK02888, PRK02888, nitrous-oxide reductase; Validated.
Length = 635
Score = 31.5 bits (72), Expect = 1.8
Identities = 22/70 (31%), Positives = 29/70 (41%), Gaps = 15/70 (21%)
Query: 446 NEQPLQIHIPLPPKIDPTVTMMQVEEKPDVTYSDIGGCKEQIEKLREVV--ETPL----L 499
N P + K+ PTVT++ V + D+ I K R+ V E L L
Sbjct: 327 NTSPDGKYFIANGKLSPTVTVIDVRKLDDLFDGKI--------KPRDAVVAEPELGLGPL 378
Query: 500 HLDGFDPRGN 509
H FD RGN
Sbjct: 379 H-TAFDGRGN 387
>gnl|CDD|224391 COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA
replication, recombination, and repair /
Posttranslational modification, protein turnover,
chaperones].
Length = 366
Score = 31.2 bits (71), Expect = 2.2
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 2/42 (4%)
Query: 114 ELINQPEKFVN--LGIEPPKGVLLFGPPGTGKTLCARAVANR 153
E INQ F+ L E P ++++GP GTGKT + V
Sbjct: 24 EEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEE 65
>gnl|CDD|216270 pfam01057, Parvo_NS1, Parvovirus non-structural protein NS1. This
family also contains the NS2 protein. Parvoviruses
encode two non-structural proteins, NS1 and NS2. The
mRNA for NS2 contains the coding sequence for the first
87 amino acids of NS1, then by an alternative splicing
mechanism mRNA from a different reading frame, encoding
the last 78 amino acids, makes up the full length of the
NS2 mRNA. NS1, is the major non-structural protein. It
is essential for DNA replication. It is an 83-kDa
nuclear phosphoprotein. It has DNA helicase and ATPase
activity.
Length = 271
Score = 30.8 bits (70), Expect = 2.2
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 133 VLLFGPPGTGKTLCARAVAN 152
V +GP TGKT A+A+A+
Sbjct: 116 VWFYGPASTGKTNLAQAIAH 135
>gnl|CDD|214888 smart00891, ERCC4, ERCC4 domain. This entry represents a
structural motif found in several DNA repair nucleases,
such as Rad1/Mus81/XPF endonucleases, and in
ATP-dependent helicases. The XPF/Rad1/Mus81-dependent
nuclease family specifically cleaves branched structures
generated during DNA repair, replication, and
recombination, and is essential for maintaining genome
stability. The nuclease domain architecture exhibits
remarkable similarity to those of restriction
endonucleases.
Length = 98
Score = 29.2 bits (66), Expect = 2.2
Identities = 16/62 (25%), Positives = 26/62 (41%), Gaps = 2/62 (3%)
Query: 579 EIRSVCTEAGMFAIRARRKVASEKDFLEAVN--KVARCTKIINADSENPKYIINVKQFAK 636
E+RS ++R +R V E D LEA + VAR + + + ++ K
Sbjct: 8 ELRSALEAPIPRSLRWKRGVKVEYDRLEAGDFVLVARDKQSLLPHVNSLNELVERKSLTD 67
Query: 637 FV 638
V
Sbjct: 68 LV 69
>gnl|CDD|219014 pfam06414, Zeta_toxin, Zeta toxin. This family consists of several
bacterial zeta toxin proteins. Zeta toxin is thought to
be part of a postregulational killing system in
bacteria. It relies on antitoxin/toxin systems that
secure stable inheritance of low and medium copy number
plasmids during cell division and kill cells that have
lost the plasmid.
Length = 191
Score = 30.3 bits (69), Expect = 2.5
Identities = 16/38 (42%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 130 PKGVLLFGPPGTGKTLCARAVANRTDAC-FIRVIGSEL 166
P VLL G PG GKT ARA+ +R+ EL
Sbjct: 12 PVAVLLGGQPGAGKTELARALLEELGGGNVVRIDPDEL 49
>gnl|CDD|224160 COG1239, ChlI, Mg-chelatase subunit ChlI [Coenzyme metabolism].
Length = 423
Score = 30.8 bits (70), Expect = 2.7
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 131 KGVLLFGPPGTGKTLCARAVA 151
G L+ G GT K+ ARA+A
Sbjct: 39 GGALIAGEKGTAKSTLARALA 59
>gnl|CDD|235364 PRK05201, hslU, ATP-dependent protease ATP-binding subunit HslU;
Provisional.
Length = 443
Score = 30.8 bits (71), Expect = 2.8
Identities = 16/32 (50%), Positives = 21/32 (65%)
Query: 130 PKGVLLFGPPGTGKTLCARAVANRTDACFIRV 161
PK +L+ GP G GKT AR +A +A FI+V
Sbjct: 50 PKNILMIGPTGVGKTEIARRLAKLANAPFIKV 81
>gnl|CDD|221912 pfam13086, AAA_11, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily. Many of the proteins in this family are
conjugative transfer proteins.
Length = 220
Score = 30.0 bits (68), Expect = 3.0
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 123 VNLGIEPPKGVLLFGPPGTGKT 144
+ + L+ GPPGTGKT
Sbjct: 10 IKKALSSSDITLIQGPPGTGKT 31
>gnl|CDD|168630 PRK06620, PRK06620, hypothetical protein; Validated.
Length = 214
Score = 30.2 bits (68), Expect = 3.1
Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 3/50 (6%)
Query: 124 NLGIEPPKGVLLF-GPPGTGKTLCARAVANRTDACFIRVI--GSELVQKY 170
G+ P K LL GP +GKT + N ++A I+ I E+++KY
Sbjct: 37 GFGVNPYKFTLLIKGPSSSGKTYLTKIWQNLSNAYIIKDIFFNEEILEKY 86
>gnl|CDD|237495 PRK13765, PRK13765, ATP-dependent protease Lon; Provisional.
Length = 637
Score = 30.7 bits (70), Expect = 3.3
Identities = 10/19 (52%), Positives = 16/19 (84%)
Query: 133 VLLFGPPGTGKTLCARAVA 151
V++ G PGTGK++ A+A+A
Sbjct: 53 VMMIGSPGTGKSMLAKAMA 71
>gnl|CDD|226412 COG3896, COG3896, Chloramphenicol 3-O-phosphotransferase [Defense
mechanisms].
Length = 205
Score = 29.9 bits (67), Expect = 3.4
Identities = 9/36 (25%), Positives = 16/36 (44%)
Query: 126 GIEPPKGVLLFGPPGTGKTLCARAVANRTDACFIRV 161
G+ + VLL G GK+ A A + ++ +
Sbjct: 19 GMPEGRIVLLNGGSSAGKSSIALAFQDLAAEPWMHI 54
>gnl|CDD|238005 cd00046, DEXDc, DEAD-like helicases superfamily. A diverse family
of proteins involved in ATP-dependent RNA or DNA
unwinding. This domain contains the ATP-binding region.
Length = 144
Score = 29.2 bits (66), Expect = 3.5
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 131 KGVLLFGPPGTGKTLCA 147
+ VLL P G+GKTL A
Sbjct: 1 RDVLLAAPTGSGKTLAA 17
>gnl|CDD|223616 COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ
chaperones [Posttranslational modification, protein
turnover, chaperones].
Length = 786
Score = 30.7 bits (70), Expect = 3.5
Identities = 18/45 (40%), Positives = 25/45 (55%), Gaps = 4/45 (8%)
Query: 130 PKGVLLF-GPPGTGKTLCARAVA---NRTDACFIRVIGSELVQKY 170
P G LF GP G GKT A+A+A + IR+ SE ++K+
Sbjct: 520 PIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYMEKH 564
>gnl|CDD|233847 TIGR02397, dnaX_nterm, DNA polymerase III, subunit gamma and tau.
This model represents the well-conserved first ~ 365
amino acids of the translation of the dnaX gene. The
full-length product of the dnaX gene in the model
bacterium E. coli is the DNA polymerase III tau subunit.
A translational frameshift leads to early termination
and a truncated protein subunit gamma, about 1/3 shorter
than tau and present in roughly equal amounts. This
frameshift mechanism is not necessarily universal for
species with DNA polymerase III but appears conserved in
the exterme thermophile Thermus thermophilis [DNA
metabolism, DNA replication, recombination, and repair].
Length = 355
Score = 30.2 bits (69), Expect = 3.5
Identities = 11/18 (61%), Positives = 11/18 (61%)
Query: 134 LLFGPPGTGKTLCARAVA 151
L GP GTGKT AR A
Sbjct: 40 LFSGPRGTGKTSIARIFA 57
>gnl|CDD|214692 smart00487, DEXDc, DEAD-like helicases superfamily.
Length = 201
Score = 29.8 bits (67), Expect = 3.6
Identities = 9/17 (52%), Positives = 12/17 (70%)
Query: 131 KGVLLFGPPGTGKTLCA 147
+ V+L P G+GKTL A
Sbjct: 25 RDVILAAPTGSGKTLAA 41
>gnl|CDD|238713 cd01428, ADK, Adenylate kinase (ADK) catalyzes the reversible
phosphoryl transfer from adenosine triphosphates (ATP)
to adenosine monophosphates (AMP) and to yield adenosine
diphosphates (ADP). This enzyme is required for the
biosynthesis of ADP and is essential for homeostasis of
adenosine phosphates.
Length = 194
Score = 29.9 bits (68), Expect = 3.6
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 133 VLLFGPPGTGKTLCARAVANR 153
+LL GPPG+GK A +A +
Sbjct: 2 ILLLGPPGSGKGTQAERLAKK 22
>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 = 29.9 bits (68), Expect = 3.7
Identities = 14/38 (36%), Positives = 24/38 (63%), Gaps = 1/38 (2%)
Query: 127 IEPPKGVLLFGPPGTGKTLCARAVANRTDACFIRVIGS 164
++P + VL+ G PG+G + +A+ANRT+ + V G
Sbjct: 30 VKPGEMVLVLGRPGSGCSTLLKALANRTEG-NVSVEGD 66
>gnl|CDD|215599 PLN03140, PLN03140, ABC transporter G family member; Provisional.
Length = 1470
Score = 30.6 bits (69), Expect = 3.9
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 127 IEPPKGVLLFGPPGTGKTLCARAVANRTD 155
I+P + LL GPP +GKT A+A + D
Sbjct: 188 IKPSRMTLLLGPPSSGKTTLLLALAGKLD 216
>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 = 3.9
Identities = 16/35 (45%), Positives = 20/35 (57%)
Query: 131 KGVLLFGPPGTGKTLCARAVANRTDACFIRVIGSE 165
K +LL G PG GKT A+A +T IR+ SE
Sbjct: 1544 KPILLEGSPGVGKTSLITALARKTGKKLIRINLSE 1578
>gnl|CDD|223679 COG0606, COG0606, Predicted ATPase with chaperone activity
[Posttranslational modification, protein turnover,
chaperones].
Length = 490
Score = 30.3 bits (69), Expect = 3.9
Identities = 11/18 (61%), Positives = 13/18 (72%)
Query: 131 KGVLLFGPPGTGKTLCAR 148
+LL GPPGTGKT+ A
Sbjct: 199 HNLLLVGPPGTGKTMLAS 216
>gnl|CDD|233120 TIGR00764, lon_rel, lon-related putative ATP-dependent protease.
This model represents a set of proteins with extensive
C-terminal homology to the ATP-dependent protease La,
product of the lon gene of E. coli. The model is based
on a seed alignment containing only archaeal members,
but several bacterial proteins match the model well.
Because several species, including Thermotoga maritima
and Treponema pallidum, contain both a close homolog of
the lon protease and nearly full-length homolog of the
members of this family, we suggest there may also be a
functional division between the two families. Members of
this family from Pyrococcus horikoshii and Pyrococcus
abyssi each contain a predicted intein [Protein fate,
Degradation of proteins, peptides, and glycopeptides].
Length = 608
Score = 30.2 bits (68), Expect = 4.0
Identities = 15/45 (33%), Positives = 27/45 (60%), Gaps = 2/45 (4%)
Query: 109 QRTMLELINQPE--KFVNLGIEPPKGVLLFGPPGTGKTLCARAVA 151
+R + ++I Q E + + + + VLL G PG GK++ A+A+A
Sbjct: 14 ERLIDQVIGQEEAVEIIKKAAKQKRNVLLIGEPGVGKSMLAKAMA 58
>gnl|CDD|224616 COG1702, PhoH, Phosphate starvation-inducible protein PhoH,
predicted ATPase [Signal transduction mechanisms].
Length = 348
Score = 30.3 bits (69), Expect = 4.0
Identities = 25/107 (23%), Positives = 36/107 (33%), Gaps = 12/107 (11%)
Query: 46 RVIGSELVQKYVGEGAVANRTDACFIRVIGSELVQKYVGEGARM-IDAIGGARFDDGAGG 104
RV+ + + V G + + G+E +Q+ + + G D
Sbjct: 69 RVLLTLELLAEVRRGIASIYLEDVLSAFRGAESLQQLEESVEELDTHFLRGRTRDKSIIP 128
Query: 105 DNEVQRTMLELINQPEKFVNLGIEPPKGVLLFGPPGTGKTLCARAVA 151
Q E I E + GI GP GTGKT A A A
Sbjct: 129 KTPGQNMYPEAIE--EHDIVFGI---------GPAGTGKTYLAVAKA 164
>gnl|CDD|223637 COG0563, Adk, Adenylate kinase and related kinases [Nucleotide
transport and metabolism].
Length = 178
Score = 29.6 bits (67), Expect = 4.2
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 131 KGVLLFGPPGTGKTLCARAVANR 153
+L+ GPPG GK+ A+ +A +
Sbjct: 1 MRILILGPPGAGKSTLAKKLAKK 23
>gnl|CDD|151411 pfam10964, DUF2766, Protein of unknown function (DUF2766). This
family of proteins with unknown function appears to be
restricted to Enterobacteriaceae.
Length = 79
Score = 28.1 bits (62), Expect = 4.2
Identities = 17/70 (24%), Positives = 33/70 (47%), Gaps = 4/70 (5%)
Query: 615 TKIINADSENPKYIINVKQFAKFVVDLADSVAPTDIEEGMRVGVDRNKYQIHIPLPPKID 674
+K +N D E ++ + K ++D+ D +AP ++ + M + + H P D
Sbjct: 2 SKPLNEDQELVSDLVACQLVIKQILDVIDVIAPAEVRDKMSSQLKNIDFGTH---PAAAD 58
Query: 675 PTVTMMQVEE 684
P VT +E+
Sbjct: 59 P-VTRRAIEK 67
>gnl|CDD|206697 cd04116, Rab9, Rab GTPase family 9 (Rab9). Rab9 is found in late
endosomes, together with mannose 6-phosphate receptors
(MPRs) and the tail-interacting protein of 47 kD
(TIP47). Rab9 is a key mediator of vesicular transport
from late endosomes to the trans-Golgi network (TGN) by
redirecting the MPRs. Rab9 has been identified as a key
component for the replication of several viruses,
including HIV1, Ebola, Marburg, and measles, making it a
potential target for inhibiting a variety of viruses.
GTPase activating proteins (GAPs) interact with
GTP-bound Rab and accelerate the hydrolysis of GTP to
GDP. Guanine nucleotide exchange factors (GEFs) interact
with GDP-bound Rabs to promote the formation of the
GTP-bound state. Rabs are further regulated by guanine
nucleotide dissociation inhibitors (GDIs), which
facilitate Rab recycling by masking C-terminal lipid
binding and promoting cytosolic localization. Most Rab
GTPases contain a lipid modification site at the
C-terminus, with sequence motifs CC, CXC, or CCX. Lipid
binding is essential for membrane attachment, a key
feature of most Rab proteins. Due to the presence of
truncated sequences in this CD, the lipid modification
site is not available for annotation.
Length = 170
Score = 29.5 bits (66), Expect = 4.3
Identities = 17/50 (34%), Positives = 24/50 (48%), Gaps = 4/50 (8%)
Query: 133 VLLFGPPGTGKT-LCARAVANRTDACFIRVIGSELVQKYV---GERVLME 178
V+L G G GK+ L R V N+ D IG E + K + G V ++
Sbjct: 8 VILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQ 57
>gnl|CDD|224787 COG1875, COG1875, NYN ribonuclease and ATPase of PhoH family
domains [General function prediction only].
Length = 436
Score = 30.0 bits (68), Expect = 4.6
Identities = 26/112 (23%), Positives = 44/112 (39%), Gaps = 18/112 (16%)
Query: 48 IGSELVQKYVGEGAVA---NRTDACFI--RVIGSEL--VQKYVGEGARMIDAIGGARFDD 100
+ SE ++ +G ++ C+ R++GS + + G ++ +
Sbjct: 165 VASEDIESLYDQGEISTNDKLDLPCYPGFRLLGSSSSALGRVNPNGKVILLLKHEDQEVW 224
Query: 101 GAGGDNEVQRTMLELINQPE-KFVNLGIEPPKGVLLFGPPGTGKTLCARAVA 151
G N QR L+L+ + V+LG G GTGKTL A A
Sbjct: 225 GIRPRNAEQRVALDLLLDDDIDLVSLG----------GKAGTGKTLLALAAG 266
>gnl|CDD|183088 PRK11331, PRK11331, 5-methylcytosine-specific restriction enzyme
subunit McrB; Provisional.
Length = 459
Score = 30.1 bits (67), Expect = 4.6
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 131 KGVLLFGPPGTGKTLCARAVA 151
K ++L GPPG GKT AR +A
Sbjct: 195 KNIILQGPPGVGKTFVARRLA 215
>gnl|CDD|131688 TIGR02640, gas_vesic_GvpN, gas vesicle protein GvpN. Members of
this family are the GvpN protein associated with the
production of gas vesicles produced in some prokaryotes
to give cells buoyancy. This family belongs to a larger
family of ATPases (pfam07728) [Cellular processes,
Other].
Length = 262
Score = 29.8 bits (67), Expect = 4.8
Identities = 19/46 (41%), Positives = 23/46 (50%), Gaps = 6/46 (13%)
Query: 133 VLLFGPPGTGKTLCARAVANRTDACFIRVIG------SELVQKYVG 172
V L GP GTGKT A VA + D + + G S+LV Y G
Sbjct: 24 VHLRGPAGTGKTTLAMHVARKRDRPVMLINGDAELTTSDLVGSYAG 69
>gnl|CDD|213179 cd00267, ABC_ATPase, ATP-binding cassette transporter
nucleotide-binding domain. 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 = 157
Score = 29.1 bits (66), Expect = 5.3
Identities = 12/30 (40%), Positives = 19/30 (63%)
Query: 123 VNLGIEPPKGVLLFGPPGTGKTLCARAVAN 152
V+L ++ + V L GP G+GK+ RA+A
Sbjct: 18 VSLTLKAGEIVALVGPNGSGKSTLLRAIAG 47
>gnl|CDD|183133 PRK11432, fbpC, ferric transporter ATP-binding subunit;
Provisional.
Length = 351
Score = 29.7 bits (67), Expect = 5.4
Identities = 14/30 (46%), Positives = 16/30 (53%), Gaps = 2/30 (6%)
Query: 124 NLGIEPPKG--VLLFGPPGTGKTLCARAVA 151
NL + +G V L GP G GKT R VA
Sbjct: 24 NLNLTIKQGTMVTLLGPSGCGKTTVLRLVA 53
>gnl|CDD|238899 cd01918, HprK_C, HprK/P, the bifunctional histidine-containing
protein kinase/phosphatase, controls the phosphorylation
state of the phosphocarrier protein HPr and regulates
the utilization of carbon sources by gram-positive
bacteria. It catalyzes both the ATP-dependent
phosphorylation of Ser-46 of HPr and its
dephosphorylation by phosphorolysis. The latter reaction
uses inorganic phosphate as substrate and produces
pyrophosphate. Phosphoenolpyruvate carboxykinase (PEPCK)
and the C-terminal catalytic domain of HprK/P are
structurally similar with conserved active site residues
suggesting these two phosphotransferases have related
functions. The HprK/P N-terminal domain is structurally
similar to the N-terminal domains of the MurE and MurF
amino acid ligases.
Length = 149
Score = 28.7 bits (65), Expect = 5.6
Identities = 16/45 (35%), Positives = 21/45 (46%), Gaps = 10/45 (22%)
Query: 131 KGVLLFGPPGTGKTLCA--------RAVANRTDACFIRVIGSELV 167
GVL+ GP G GK+ A R VA+ D ++ G LV
Sbjct: 15 IGVLITGPSGIGKSELALELIKRGHRLVAD--DRVVVKREGGRLV 57
>gnl|CDD|222194 pfam13521, AAA_28, AAA domain.
Length = 162
Score = 29.1 bits (66), Expect = 5.6
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 133 VLLFGPPGTGKTLCARAVANR 153
+++ G P TGKT A+A R
Sbjct: 2 IVITGGPSTGKTTLLEALAAR 22
>gnl|CDD|169652 PRK09087, PRK09087, hypothetical protein; Validated.
Length = 226
Score = 29.3 bits (66), Expect = 5.8
Identities = 18/48 (37%), Positives = 24/48 (50%), Gaps = 2/48 (4%)
Query: 133 VLLFGPPGTGKTLCARAVANRTDACFI--RVIGSELVQKYVGERVLME 178
V+L GP G+GKT A ++DA I IGS+ VL+E
Sbjct: 47 VVLAGPVGSGKTHLASIWREKSDALLIHPNEIGSDAANAAAEGPVLIE 94
>gnl|CDD|190347 pfam02562, PhoH, PhoH-like protein. PhoH is a cytoplasmic protein
and predicted ATPase that is induced by phosphate
starvation.
Length = 205
Score = 29.4 bits (67), Expect = 5.8
Identities = 11/19 (57%), Positives = 11/19 (57%)
Query: 133 VLLFGPPGTGKTLCARAVA 151
V GP GTGKT A A A
Sbjct: 22 VFGIGPAGTGKTYLAVAAA 40
>gnl|CDD|238979 cd02021, GntK, Gluconate kinase (GntK) catalyzes the phosphoryl
transfer from ATP to gluconate. The resulting product
gluconate-6-phoshate is an important precursor of
gluconate metabolism. GntK acts as a dimmer composed of
two identical subunits.
Length = 150
Score = 28.8 bits (65), Expect = 6.2
Identities = 10/28 (35%), Positives = 17/28 (60%)
Query: 133 VLLFGPPGTGKTLCARAVANRTDACFIR 160
+++ G G+GK+ +A+A R A FI
Sbjct: 2 IVVMGVSGSGKSTVGKALAERLGAPFID 29
>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 = 28.7 bits (65), Expect = 6.2
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 123 VNLGIEPPKGVLLFGPPGTGKTLCARAVA 151
V+ IEP + + + GP G+GK+ AR +
Sbjct: 21 VSFSIEPGESLAIIGPSGSGKSTLARLIL 49
>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 = 29.2 bits (66), Expect = 6.4
Identities = 12/47 (25%), Positives = 20/47 (42%), Gaps = 2/47 (4%)
Query: 116 INQPEKFVNLGIEPPKGVLLFGPPGTGKTLCARAVANRTDACFIRVI 162
+ + E++ G P ++++GP GKT R RVI
Sbjct: 8 LKELEEWAERGTYPI--IVVYGPRRCGKTALLREFLEELRELGYRVI 52
>gnl|CDD|226350 COG3829, RocR, Transcriptional regulator containing PAS, AAA-type
ATPase, and DNA-binding domains [Transcription / Signal
transduction mechanisms].
Length = 560
Score = 29.6 bits (67), Expect = 6.5
Identities = 31/119 (26%), Positives = 49/119 (41%), Gaps = 14/119 (11%)
Query: 53 VQKYVGEGAVANRT----DACFIRVIG-SELVQKYVGEGARMIDAIGGARFDDGAGGDNE 107
VQ Y G + N D I V+G S+ V + + ++ G R D+
Sbjct: 188 VQTYNGNKIIVNVAPVYADGQLIGVVGISKDVSELERLTRELEESEGLLRLKAKYTFDDI 247
Query: 108 VQRT--MLELINQPEKFVNLGIEPPKGVLLFGPPGTGKTLCARAVAN---RTDACFIRV 161
+ + ML ++ + + VL+ G GTGK L ARA+ N R + FI +
Sbjct: 248 IGESPAMLRVL----ELAKRIAKTDSTVLILGESGTGKELFARAIHNLSPRANGPFIAI 302
>gnl|CDD|182791 PRK10865, PRK10865, protein disaggregation chaperone; Provisional.
Length = 857
Score = 29.8 bits (67), Expect = 6.7
Identities = 19/51 (37%), Positives = 29/51 (56%), Gaps = 4/51 (7%)
Query: 130 PKGVLLF-GPPGTGKTLCARAVAN---RTDACFIRVIGSELVQKYVGERVL 176
P G LF GP G GKT +A+AN +D +R+ SE ++K+ R++
Sbjct: 597 PIGSFLFLGPTGVGKTELCKALANFMFDSDDAMVRIDMSEFMEKHSVSRLV 647
>gnl|CDD|215261 PLN02470, PLN02470, acetolactate synthase.
Length = 585
Score = 29.7 bits (67), Expect = 7.0
Identities = 21/70 (30%), Positives = 34/70 (48%), Gaps = 10/70 (14%)
Query: 647 PTDIEEGMRV-----GVDRNKYQIHIPLPPK---IDPTVTMMQVEEKPDVTYSDIGGCKE 698
P DI++ + V + Y +P PP+ ++ V ++ ++P V Y GGC
Sbjct: 171 PKDIQQQLAVPNWNQPMKLPGYLSRLPKPPEKSQLEQIVRLISESKRP-VVYVG-GGCLN 228
Query: 699 QIEKLREVVE 708
E+LRE VE
Sbjct: 229 SSEELREFVE 238
>gnl|CDD|132027 TIGR02982, heterocyst_DevA, ABC exporter ATP-binding subunit, DevA
family. Members of this protein family are found mostly
in the Cyanobacteria, but also in the Planctomycetes.
Cyanobacterial examples are involved in heterocyst
formation, by which some fraction of members of the
colony undergo a developmental change and become capable
of nitrogen fixation. The DevBCA proteins are thought
export of either heterocyst-specific glycolipids or an
enzyme essential for formation of the laminated layer
found in heterocysts.
Length = 220
Score = 28.8 bits (65), Expect = 7.3
Identities = 12/22 (54%), Positives = 16/22 (72%)
Query: 123 VNLGIEPPKGVLLFGPPGTGKT 144
+NL I P + V+L GP G+GKT
Sbjct: 24 INLEINPGEIVILTGPSGSGKT 45
>gnl|CDD|213965 TIGR04352, HprK_rel_A, HprK-related kinase A. A number of protein
families resemble HPr kinase (see TIGR00679) but do not
belong to that system. They include this family, which
appears instead to be the marker for a different type of
gene neighborhood, in which one of the conserved
neighboring proteins resembles (but is distinct from)
PqqD.
Length = 280
Score = 29.2 bits (66), Expect = 7.5
Identities = 10/18 (55%), Positives = 14/18 (77%), Gaps = 1/18 (5%)
Query: 131 KGVLLFGPPGTGK-TLCA 147
+ ++L PPG+GK TLCA
Sbjct: 109 RALILPAPPGSGKSTLCA 126
>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 = 7.7
Identities = 14/50 (28%), Positives = 20/50 (40%), Gaps = 11/50 (22%)
Query: 109 QRTMLELINQPEKFVNLGIEPP----KGVL-------LFGPPGTGKTLCA 147
EL+ + ++ P KG+L L G PGTGK+ A
Sbjct: 1 AAEPSELLPSSAEDLDAPPPPLRWLVKGLLPRGGLTLLAGAPGTGKSTLA 50
>gnl|CDD|233584 TIGR01817, nifA, Nif-specific regulatory protein. This model
represents NifA, a DNA-binding regulatory protein for
nitrogen fixation. The model produces scores between the
trusted and noise cutoffs for a well-described NifA
homolog in Aquifex aeolicus (which lacks nitrogenase),
for transcriptional activators of alternative
nitrogenases (VFe or FeFe instead of MoFe), and
truncated forms [Central intermediary metabolism,
Nitrogen fixation, Regulatory functions, DNA
interactions].
Length = 534
Score = 29.3 bits (66), Expect = 7.7
Identities = 18/67 (26%), Positives = 30/67 (44%), Gaps = 10/67 (14%)
Query: 98 FDDGAGGDNEVQRTMLELINQPEKFVNLGIEPPKGVLLFGPPGTGKTLCARAV---ANRT 154
+DG G + R +++ + + VLL G GTGK L A+A+ + R
Sbjct: 194 KEDGIIGKSPAMRQVVDQARVVARSNST-------VLLRGESGTGKELIAKAIHYLSPRA 246
Query: 155 DACFIRV 161
F++V
Sbjct: 247 KRPFVKV 253
>gnl|CDD|239732 cd03763, proteasome_beta_type_7, proteasome beta type-7 subunit.
The 20S proteasome, multisubunit proteolytic complex, is
the central enzyme of nonlysosomal protein degradation
in both the cytosol and nucleus. It is composed of 28
subunits arranged as four homoheptameric rings that
stack on top of one another forming an elongated
alpha-beta-beta-alpha cylinder with a central cavity.
The proteasome alpha and beta subunits are members of
the N-terminal nucleophile (Ntn)-hydrolase superfamily.
Their N-terminal threonine residues are exposed as a
nucleophile in peptide bond hydrolysis. Mammals have 7
alpha and 7 beta proteasome subunits while archaea have
one of each.
Length = 189
Score = 28.7 bits (65), Expect = 8.2
Identities = 9/36 (25%), Positives = 20/36 (55%), Gaps = 4/36 (11%)
Query: 334 IASDLRATQVPVMSNQECRQFPGFEAKLTGNMMCAG 369
+ +D RAT+ P+++++ C + + N+ C G
Sbjct: 14 LGADTRATEGPIVADKNCEKI----HYIAPNIYCCG 45
>gnl|CDD|222000 pfam13238, AAA_18, AAA domain.
Length = 128
Score = 28.2 bits (63), Expect = 8.2
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 133 VLLFGPPGTGKTLCARAVANRT 154
+L+ G PG+GKT A+ +A R
Sbjct: 1 ILITGTPGSGKTTLAKELAERL 22
>gnl|CDD|234172 TIGR03345, VI_ClpV1, type VI secretion ATPase, ClpV1 family.
Members of this protein family are homologs of ClpB, an
ATPase associated with chaperone-related functions.
These ClpB homologs, designated ClpV1, are a key
component of the bacterial pathogenicity-associated type
VI secretion system [Protein fate, Protein and peptide
secretion and trafficking, Cellular processes,
Pathogenesis].
Length = 852
Score = 29.5 bits (67), Expect = 8.3
Identities = 14/23 (60%), Positives = 15/23 (65%), Gaps = 1/23 (4%)
Query: 130 PKGV-LLFGPPGTGKTLCARAVA 151
P GV LL GP G GKT A A+A
Sbjct: 595 PLGVFLLVGPSGVGKTETALALA 617
>gnl|CDD|130041 TIGR00968, 3a0106s01, sulfate ABC transporter, ATP-binding protein.
[Transport and binding proteins, Anions].
Length = 237
Score = 29.0 bits (65), Expect = 8.7
Identities = 17/54 (31%), Positives = 28/54 (51%), Gaps = 2/54 (3%)
Query: 123 VNLGIEPPKGVLLFGPPGTGKTLCARAVA--NRTDACFIRVIGSELVQKYVGER 174
VNL + V L GP G+GK+ R +A + D+ IR+ G + + + +R
Sbjct: 19 VNLEVPTGSLVALLGPSGSGKSTLLRIIAGLEQPDSGRIRLNGQDATRVHARDR 72
>gnl|CDD|182120 PRK09862, PRK09862, putative ATP-dependent protease; Provisional.
Length = 506
Score = 29.2 bits (65), Expect = 8.9
Identities = 11/15 (73%), Positives = 13/15 (86%)
Query: 133 VLLFGPPGTGKTLCA 147
+LL GPPGTGKT+ A
Sbjct: 213 LLLIGPPGTGKTMLA 227
>gnl|CDD|224047 COG1122, CbiO, ABC-type cobalt transport system, ATPase component
[Inorganic ion transport and metabolism].
Length = 235
Score = 28.8 bits (65), Expect = 9.0
Identities = 12/22 (54%), Positives = 16/22 (72%)
Query: 123 VNLGIEPPKGVLLFGPPGTGKT 144
V+L IE + VLL GP G+GK+
Sbjct: 23 VSLEIEKGERVLLIGPNGSGKS 44
>gnl|CDD|136670 PRK08181, PRK08181, transposase; Validated.
Length = 269
Score = 28.7 bits (64), Expect = 9.0
Identities = 18/42 (42%), Positives = 23/42 (54%), Gaps = 7/42 (16%)
Query: 133 VLLFGPPGTGKTLCARA-----VANRTDACFIRVIGSELVQK 169
+LLFGPPG GK+ A A + N F R ++LVQK
Sbjct: 109 LLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRT--TDLVQK 148
>gnl|CDD|222163 pfam13479, AAA_24, AAA domain. This AAA domain is found in a wide
variety of presumed phage proteins.
Length = 201
Score = 28.4 bits (64), Expect = 9.2
Identities = 10/18 (55%), Positives = 12/18 (66%), Gaps = 1/18 (5%)
Query: 133 VLLFGPPGTGKT-LCARA 149
VL++GPPG GKT L
Sbjct: 6 VLIYGPPGIGKTSLAKTL 23
>gnl|CDD|233208 TIGR00956, 3a01205, Pleiotropic Drug Resistance (PDR) Family
protein. [Transport and binding proteins, Other].
Length = 1394
Score = 29.3 bits (66), Expect = 9.2
Identities = 9/29 (31%), Positives = 18/29 (62%)
Query: 127 IEPPKGVLLFGPPGTGKTLCARAVANRTD 155
I+P + ++ G PG+G + + +A+ TD
Sbjct: 84 IKPGELTVVLGRPGSGCSTLLKTIASNTD 112
>gnl|CDD|181681 PRK09183, PRK09183, transposase/IS protein; Provisional.
Length = 259
Score = 28.9 bits (65), Expect = 9.3
Identities = 13/35 (37%), Positives = 18/35 (51%)
Query: 127 IEPPKGVLLFGPPGTGKTLCARAVANRTDACFIRV 161
IE + ++L GP G GKT A A+ I+V
Sbjct: 99 IERNENIVLLGPSGVGKTHLAIALGYEAVRAGIKV 133
>gnl|CDD|225804 COG3265, GntK, Gluconate kinase [Carbohydrate transport and
metabolism].
Length = 161
Score = 28.4 bits (64), Expect = 9.3
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 137 GPPGTGKTLCARAVANRTDACFI 159
G G+GK+ A+A R A FI
Sbjct: 2 GVSGSGKSTVGSALAERLGAKFI 24
>gnl|CDD|224847 COG1936, COG1936, Predicted nucleotide kinase (related to CMP and
AMP kinases) [Nucleotide transport and metabolism].
Length = 180
Score = 28.4 bits (64), Expect = 10.0
Identities = 8/38 (21%), Positives = 16/38 (42%), Gaps = 3/38 (7%)
Query: 133 VLLFGPPGTGKTLCARAVANRTDACFIRVIGSELVQKY 170
+ + G PG GKT + + + +EL ++
Sbjct: 3 IAITGTPGVGKTTVCKLLRELGYKV---IELNELAKEN 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
0.319 0.137 0.402
Gapped
Lambda K H
0.267 0.0710 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 36,538,255
Number of extensions: 3671771
Number of successful extensions: 3703
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3665
Number of HSP's successfully gapped: 229
Length of query: 713
Length of database: 10,937,602
Length adjustment: 104
Effective length of query: 609
Effective length of database: 6,324,786
Effective search space: 3851794674
Effective search space used: 3851794674
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: 63 (28.1 bits)