RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11009
(863 letters)
>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational
modification, protein turnover, chaperones].
Length = 494
Score = 181 bits (462), Expect = 2e-49
Identities = 88/180 (48%), Positives = 116/180 (64%), Gaps = 11/180 (6%)
Query: 689 NDLVEMLE-----RDMVQKNPNIRWDDIAELTDAKRLLEEAVVLPMWMPEFFKGI-RRPW 742
+D E L+ R ++ ++ ++ DDI L +AK L+EA+ P+ PE F+ + RP
Sbjct: 217 DDFEEALKKVLPSRGVLFEDEDVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPP 276
Query: 743 KGVLMVGPPGTGKTMLAKAVATECGTTFFNVCSSTLTSKYRGESEKLVRLLFEMARFYAP 802
KGVL+ GPPGTGKT+LAKAVA E + F +V S L SK+ GESEK +R LFE AR AP
Sbjct: 277 KGVLLYGPPGTGKTLLAKAVALESRSRFISVKGSELLSKWVGESEKNIRELFEKARKLAP 336
Query: 803 STIFIDEIDSLCSRRGSESEHEASRRVKSELLVQMDGLSSAEDSSKVVMVLAATNFPWEG 862
S IFIDEIDSL S RG SE + RRV +LL ++DG+ AE V+V+AATN P +
Sbjct: 337 SIIFIDEIDSLASGRGP-SEDGSGRRVVGQLLTELDGIEKAEG----VLVIAATNRPDDL 391
Score = 93.7 bits (233), Expect = 7e-20
Identities = 41/122 (33%), Positives = 62/122 (50%), Gaps = 20/122 (16%)
Query: 213 PWDIDEALRR--RLEKRIYIPLPSKAGREALLKINLKEVKVDPA--VDLTHIASQLDGYS 268
P D+D AL R R ++ IY+PLP R + KI+L++ K A VDL +A +GYS
Sbjct: 388 PDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRDKKPPLAEDVDLEELAEITEGYS 447
Query: 269 GADITNVCRDASMMSMRRKIIGLTPEQIRQIPKEELDLPVSQRDFEEALARCNKSVARED 328
GADI + R+A++ ++R E V+ DF +AL + SV E+
Sbjct: 448 GADIAALVREAALEALR----------------EARRREVTLDDFLDALKKIKPSVTYEE 491
Query: 329 LE 330
+
Sbjct: 492 WK 493
Score = 88.0 bits (218), Expect = 5e-18
Identities = 68/135 (50%), Positives = 84/135 (62%), Gaps = 10/135 (7%)
Query: 727 LPMWMPEFFK--GIRRPWKGVLMVGPPGTGKTMLAKAVATECGTTFFNVCSSTLTSKYRG 784
LP+ PE FK GI P KGVL+ GPPGTGKT+LA+A+A G F ++ + SKY G
Sbjct: 2 LPLKEPELFKKLGIEPP-KGVLLHGPPGTGKTLLARALA-NEGAEFLSINGPEILSKYVG 59
Query: 785 ESEKLVRLLFEMARFYAPSTIFIDEIDSLCSRRGSESEHEASRRVKSELLVQMDGLSSAE 844
ESE +R LFE A APS IFIDEID+L +R S + E RRV ++LL MDGL
Sbjct: 60 ESELRLRELFEEAEKLAPSIIFIDEIDALAPKR-SSDQGEVERRVVAQLLALMDGL---- 114
Query: 845 DSSKVVMVLAATNFP 859
V+V+ ATN P
Sbjct: 115 -KRGQVIVIGATNRP 128
Score = 65.6 bits (160), Expect = 6e-11
Identities = 36/131 (27%), Positives = 65/131 (49%), Gaps = 18/131 (13%)
Query: 216 IDEALRR--RLEKRIYIPLPSKAGREALLKINLKEVKVDPAVDLTHIASQLDGYSGADIT 273
+D A RR R ++ I + LP +AGR +L+I+ + + + P +A++ G SGAD+
Sbjct: 131 LDPAKRRPGRFDREIEVNLPDEAGRLEILQIHTRLMFLGPPGTGKTLAARTVGKSGADLG 190
Query: 274 NVCRDASMMSMRRKIIGLTPEQIRQIPKEELDLPVSQRDFEEALARCNKSVAREDL---E 330
+ ++A++ +RR I + V++ DFEEAL +R L E
Sbjct: 191 ALAKEAALRELRRAIDLVGEYIG-----------VTEDDFEEALK--KVLPSRGVLFEDE 237
Query: 331 NITVERIAPHM 341
++T++ I
Sbjct: 238 DVTLDDIGGLE 248
>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 406
Score = 165 bits (420), Expect = 2e-44
Identities = 78/184 (42%), Positives = 104/184 (56%), Gaps = 19/184 (10%)
Query: 689 NDLVEMLERD--------MVQKNPNIRWDDIAELTDAKRLLEEAVVLPMWMPEFFK--GI 738
+V +L + V++ P++ ++DI L + + + E V LP+ PE F+ GI
Sbjct: 123 YSIVRVLPPEVDPRVSVMEVEEKPDVTYEDIGGLDEQIQEIREVVELPLKNPELFEELGI 182
Query: 739 RRPWKGVLMVGPPGTGKTMLAKAVATECGTTFFNVCSSTLTSKYRGESEKLVRLLFEMAR 798
P KGVL+ GPPGTGKT+LAKAVA + TF V S L KY GE +LVR LFE+AR
Sbjct: 183 DPP-KGVLLYGPPGTGKTLLAKAVANQTDATFIRVVGSELVQKYIGEGARLVRELFELAR 241
Query: 799 FYAPSTIFIDEIDSLCSRRGSESEHEASRRVKS---ELLVQMDGLSSAEDSSKVVMVLAA 855
APS IFIDEID++ ++R R V+ ELL Q+DG D V V+ A
Sbjct: 242 EKAPSIIFIDEIDAIGAKRFDSGT-SGDREVQRTMLELLNQLDGF----DPRGNVKVIMA 296
Query: 856 TNFP 859
TN P
Sbjct: 297 TNRP 300
Score = 71.5 bits (176), Expect = 6e-13
Identities = 33/111 (29%), Positives = 56/111 (50%), Gaps = 23/111 (20%)
Query: 216 IDEALRR--RLEKRIYIPLPSKAGREALLKINLKEVKVDPAVDLTHIASQLDGYSGADIT 273
+D AL R R +++I PLP + GR +LKI+ +++ + VDL +A +G+SGAD+
Sbjct: 303 LDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDVDLELLARLTEGFSGADLK 362
Query: 274 NVCRDASMMSMR--RKIIGLTPEQIRQIPKEELDLPVSQRDFEEALARCNK 322
+C +A M ++R R V+ DF +A+ + K
Sbjct: 363 AICTEAGMFAIRERRDE-------------------VTMEDFLKAVEKVVK 394
>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 = 151 bits (385), Expect = 6e-43
Identities = 62/117 (52%), Positives = 77/117 (65%), Gaps = 4/117 (3%)
Query: 745 VLMVGPPGTGKTMLAKAVATECGTTFFNVCSSTLTSKYRGESEKLVRLLFEMARFYAPST 804
+L+ GPPGTGKT LAKAVA E G F + S L SKY GESEK +R LFE A+ AP
Sbjct: 1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCV 60
Query: 805 IFIDEIDSLCSRRGSESEHEASRRVKSELLVQMDGLSSAEDSSKVVMVLAATNFPWE 861
IFIDEID+L RGS SRRV ++LL ++DG +S+ V+V+AATN P +
Sbjct: 61 IFIDEIDALAGSRGS-GGDSESRRVVNQLLTELDGFTSSLSK---VIVIAATNRPDK 113
Score = 32.6 bits (75), Expect = 0.30
Identities = 9/21 (42%), Positives = 12/21 (57%), Gaps = 1/21 (4%)
Query: 213 PWDIDEALRR-RLEKRIYIPL 232
P +D AL R R ++ I PL
Sbjct: 111 PDKLDPALLRGRFDRIIEFPL 131
>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase;
Provisional.
Length = 389
Score = 156 bits (397), Expect = 2e-41
Identities = 76/159 (47%), Positives = 100/159 (62%), Gaps = 11/159 (6%)
Query: 704 PNIRWDDIAELTDAKRLLEEAVVLPMWMPEFFK--GIRRPWKGVLMVGPPGTGKTMLAKA 761
PN+ ++DI L + R + EAV LP+ PE F+ GI P KGVL+ GPPGTGKT+LAKA
Sbjct: 126 PNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPP-KGVLLYGPPGTGKTLLAKA 184
Query: 762 VATECGTTFFNVCSSTLTSKYRGESEKLVRLLFEMARFYAPSTIFIDEIDSLCSRRGSES 821
VA E TF V S L K+ GE +LVR LFE+AR APS IFIDEID++ ++R ++S
Sbjct: 185 VAHETNATFIRVVGSELVQKFIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKR-TDS 243
Query: 822 EHEASRRVKS---ELLVQMDGLSSAEDSSKVVMVLAATN 857
R V+ +LL +MDG + V ++AATN
Sbjct: 244 GTSGDREVQRTLMQLLAEMDGFDPRGN----VKIIAATN 278
Score = 76.8 bits (190), Expect = 8e-15
Identities = 33/106 (31%), Positives = 55/106 (51%), Gaps = 20/106 (18%)
Query: 215 DI-DEALRR--RLEKRIYIPLPSKAGREALLKINLKEVKVDPAVDLTHIASQLDGYSGAD 271
DI D A+ R R ++ I +PLP + GR +LKI+ +++ + VDL +A +G SGAD
Sbjct: 281 DILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVDLEELAELTEGASGAD 340
Query: 272 ITNVCRDASMMSMRRKIIGLTPEQIRQIPKEELDLPVSQRDFEEAL 317
+ +C +A M ++R + E V+ DF +A+
Sbjct: 341 LKAICTEAGMFAIRDD-------------RTE----VTMEDFLKAI 369
>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 = 155 bits (393), Expect = 4e-39
Identities = 78/165 (47%), Positives = 107/165 (64%), Gaps = 7/165 (4%)
Query: 697 RDMVQKNPNIRWDDIAELTDAKRLLEEAVVLPMWMPEFFK--GIRRPWKGVLMVGPPGTG 754
R+++ + PN+RW DI L + K+ L EAV P+ PE F+ GIR P KGVL+ GPPGTG
Sbjct: 441 REVLVEVPNVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPP-KGVLLFGPPGTG 499
Query: 755 KTMLAKAVATECGTTFFNVCSSTLTSKYRGESEKLVRLLFEMARFYAPSTIFIDEIDSLC 814
KT+LAKAVATE G F V + SK+ GESEK +R +F AR AP+ IF DEID++
Sbjct: 500 KTLLAKAVATESGANFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIA 559
Query: 815 SRRGSESEHEASRRVKSELLVQMDGLSSAEDSSKVVMVLAATNFP 859
RG+ + + R+ ++LL +MDG+ + V+V+AATN P
Sbjct: 560 PARGARFDTSVTDRIVNQLLTEMDGIQELSN----VVVIAATNRP 600
Score = 143 bits (363), Expect = 2e-35
Identities = 79/178 (44%), Positives = 109/178 (61%), Gaps = 12/178 (6%)
Query: 688 DNDLVEMLERDMVQ----KNPNIRWDDIAELTDAKRLLEEAVVLPMWMPEFFK--GIRRP 741
+ VE+ E+ + + K P + ++DI L +AK + E V LPM PE F+ GI P
Sbjct: 153 EATEVEIREKPVREEIERKVPKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPP 212
Query: 742 WKGVLMVGPPGTGKTMLAKAVATECGTTFFNVCSSTLTSKYRGESEKLVRLLFEMARFYA 801
KGVL+ GPPGTGKT+LAKAVA E G F ++ + SKY GESE+ +R +F+ A A
Sbjct: 213 -KGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSKYYGESEERLREIFKEAEENA 271
Query: 802 PSTIFIDEIDSLCSRRGSESEHEASRRVKSELLVQMDGLSSAEDSSKVVMVLAATNFP 859
PS IFIDEID++ +R E E +RV ++LL MDGL + +V+ V+ ATN P
Sbjct: 272 PSIIFIDEIDAIAPKR-EEVTGEVEKRVVAQLLTLMDGL---KGRGRVI-VIGATNRP 324
Score = 90.4 bits (224), Expect = 2e-18
Identities = 43/118 (36%), Positives = 68/118 (57%), Gaps = 3/118 (2%)
Query: 216 IDEALRR--RLEKRIYIPLPSKAGREALLKINLKEVKVDPAVDLTHIASQLDGYSGADIT 273
+D AL R R ++ I +P P + R+ + KI+ + + + VDL +A +GY+GADI
Sbjct: 603 LDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEMTEGYTGADIE 662
Query: 274 NVCRDASMMSMRRKIIGLTPEQIRQIPKEEL-DLPVSQRDFEEALARCNKSVAREDLE 330
VCR+A+M ++R I E++ +E L DL V R F EAL + SV++ED+
Sbjct: 663 AVCREAAMAALRESIGSPAKEKLEVGEEEFLKDLKVEMRHFLEALKKVKPSVSKEDML 720
Score = 79.2 bits (195), Expect = 4e-15
Identities = 47/137 (34%), Positives = 72/137 (52%), Gaps = 8/137 (5%)
Query: 213 PWDIDEALRR--RLEKRIYIPLPSKAGREALLKINLKEVKVDPAVDLTHIASQLDGYSGA 270
P +D ALRR R ++ I I +P K R+ +LK++ + + + VDL +A G+ GA
Sbjct: 324 PDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMPLAEDVDLDKLAEVTHGFVGA 383
Query: 271 DITNVCRDASMMSMRRKI-IGLTPEQIRQIPKEELD-LPVSQRDFEEALARCNKSVARED 328
D+ + ++A+M ++RR I G + +IP E L L V+ +DF EAL S RE
Sbjct: 384 DLAALAKEAAMAALRRFIREGKINFEAEEIPAEVLKELKVTMKDFMEALKMVEPSAIRE- 442
Query: 329 LENITVERIAPHMSTIG 345
+ VE S IG
Sbjct: 443 ---VLVEVPNVRWSDIG 456
>gnl|CDD|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family. Many
proteins may score above the trusted cutoff because an
internal.
Length = 364
Score = 143 bits (362), Expect = 3e-37
Identities = 77/165 (46%), Positives = 104/165 (63%), Gaps = 11/165 (6%)
Query: 700 VQKNPNIRWDDIAELTDAKRLLEEAVVLPMWMPEFFK--GIRRPWKGVLMVGPPGTGKTM 757
V++ PN+ ++DI L + R + EAV LP+ PE F+ GI P KGVL+ GPPGTGKT+
Sbjct: 113 VEERPNVSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPP-KGVLLYGPPGTGKTL 171
Query: 758 LAKAVATECGTTFFNVCSSTLTSKYRGESEKLVRLLFEMARFYAPSTIFIDEIDSLCSRR 817
LAKAVA E TF V S L KY GE +LVR +FE+A+ APS IFIDEID++ ++R
Sbjct: 172 LAKAVAHETNATFIRVVGSELVRKYIGEGARLVREIFELAKEKAPSIIFIDEIDAIAAKR 231
Query: 818 ---GSESEHEASRRVKSELLVQMDGLSSAEDSSKVVMVLAATNFP 859
G+ + E R + +LL ++DG + V V+AATN P
Sbjct: 232 TDSGTSGDREVQRTLM-QLLAELDGFDPRGN----VKVIAATNRP 271
Score = 60.6 bits (147), Expect = 1e-09
Identities = 29/73 (39%), Positives = 45/73 (61%), Gaps = 2/73 (2%)
Query: 216 IDEALRR--RLEKRIYIPLPSKAGREALLKINLKEVKVDPAVDLTHIASQLDGYSGADIT 273
+D AL R R ++ I +PLP GR +LKI+ +++K+ VDL IA +G SGAD+
Sbjct: 274 LDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAEDVDLEAIAKMTEGASGADLK 333
Query: 274 NVCRDASMMSMRR 286
+C +A M ++R
Sbjct: 334 AICTEAGMFAIRE 346
>gnl|CDD|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like
protein; Provisional.
Length = 398
Score = 133 bits (337), Expect = 1e-33
Identities = 73/165 (44%), Positives = 99/165 (60%), Gaps = 15/165 (9%)
Query: 700 VQKNPNIRWDDIAELTDAKRLLEEAVVLPMWMPEFFK--GIRRPWKGVLMVGPPGTGKTM 757
+ + P++ + DI L K+ + EAV LP+ PE ++ GI P +GVL+ GPPGTGKTM
Sbjct: 136 MSEKPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPP-RGVLLYGPPGTGKTM 194
Query: 758 LAKAVATECGTTFFNVCSSTLTSKYRGESEKLVRLLFEMARFYAPSTIFIDEIDSLCSRR 817
LAKAVA TF V S KY GE ++VR +F +AR APS IFIDE+DS+ ++R
Sbjct: 195 LAKAVAHHTTATFIRVVGSEFVQKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKR 254
Query: 818 -----GSESEHEASRRVKSELLVQMDGLSSAEDSSKVVMVLAATN 857
G++ E +R+ ELL QMDG D + V V+ ATN
Sbjct: 255 FDAQTGADRE---VQRILLELLNQMDGF----DQTTNVKVIMATN 292
Score = 49.0 bits (117), Expect = 6e-06
Identities = 27/106 (25%), Positives = 50/106 (47%), Gaps = 20/106 (18%)
Query: 214 WD-IDEALRR--RLEKRIYIPLPSKAGREALLKINLKEVKVDPAVDLTHIASQLDGYSGA 270
D +D AL R RL+++I PLP + + + + ++ + VDL S+ + S A
Sbjct: 294 ADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEVDLEDFVSRPEKISAA 353
Query: 271 DITNVCRDASMMSMRRKIIGLTPEQIRQIPKEELDLPVSQRDFEEA 316
DI +C++A M ++R+ R + + +DFE+
Sbjct: 354 DIAAICQEAGMQAVRKN---------RYV--------ILPKDFEKG 382
>gnl|CDD|185575 PTZ00361, PTZ00361, 26 proteosome regulatory subunit 4-like
protein; Provisional.
Length = 438
Score = 134 bits (339), Expect = 1e-33
Identities = 77/165 (46%), Positives = 97/165 (58%), Gaps = 15/165 (9%)
Query: 700 VQKNPNIRWDDIAELTDAKRLLEEAVVLPMWMPEFFK--GIRRPWKGVLMVGPPGTGKTM 757
V K P + DI L + ++EAV LP+ PE + GI+ P KGV++ GPPGTGKT+
Sbjct: 174 VDKAPLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPP-KGVILYGPPGTGKTL 232
Query: 758 LAKAVATECGTTFFNVCSSTLTSKYRGESEKLVRLLFEMARFYAPSTIFIDEIDSLCSRR 817
LAKAVA E TF V S L KY G+ KLVR LF +A APS +FIDEID++ ++R
Sbjct: 233 LAKAVANETSATFLRVVGSELIQKYLGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKR 292
Query: 818 -----GSESEHEASRRVKSELLVQMDGLSSAEDSSKVVMVLAATN 857
G E E +R ELL Q+DG S D KV+M ATN
Sbjct: 293 YDATSGGEKE---IQRTMLELLNQLDGFDSRGD-VKVIM---ATN 330
Score = 41.7 bits (98), Expect = 0.001
Identities = 23/85 (27%), Positives = 46/85 (54%), Gaps = 2/85 (2%)
Query: 216 IDEALRR--RLEKRIYIPLPSKAGREALLKINLKEVKVDPAVDLTHIASQLDGYSGADIT 273
+D AL R R++++I P P + + + +I+ ++ + VDL D SGADI
Sbjct: 335 LDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAEDVDLEEFIMAKDELSGADIK 394
Query: 274 NVCRDASMMSMRRKIIGLTPEQIRQ 298
+C +A ++++R + + +T R+
Sbjct: 395 AICTEAGLLALRERRMKVTQADFRK 419
>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 = 124 bits (314), Expect = 5e-30
Identities = 67/169 (39%), Positives = 95/169 (56%), Gaps = 22/169 (13%)
Query: 701 QKNPNIRWDDIAELTDAKRLLEEAVVLPMWMPEFFK--------GIRRPWKGVLMVGPPG 752
++ P + + D+A + +AK L E V +F K G + P KGVL+VGPPG
Sbjct: 47 EEKPKVTFKDVAGIDEAKEELMEIV-------DFLKNPSKFTKLGAKIP-KGVLLVGPPG 98
Query: 753 TGKTMLAKAVATECGTTFFNVCSSTLTSKYRGESEKLVRLLFEMARFYAPSTIFIDEIDS 812
TGKT+LAKAVA E G FF++ S + G VR LFE A+ AP IFIDEID+
Sbjct: 99 TGKTLLAKAVAGEAGVPFFSISGSDFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDA 158
Query: 813 LCSRRGSE--SEHEASRRVKSELLVQMDGLSSAEDSSKVVMVLAATNFP 859
+ +RG+ ++ + ++LLV+MDG + V+V+AATN P
Sbjct: 159 VGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTG----VIVIAATNRP 203
Score = 70.4 bits (173), Expect = 2e-12
Identities = 34/113 (30%), Positives = 59/113 (52%), Gaps = 19/113 (16%)
Query: 216 IDEALRR--RLEKRIYIPLPSKAGREALLKINLKEVKVDPAVDLTHIASQLDGYSGADIT 273
+D AL R R ++++ + LP GRE +LK++ K K+ P VDL +A + G+SGAD+
Sbjct: 206 LDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAPDVDLKAVARRTPGFSGADLA 265
Query: 274 NVCRDASMMSMRRKIIGLTPEQIRQIPKEELDLPVSQRDFEEALARCNKSVAR 326
N+ +A++++ R+ K E ++ D EEA+ R +
Sbjct: 266 NLLNEAALLAARKN-------------KTE----ITMNDIEEAIDRVIAGPEK 301
>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 = 115 bits (290), Expect = 6e-27
Identities = 62/177 (35%), Positives = 97/177 (54%), Gaps = 19/177 (10%)
Query: 696 ERDMVQKNPNIRWDDIAELTDAKRLLEEAVVLPMWMPEFFKGIR-RPWKGVLMVGPPGTG 754
E ++++ P++ + DI L + +AV LP PE ++ +P KGVL+ GPPG G
Sbjct: 169 EDLVLEEVPDVTYADIGGLGSQIEQIRDAVELPFLHPELYREYGLKPPKGVLLYGPPGCG 228
Query: 755 KTMLAKAVATECG----------TTFFNVCSSTLTSKYRGESEKLVRLLFEMARFYA--- 801
KT++AKAVA + F N+ L +KY GE+E+ +RL+F+ AR A
Sbjct: 229 KTLIAKAVANSLAARIGAEGGGKSYFLNIKGPELLNKYVGETERQIRLIFQRAREKASEG 288
Query: 802 -PSTIFIDEIDSLCSRRGSESEHEASRRVKSELLVQMDGLSSAEDSSKVVMVLAATN 857
P +F DE+DSL RGS + V +LL ++DG+ S ++ V+V+ A+N
Sbjct: 289 RPVIVFFDEMDSLFRTRGSGVSSDVETTVVPQLLAEIDGVESLDN----VIVIGASN 341
>gnl|CDD|214386 CHL00176, ftsH, cell division protein; Validated.
Length = 638
Score = 108 bits (272), Expect = 2e-24
Identities = 61/163 (37%), Positives = 91/163 (55%), Gaps = 10/163 (6%)
Query: 700 VQKNPN--IRWDDIAELTDAKRLLEEAVVLPMWMPEFFKGI-RRPWKGVLMVGPPGTGKT 756
Q + I + DIA + +AK EE V + PE F + + KGVL+VGPPGTGKT
Sbjct: 172 FQMEADTGITFRDIAGIEEAKEEFEEVVSF-LKKPERFTAVGAKIPKGVLLVGPPGTGKT 230
Query: 757 MLAKAVATECGTTFFNVCSSTLTSKYRGESEKLVRLLFEMARFYAPSTIFIDEIDSLCSR 816
+LAKA+A E FF++ S + G VR LF+ A+ +P +FIDEID++ +
Sbjct: 231 LLAKAIAGEAEVPFFSISGSEFVEMFVGVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQ 290
Query: 817 RGS--ESEHEASRRVKSELLVQMDGLSSAEDSSKVVMVLAATN 857
RG+ ++ + ++LL +MDG + V+V+AATN
Sbjct: 291 RGAGIGGGNDEREQTLNQLLTEMDGFKGNKG----VIVIAATN 329
Score = 58.5 bits (142), Expect = 1e-08
Identities = 30/83 (36%), Positives = 53/83 (63%), Gaps = 2/83 (2%)
Query: 216 IDEALRR--RLEKRIYIPLPSKAGREALLKINLKEVKVDPAVDLTHIASQLDGYSGADIT 273
+D AL R R +++I + LP + GR +LK++ + K+ P V L IA + G+SGAD+
Sbjct: 334 LDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKLSPDVSLELIARRTPGFSGADLA 393
Query: 274 NVCRDASMMSMRRKIIGLTPEQI 296
N+ +A++++ RRK +T ++I
Sbjct: 394 NLLNEAAILTARRKKATITMKEI 416
>gnl|CDD|224144 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 368
Score = 99.5 bits (248), Expect = 2e-22
Identities = 59/162 (36%), Positives = 85/162 (52%), Gaps = 19/162 (11%)
Query: 704 PNIRWDDIAELTDAK---RLLEEAVVLPMWMPEFFKGIRRPW--KGVLMVGPPGTGKTML 758
+I DD+ +AK RL+ E + PE F W K VL GPPGTGKTM+
Sbjct: 116 SDITLDDVIGQEEAKRKCRLIMEY----LENPERF----GDWAPKNVLFYGPPGTGKTMM 167
Query: 759 AKAVATECGTTFFNVCSSTLTSKYRGESEKLVRLLFEMARFYAPSTIFIDEIDSLC-SRR 817
AKA+A E V ++ L ++ G+ + + L+E AR AP +FIDE+D++ RR
Sbjct: 168 AKALANEAKVPLLLVKATELIGEHVGDGARRIHELYERARKAAPCIVFIDELDAIALDRR 227
Query: 818 GSESEHEASRRVKSELLVQMDGLSSAEDSSKVVMVLAATNFP 859
E + S V + LL ++DG+ E V+ +AATN P
Sbjct: 228 YQELRGDVSEIVNA-LLTELDGIKENEG----VVTIAATNRP 264
Score = 40.6 bits (95), Expect = 0.003
Identities = 19/57 (33%), Positives = 31/57 (54%)
Query: 216 IDEALRRRLEKRIYIPLPSKAGREALLKINLKEVKVDPAVDLTHIASQLDGYSGADI 272
+D A+R R E+ I LP+ R +L+ K+ + DL ++A++ G SG DI
Sbjct: 267 LDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKFPLPVDADLRYLAAKTKGMSGRDI 323
>gnl|CDD|223541 COG0465, HflB, ATP-dependent Zn proteases [Posttranslational
modification, protein turnover, chaperones].
Length = 596
Score = 101 bits (254), Expect = 3e-22
Identities = 67/160 (41%), Positives = 91/160 (56%), Gaps = 10/160 (6%)
Query: 704 PNIRWDDIAELTDAKRLLEEAVVLPMWMPEFFK--GIRRPWKGVLMVGPPGTGKTMLAKA 761
+ + D+A + +AK L E V P+ ++ G + P KGVL+VGPPGTGKT+LAKA
Sbjct: 145 VKVTFADVAGVDEAKEELSELVDFLK-NPKKYQALGAKIP-KGVLLVGPPGTGKTLLAKA 202
Query: 762 VATECGTTFFNVCSSTLTSKYRGESEKLVRLLFEMARFYAPSTIFIDEIDSLCSRRGSES 821
VA E G FF++ S + G VR LFE A+ AP IFIDEID++ +RG+
Sbjct: 203 VAGEAGVPFFSISGSDFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGL 262
Query: 822 EHEASRR--VKSELLVQMDGLSSAEDSSKVVMVLAATNFP 859
R ++LLV+MDG E V+V+AATN P
Sbjct: 263 GGGNDEREQTLNQLLVEMDGFGGNEG----VIVIAATNRP 298
Score = 64.6 bits (158), Expect = 1e-10
Identities = 34/105 (32%), Positives = 53/105 (50%), Gaps = 19/105 (18%)
Query: 217 DEALRR--RLEKRIYIPLPSKAGREALLKINLKEVKVDPAVDLTHIASQLDGYSGADITN 274
D AL R R +++I + LP GRE +LK++ K + VDL IA G+SGAD+ N
Sbjct: 302 DPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLAEDVDLKKIARGTPGFSGADLAN 361
Query: 275 VCRDASMMSMRRKIIGLTPEQIRQIPKEELDLPVSQRDFEEALAR 319
+ +A++++ RR ++ RD EEA+ R
Sbjct: 362 LLNEAALLAARRN-----------------KKEITMRDIEEAIDR 389
>gnl|CDD|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed.
Length = 644
Score = 100 bits (249), Expect = 1e-21
Identities = 66/169 (39%), Positives = 92/169 (54%), Gaps = 12/169 (7%)
Query: 694 MLERDMVQKNPNIRWDDIAELTDAKRLLEEAVVLPMWMPEFFK-GIRRPWKGVLMVGPPG 752
ML D ++ + D+A +AK + E V F K G + P KGVLMVGPPG
Sbjct: 141 MLTEDQIKTT----FADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIP-KGVLMVGPPG 195
Query: 753 TGKTMLAKAVATECGTTFFNVCSSTLTSKYRGESEKLVRLLFEMARFYAPSTIFIDEIDS 812
TGKT+LAKA+A E FF + S + G VR +FE A+ AP IFIDEID+
Sbjct: 196 TGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDA 255
Query: 813 LCSRRGS--ESEHEASRRVKSELLVQMDGLSSAEDSSKVVMVLAATNFP 859
+ +RG+ H+ + +++LV+MDG E ++V+AATN P
Sbjct: 256 VGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEG----IIVIAATNRP 300
Score = 55.4 bits (133), Expect = 1e-07
Identities = 25/80 (31%), Positives = 50/80 (62%), Gaps = 4/80 (5%)
Query: 216 IDEALRR--RLEKRIYIPLPSKAGREALLKINLKEVKVDPAVDLTHIASQLDGYSGADIT 273
+D AL R R ++++ + LP GRE +LK++++ V + P +D IA G+SGAD+
Sbjct: 303 LDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLA 362
Query: 274 NVCRDASMMSMR--RKIIGL 291
N+ +A++ + R ++++ +
Sbjct: 363 NLVNEAALFAARGNKRVVSM 382
>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 = 89.1 bits (221), Expect = 9e-21
Identities = 47/130 (36%), Positives = 60/130 (46%), Gaps = 18/130 (13%)
Query: 739 RRPWKGVLMVGPPGTGKTMLAKAVATECGTTFFNVCS---STLTSKYRGESEK---LVRL 792
P K +L+ GPPGTGKT LA+A+A E S L LVRL
Sbjct: 16 LPPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHFLVRL 75
Query: 793 LFEMARFYAPSTIFIDEIDSLCSRRGSESEHEASRRVKSELLVQMDGLSSAEDSSKVVMV 852
LFE+A P +FIDEIDSL SR ++ LL ++ L+ + V V
Sbjct: 76 LFELAEKAKPGVLFIDEIDSL------------SRGAQNALLRVLETLNDLRIDRENVRV 123
Query: 853 LAATNFPWEG 862
+ ATN P G
Sbjct: 124 IGATNRPLLG 133
>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 = 66.6 bits (162), Expect = 6e-13
Identities = 38/134 (28%), Positives = 52/134 (38%), Gaps = 27/134 (20%)
Query: 741 PWKGVLMVGPPGTGKTMLAKAVATECGTTFFNVCS-----------------STLTSKYR 783
P + +L+VGPPG+GKT LA+A+A E G V K
Sbjct: 1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKAS 60
Query: 784 GESEKLVRLLFEMARFYAPSTIFIDEIDSLCSRRGSESEHEASRRVKSELLVQMDGLSSA 843
G E +RL +AR P + +DEI SL LL++ L
Sbjct: 61 GSGELRLRLALALARKLKPDVLILDEITSLLDAEQE----------ALLLLLEELRLLLL 110
Query: 844 EDSSKVVMVLAATN 857
S K + V+ TN
Sbjct: 111 LKSEKNLTVILTTN 124
>gnl|CDD|177094 CHL00195, ycf46, Ycf46; Provisional.
Length = 489
Score = 54.3 bits (131), Expect = 2e-07
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 5/118 (4%)
Query: 743 KGVLMVGPPGTGKTMLAKAVATECGTTFFNVCSSTLTSKYRGESEKLVRLLFEMARFYAP 802
+G+L+VG GTGK++ AKA+A + + L GESE +R + +A +P
Sbjct: 260 RGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKLFGGIVGESESRMRQMIRIAEALSP 319
Query: 803 STIFIDEIDSLCSRRGSESEHEASRRVKSELLVQMDGLSSAEDSSKVVMVLAATNFPW 860
++IDEID S S+ + + RV + + + +E S V +V A N
Sbjct: 320 CILWIDEIDKAFSNSESKGDSGTTNRVLATFITWL-----SEKKSPVFVVATANNIDL 372
Score = 29.6 bits (67), Expect = 8.4
Identities = 17/58 (29%), Positives = 33/58 (56%), Gaps = 3/58 (5%)
Query: 218 EALRR-RLEKRIYIPLPSKAGREALLKINLKEVKVDP--AVDLTHIASQLDGYSGADI 272
E LR+ R ++ ++ LPS RE + KI+L++ + D+ ++ + +SGA+I
Sbjct: 376 EILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKSWKKYDIKKLSKLSNKFSGAEI 433
>gnl|CDD|223786 COG0714, COG0714, MoxR-like ATPases [General function prediction
only].
Length = 329
Score = 48.2 bits (115), Expect = 1e-05
Identities = 24/82 (29%), Positives = 35/82 (42%), Gaps = 20/82 (24%)
Query: 745 VLMVGPPGTGKTMLAKAVATECGTTFFNV-CSSTLTSKYRGESEKLVRLLFEMA------ 797
VL+ GPPG GKT+LA+A+A G F + C+ L S+ L +
Sbjct: 46 VLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLL-----PSDLLGTYAYAALLLEPGE 100
Query: 798 -RFY-------APSTIFIDEID 811
RF + +DEI+
Sbjct: 101 FRFVPGPLFAAVRVILLLDEIN 122
>gnl|CDD|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed.
Length = 413
Score = 45.8 bits (110), Expect = 6e-05
Identities = 25/66 (37%), Positives = 32/66 (48%), Gaps = 11/66 (16%)
Query: 749 GPPGTGKTMLAKAVATECGTTFFNVCSSTLTSKYRGESEKLVRLLFEMA---RFYAPSTI 805
GPPGTGKT LA+ +A F + S+ + K +R + E A R TI
Sbjct: 43 GPPGTGKTTLARIIAGATDAPFEAL-SAVTSGV------KDLREVIEEARQRRSAGRRTI 95
Query: 806 -FIDEI 810
FIDEI
Sbjct: 96 LFIDEI 101
>gnl|CDD|224145 COG1224, TIP49, DNA helicase TIP49, TBP-interacting protein
[Transcription].
Length = 450
Score = 45.8 bits (109), Expect = 7e-05
Identities = 22/53 (41%), Positives = 31/53 (58%), Gaps = 2/53 (3%)
Query: 743 KGVLMVGPPGTGKTMLAKAVATECG--TTFFNVCSSTLTSKYRGESEKLVRLL 793
+G+L+VGPPGTGKT LA +A E G F + S + S ++E L + L
Sbjct: 66 RGILIVGPPGTGKTALAMGIARELGEDVPFVAISGSEIYSLEVKKTEALTQAL 118
>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 = 43.7 bits (104), Expect = 1e-04
Identities = 13/20 (65%), Positives = 17/20 (85%)
Query: 745 VLMVGPPGTGKTMLAKAVAT 764
+LM+GPPG+GKTMLAK +
Sbjct: 25 LLMIGPPGSGKTMLAKRLPG 44
>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 = 43.7 bits (103), Expect = 3e-04
Identities = 26/79 (32%), Positives = 35/79 (44%), Gaps = 10/79 (12%)
Query: 746 LMVGPPGTGKTMLAKAVATE-CGTTFF------NVCSSTLTSKYRGESEKLVRLLFEMAR 798
L GPPGTGKT +A+ VA CG V + L +Y GESE + + A
Sbjct: 316 LFAGPPGTGKTTIARVVAKIYCGLGVLRKPLVREVSRADLIGQYIGESEAKTNEIIDSA- 374
Query: 799 FYAPSTIFIDEIDSLCSRR 817
+F+DE +L
Sbjct: 375 --LGGVLFLDEAYTLVETG 391
>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 = 41.4 bits (98), Expect = 5e-04
Identities = 25/82 (30%), Positives = 31/82 (37%), Gaps = 17/82 (20%)
Query: 745 VLMVGPPGTGKTMLAKAVA-----TECGTTFFNVCSSTLT-----SKYRGESEKLVR--- 791
L +GP G GKT LAKA+A E + S S+ G V
Sbjct: 6 FLFLGPTGVGKTELAKALAELLFGDERALIRID--MSEYMEEHSVSRLIGAPPGYVGYEE 63
Query: 792 --LLFEMARFYAPSTIFIDEID 811
L E R S + IDEI+
Sbjct: 64 GGQLTEAVRRKPYSIVLIDEIE 85
>gnl|CDD|237495 PRK13765, PRK13765, ATP-dependent protease Lon; Provisional.
Length = 637
Score = 42.7 bits (101), Expect = 0.001
Identities = 14/19 (73%), Positives = 18/19 (94%)
Query: 745 VLMVGPPGTGKTMLAKAVA 763
V+M+G PGTGK+MLAKA+A
Sbjct: 53 VMMIGSPGTGKSMLAKAMA 71
>gnl|CDD|238540 cd01120, RecA-like_NTPases, RecA-like NTPases. This family includes
the NTP binding domain of F1 and V1 H+ATPases, DnaB and
related helicases as well as bacterial RecA and related
eukaryotic and archaeal recombinases. This group also
includes bacterial conjugation proteins and related DNA
transfer proteins involved in type II and type IV
secretion.
Length = 165
Score = 40.2 bits (94), Expect = 0.001
Identities = 33/133 (24%), Positives = 43/133 (32%), Gaps = 31/133 (23%)
Query: 745 VLMVGPPGTGKTMLAKAVATECGTTFFNVC-------SSTLTSKYRGESEK--------- 788
+L+ GP G+GKT LA +A T V LT + GES K
Sbjct: 2 ILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIEELTERLIGESLKGALDNLIIV 61
Query: 789 --------LVRLLFEMARFYAPS---TIFIDEIDSLCSRRGSESEHEASRRVKSELLVQM 837
RLL + R I +DE+ L R E E L ++
Sbjct: 62 FATADDPAAARLLSKAERLRERGGDDLIILDELTRLV--RALREIREGYPGELDEELREL 119
Query: 838 DGLSSAEDSSKVV 850
L A V
Sbjct: 120 --LERARKGGVTV 130
>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 = 41.5 bits (98), Expect = 0.001
Identities = 21/48 (43%), Positives = 28/48 (58%), Gaps = 5/48 (10%)
Query: 743 KGVLMVGPPGTGKTMLAKAVATECG--TTFFNVCSSTLTSKYRGESEK 788
+ VL+ GPPGTGKT LA A++ E G T F C + + Y E +K
Sbjct: 51 RAVLIAGPPGTGKTALAIAISKELGEDTPF---CPISGSEVYSLEMKK 95
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 40.7 bits (96), Expect = 0.003
Identities = 22/57 (38%), Positives = 30/57 (52%), Gaps = 8/57 (14%)
Query: 709 DDIAELTDAKRLLEEAVVLPMWMPEFFKGIRRPWKGVLMVGPPGTGKTMLAKAVATE 765
D+ AK L E W+ + KG +P K +L+ GPPG GKT LA A+A +
Sbjct: 14 SDVVGNEKAKEQLRE------WIESWLKG--KPKKALLLYGPPGVGKTSLAHALAND 62
>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 = 0.004
Identities = 24/66 (36%), Positives = 32/66 (48%), Gaps = 11/66 (16%)
Query: 749 GPPGTGKTMLAKAVATECGTTFFNVCSSTLTSKYRGESEKLVRLLFEMA---RFYAPSTI 805
GPPGTGKT LA+ +A F + S+ + K +R + E A R TI
Sbjct: 55 GPPGTGKTTLARLIAGTTNAAFEAL-SAVTSGV------KDLREIIEEARKNRLLGRRTI 107
Query: 806 -FIDEI 810
F+DEI
Sbjct: 108 LFLDEI 113
>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 = 40.1 bits (94), Expect = 0.004
Identities = 29/82 (35%), Positives = 45/82 (54%), Gaps = 8/82 (9%)
Query: 745 VLMVGPPGTGKTMLAKAVATECGTTFFNVCSSTLT-SKYRGES-EKLVRLLFEMARFYAP 802
+L++GP G+GKT+LA+ +A F ++TLT + Y GE E ++ L + A +
Sbjct: 119 ILLIGPTGSGKTLLAQTLARILNVPFAIADATTLTEAGYVGEDVENILLKLLQAADYDVE 178
Query: 803 ST----IFIDEIDSLCSRRGSE 820
I+IDEID + R SE
Sbjct: 179 KAQKGIIYIDEIDKIS--RKSE 198
>gnl|CDD|224140 COG1219, ClpX, ATP-dependent protease Clp, ATPase subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 408
Score = 39.9 bits (94), Expect = 0.005
Identities = 28/75 (37%), Positives = 45/75 (60%), Gaps = 10/75 (13%)
Query: 745 VLMVGPPGTGKTMLAKAVATECGTTFFNVCSSTLT-SKYRGESEK--LVRLL----FEMA 797
+L++GP G+GKT+LA+ +A F ++TLT + Y GE + L++LL +++
Sbjct: 100 ILLIGPTGSGKTLLAQTLAKILNVPFAIADATTLTEAGYVGEDVENILLKLLQAADYDVE 159
Query: 798 RFYAP-STIFIDEID 811
R A I+IDEID
Sbjct: 160 R--AERGIIYIDEID 172
>gnl|CDD|234619 PRK00080, ruvB, Holliday junction DNA helicase RuvB; Reviewed.
Length = 328
Score = 39.7 bits (94), Expect = 0.005
Identities = 14/26 (53%), Positives = 16/26 (61%)
Query: 745 VLMVGPPGTGKTMLAKAVATECGTTF 770
VL+ GPPG GKT LA +A E G
Sbjct: 54 VLLYGPPGLGKTTLANIIANEMGVNI 79
>gnl|CDD|219538 pfam07728, AAA_5, AAA domain (dynein-related subfamily). This Pfam
entry includes some of the AAA proteins not detected by
the pfam00004 model.
Length = 135
Score = 37.7 bits (88), Expect = 0.006
Identities = 17/39 (43%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 744 GVLMVGPPGTGKTMLAK--AVATECGTTFFNVCSSTLTS 780
GVL+VGPPGTGK+ LA+ A A F+ + T
Sbjct: 1 GVLLVGPPGTGKSELAERLAAALSNRPVFYVQLTRDTTE 39
>gnl|CDD|235422 PRK05342, clpX, ATP-dependent protease ATP-binding subunit ClpX;
Provisional.
Length = 412
Score = 38.6 bits (91), Expect = 0.011
Identities = 29/87 (33%), Positives = 50/87 (57%), Gaps = 21/87 (24%)
Query: 745 VLMVGPPGTGKTMLAKAVATECGTTFFNVC-----SSTLT-SKYRGES-EK-LVRLL--- 793
+L++GP G+GKT+LA+ +A +V ++TLT + Y GE E L++LL
Sbjct: 111 ILLIGPTGSGKTLLAQTLA-----RILDVPFAIADATTLTEAGYVGEDVENILLKLLQAA 165
Query: 794 -FEMARFYAPSTI-FIDEIDSLCSRRG 818
+++ + A I +IDEID + +R+
Sbjct: 166 DYDVEK--AQRGIVYIDEIDKI-ARKS 189
>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 = 36.4 bits (85), Expect = 0.016
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 745 VLMVGPPGTGKTMLAKAVATECGTTF 770
VL+ G PG KT+LA+ +A G F
Sbjct: 2 VLLEGVPGLAKTLLARTLARSLGLDF 27
>gnl|CDD|225164 COG2255, RuvB, Holliday junction resolvasome, helicase subunit [DNA
replication, recombination, and repair].
Length = 332
Score = 37.9 bits (89), Expect = 0.018
Identities = 14/26 (53%), Positives = 16/26 (61%)
Query: 745 VLMVGPPGTGKTMLAKAVATECGTTF 770
VL+ GPPG GKT LA +A E G
Sbjct: 55 VLLFGPPGLGKTTLAHIIANELGVNL 80
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 36.1 bits (84), Expect = 0.018
Identities = 17/88 (19%), Positives = 32/88 (36%), Gaps = 17/88 (19%)
Query: 743 KGVLMV-GPPGTGKTMLAKAVATE--CGTTFFNVCSSTLTSKY--------------RGE 785
G+ ++ G G+GKT L + +A + + S T K G
Sbjct: 4 AGIGVLTGESGSGKTTLLRRLARQLPNRRVVYVEAPSLGTPKDLLRKILRALGLPLSGGT 63
Query: 786 SEKLVRLLFEMARFYAPSTIFIDEIDSL 813
+ +L+ + + + + IDE L
Sbjct: 64 TAELLEAILDALKRRGRPLLIIDEAQHL 91
>gnl|CDD|222307 pfam13671, AAA_33, AAA domain. This family of domains contain only
a P-loop motif, that is characteristic of the AAA
superfamily. Many of the proteins in this family are
just short fragments so there is no Walker B motif.
Length = 143
Score = 35.8 bits (83), Expect = 0.030
Identities = 21/65 (32%), Positives = 31/65 (47%), Gaps = 13/65 (20%)
Query: 745 VLMVGPPGTGKTMLAKAVATECGTTFFNVCSSTL-----------TSKYRGESEKLVRLL 793
+LMVG PG+GK+ A+ + E G + S TL S Y S ++ + L
Sbjct: 2 ILMVGLPGSGKSTFARRLLRELGAVV--LSSDTLRKRLRGDGPPDISYYARASGRVYQRL 59
Query: 794 FEMAR 798
E+AR
Sbjct: 60 LELAR 64
>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 = 36.7 bits (86), Expect = 0.034
Identities = 14/26 (53%), Positives = 16/26 (61%)
Query: 745 VLMVGPPGTGKTMLAKAVATECGTTF 770
VL+ GPPG GKT LA +A E G
Sbjct: 53 VLLYGPPGLGKTTLANIIANEMGVNI 78
>gnl|CDD|223679 COG0606, COG0606, Predicted ATPase with chaperone activity
[Posttranslational modification, protein turnover,
chaperones].
Length = 490
Score = 36.4 bits (85), Expect = 0.055
Identities = 13/18 (72%), Positives = 15/18 (83%)
Query: 743 KGVLMVGPPGTGKTMLAK 760
+L+VGPPGTGKTMLA
Sbjct: 199 HNLLLVGPPGTGKTMLAS 216
>gnl|CDD|223718 COG0645, COG0645, Predicted kinase [General function prediction
only].
Length = 170
Score = 35.5 bits (82), Expect = 0.057
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 743 KGVLMVGPPGTGKTMLAKAVATECG 767
+ VL+ G PG+GK+ LA+ +A G
Sbjct: 2 RLVLVGGLPGSGKSTLARGLAELLG 26
>gnl|CDD|236304 PRK08581, PRK08581, N-acetylmuramoyl-L-alanine amidase; Validated.
Length = 619
Score = 36.3 bits (84), Expect = 0.070
Identities = 27/181 (14%), Positives = 54/181 (29%), Gaps = 31/181 (17%)
Query: 495 NNQLTKEYNEVQRLQSMIRNFGSHNVNDERMLGNSRPNQFDSIFSSDANNSLEPWVTDPD 554
N +Y + + + + ++ + + +++ ++ D + A +S
Sbjct: 129 LNSDISDYEQPRNSEKSTNDSNKNSDSSIKNDTDTQSSKQDKADNQKAPSSNN------- 181
Query: 555 VWPPANDTDPSLYQLHTPKPQQTKTFSKTRKSSIPNKSTPQSNNSTLKRGNKTPANNKKE 614
+ T +K S P P +NS + + +
Sbjct: 182 --------------------TKPSTSNKQPNSPKPT--QPNQSNSQPASDDTANQKSSSK 219
Query: 615 PNLGYKSVTYDKVLKNSSDNENVKNKTKSNNAQGNSNPTNNSNNNNSNNNPGNSNSHDDK 674
N D +L S E+ K K +Q + T SN N + H K
Sbjct: 220 DNQSMSDSALDSILDQYS--EDAKKTQKDYASQSKKDKTETSNTKNPQLPTQDELKHKSK 277
Query: 675 P 675
P
Sbjct: 278 P 278
Score = 35.9 bits (83), Expect = 0.10
Identities = 22/169 (13%), Positives = 48/169 (28%), Gaps = 22/169 (13%)
Query: 517 SHNVNDERMLGNSRPNQFDSIFSS------DANNSLEPWVTDPDVWPPANDTDPSLYQLH 570
S + + S + D FS+ D+NN ++ + + Y +
Sbjct: 57 SKDTDKADNNNTSNQDNNDKKFSTIDSSTSDSNNIIDFIYKNLPQTNINQLLTKNKYDDN 116
Query: 571 TPKPQQTKTFSKTRKSSIPNKSTPQSNNSTLKRGNKTPANNKKEPNLGYKSVTYDKVLKN 630
+ S I + P+++ + NK ++ K
Sbjct: 117 YSLTTLIQNLFNL-NSDISDYEQPRNSEKSTNDSNKNSDSSIKNDTD-----------TQ 164
Query: 631 SSDNENVKNKTKSNNAQGNSNPT----NNSNNNNSNNNPGNSNSHDDKP 675
SS + N+ ++ + + N+ N + S D
Sbjct: 165 SSKQDKADNQKAPSSNNTKPSTSNKQPNSPKPTQPNQSNSQPASDDTAN 213
Score = 32.5 bits (74), Expect = 1.1
Identities = 21/142 (14%), Positives = 53/142 (37%), Gaps = 13/142 (9%)
Query: 534 FDSIFSSDANNSLEPWVTD-----PDVWPP--ANDTDPSLYQLHTPKPQQTKTFSKTRKS 586
+ ++ ++ N L D + ++D S Y+ + T +K S
Sbjct: 96 YKNLPQTNINQLLTKNKYDDNYSLTTLIQNLFNLNSDISDYEQPRNSEKSTNDSNKNSDS 155
Query: 587 SIPNKSTPQSNNSTLKRGNKTPANNKKEPNLGYKSVTYDKVLKNSSDNENVKNKTKSNNA 646
SI N + QS+ N K + K T +K + + ++ ++ +
Sbjct: 156 SIKNDTDTQSSK------QDKADNQKAPSSNNTKPSTSNKQPNSPKPTQPNQSNSQPASD 209
Query: 647 QGNSNPTNNSNNNNSNNNPGNS 668
+ +++ +N + +++ +S
Sbjct: 210 DTANQKSSSKDNQSMSDSALDS 231
>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 = 36.5 bits (85), Expect = 0.072
Identities = 12/24 (50%), Positives = 14/24 (58%)
Query: 748 VGPPGTGKTMLAKAVATECGTTFF 771
VGPPG GKT L K++A F
Sbjct: 353 VGPPGVGKTSLGKSIAKALNRKFV 376
>gnl|CDD|237555 PRK13914, PRK13914, invasion associated secreted endopeptidase;
Provisional.
Length = 481
Score = 36.3 bits (83), Expect = 0.079
Identities = 25/107 (23%), Positives = 45/107 (42%), Gaps = 5/107 (4%)
Query: 571 TPKPQQTKTFSKTRKSSIP--NKSTPQSNNSTLKRGNKTPANNK-KEPNLGYKSVTYDKV 627
TPK + K + P ++T + +T K+ T K P K
Sbjct: 251 TPKAEVKTEAPAAEKQAAPVVKENTNTNTATTEKKETTTQQQTAPKAPTEAAKPAPAPST 310
Query: 628 LKNSSDNENVKNKTKSNNAQGNSNPTNNSNNNNSNNNPGNSNSHDDK 674
N++ N T +NN ++ P+ N+N N ++N NSN++ ++
Sbjct: 311 NTNAN-KTNTNTNTNTNNTNTST-PSKNTNTNTNSNTNTNSNTNANQ 355
Score = 35.9 bits (82), Expect = 0.10
Identities = 25/120 (20%), Positives = 41/120 (34%), Gaps = 19/120 (15%)
Query: 551 TDPDVWPPANDTDPSLYQLHTPKPQQTKTFSKTRKSSIPNKSTPQSNNSTLKRGNKTPAN 610
P V N + + T QQT + T + + +N + T N
Sbjct: 267 AAPVVKENTNTNTATTEKKETTTQQQTAPKAPTEAAKPAPAPSTNTNANKTNTNTNTNTN 326
Query: 611 NKKEPNLGYKSVTYDKVLKNSSDNENVKNKTKSNNAQGNSNPTNNSNNNNSNNNPGNSNS 670
N ++ + KN + N+ N+N N+N +SNNN +S S
Sbjct: 327 N-------------------TNTSTPSKNTNTNTNSNTNTNSNTNANQGSSNNNSNSSAS 367
>gnl|CDD|223542 COG0466, Lon, ATP-dependent Lon protease, bacterial type
[Posttranslational modification, protein turnover,
chaperones].
Length = 782
Score = 36.4 bits (85), Expect = 0.079
Identities = 15/31 (48%), Positives = 19/31 (61%), Gaps = 2/31 (6%)
Query: 743 KGVLM--VGPPGTGKTMLAKAVATECGTTFF 771
KG ++ VGPPG GKT L K++A G F
Sbjct: 349 KGPILCLVGPPGVGKTSLGKSIAKALGRKFV 379
>gnl|CDD|240427 PTZ00470, PTZ00470, glycoside hydrolase family 47 protein;
Provisional.
Length = 522
Score = 36.2 bits (84), Expect = 0.085
Identities = 13/42 (30%), Positives = 17/42 (40%)
Query: 634 NENVKNKTKSNNAQGNSNPTNNSNNNNSNNNPGNSNSHDDKP 675
N +N +N NN+N NSNN N N+ K
Sbjct: 3 NLREHLSVHNNADDNYNNNNNNNNQINSNNPNNNGNNQASKL 44
Score = 30.8 bits (70), Expect = 3.5
Identities = 11/46 (23%), Positives = 23/46 (50%), Gaps = 3/46 (6%)
Query: 634 NENVKNKTKSNNAQGNSNPTNNSNNNNSNNNPGNSNSHDDKPVMQE 679
N N++ +N N++ N+NNNN+N N+ +++ +
Sbjct: 1 NVNLREHLSVHN---NADDNYNNNNNNNNQINSNNPNNNGNNQASK 43
Score = 30.8 bits (70), Expect = 3.8
Identities = 13/50 (26%), Positives = 21/50 (42%), Gaps = 1/50 (2%)
Query: 626 KVLKNSSDNENVKNKTKSNNAQGNSNPTNNSNNNNSNNNPGNSNSHDDKP 675
L+ N + +NN N+N N++N NN+ NN + K
Sbjct: 2 VNLREHLSVHNNADDNYNNN-NNNNNQINSNNPNNNGNNQASKLPRGKKK 50
>gnl|CDD|223616 COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ
chaperones [Posttranslational modification, protein
turnover, chaperones].
Length = 786
Score = 36.1 bits (84), Expect = 0.091
Identities = 20/78 (25%), Positives = 36/78 (46%), Gaps = 12/78 (15%)
Query: 748 VGPPGTGKTMLAKAVATEC----------GTTFFNVCSSTL--TSKYRGESEKLVRLLFE 795
VG PG GKT + + +A +++ +L +KYRGE E+ ++ + +
Sbjct: 197 VGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGSLVAGAKYRGEFEERLKAVLK 256
Query: 796 MARFYAPSTIFIDEIDSL 813
+FIDEI ++
Sbjct: 257 EVEKSKNVILFIDEIHTI 274
Score = 31.1 bits (71), Expect = 2.9
Identities = 14/25 (56%), Positives = 16/25 (64%)
Query: 739 RRPWKGVLMVGPPGTGKTMLAKAVA 763
RP L +GP G GKT LAKA+A
Sbjct: 518 NRPIGSFLFLGPTGVGKTELAKALA 542
>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 = 34.5 bits (80), Expect = 0.091
Identities = 9/28 (32%), Positives = 18/28 (64%)
Query: 745 VLMVGPPGTGKTMLAKAVATECGTTFFN 772
++++G G+GK+ + KA+A G F +
Sbjct: 2 IVVMGVSGSGKSTVGKALAERLGAPFID 29
>gnl|CDD|236828 PRK11034, clpA, ATP-dependent Clp protease ATP-binding subunit;
Provisional.
Length = 758
Score = 36.0 bits (83), Expect = 0.094
Identities = 26/87 (29%), Positives = 40/87 (45%), Gaps = 12/87 (13%)
Query: 739 RRPWKGVLMVGPPGTGKTMLAKAVA------------TECGTTFFNVCSSTLTSKYRGES 786
RR L+VG G GKT +A+ +A +C ++ S +KYRG+
Sbjct: 204 RRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDF 263
Query: 787 EKLVRLLFEMARFYAPSTIFIDEIDSL 813
EK + L + S +FIDEI ++
Sbjct: 264 EKRFKALLKQLEQDTNSILFIDEIHTI 290
>gnl|CDD|221983 pfam13207, AAA_17, AAA domain.
Length = 114
Score = 33.4 bits (76), Expect = 0.11
Identities = 21/89 (23%), Positives = 33/89 (37%), Gaps = 4/89 (4%)
Query: 745 VLMVGPPGTGKTMLAKAVATECGTTFFN----VCSSTLTSKYRGESEKLVRLLFEMARFY 800
+L+ GPPG+GK+ LAK +A + G + + L GE + + L +
Sbjct: 2 ILITGPPGSGKSTLAKKLAEKLGIPVISLDDLLREEGLAELDDGELDDIDIDLELLEEIL 61
Query: 801 APSTIFIDEIDSLCSRRGSESEHEASRRV 829
ID + EA V
Sbjct: 62 DELAKQEWVIDGVRESTLELRLEEADLVV 90
>gnl|CDD|222163 pfam13479, AAA_24, AAA domain. This AAA domain is found in a wide
variety of presumed phage proteins.
Length = 201
Score = 34.6 bits (80), Expect = 0.12
Identities = 27/85 (31%), Positives = 36/85 (42%), Gaps = 16/85 (18%)
Query: 739 RRPWKGVLMVGPPGTGKTMLAKAVATECGTT-FFNVCSSTLTSKYRGES---------EK 788
+ K VL+ GPPG GKT LAK T T F ++ + T RG++
Sbjct: 1 TKNIK-VLIYGPPGIGKTSLAK---TLPPKTLFLDLDAGTTKVLSRGDNVDIRSWQDLRD 56
Query: 789 LVRLLFEMARFYAPSTIFIDEIDSL 813
+ L E Y T+ ID I L
Sbjct: 57 FLDELAEDLAEY--DTLVIDTITKL 79
>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 = 35.0 bits (81), Expect = 0.14
Identities = 13/24 (54%), Positives = 16/24 (66%)
Query: 745 VLMVGPPGTGKTMLAKAVATECGT 768
+L+ GPPG GKT LA +A E G
Sbjct: 33 LLLYGPPGLGKTTLAHIIANEMGV 56
>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 = 35.2 bits (81), Expect = 0.14
Identities = 13/21 (61%), Positives = 18/21 (85%)
Query: 743 KGVLMVGPPGTGKTMLAKAVA 763
+ VL++G PG GK+MLAKA+A
Sbjct: 38 RNVLLIGEPGVGKSMLAKAMA 58
>gnl|CDD|224292 COG1373, COG1373, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 398
Score = 34.7 bits (80), Expect = 0.21
Identities = 20/89 (22%), Positives = 34/89 (38%), Gaps = 8/89 (8%)
Query: 728 PMWMPEFFKGIRRPWKGVLMVGPPGTGKTMLAKAVATECG---TTFFNVCSSTLTSKYRG 784
+P K + +L++GP GKT L K + + + N L
Sbjct: 23 RKLLPRLIKKLDLRPFIILILGPRQVGKTTLLKLLI-KGLLEEIIYINFDDLRLDRIELL 81
Query: 785 ESEKLVRLLFEMARFYAPSTIFIDEIDSL 813
+ + L E + Y IF+DEI ++
Sbjct: 82 DLLRAYIELKEREKSY----IFLDEIQNV 106
>gnl|CDD|224160 COG1239, ChlI, Mg-chelatase subunit ChlI [Coenzyme metabolism].
Length = 423
Score = 34.7 bits (80), Expect = 0.22
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 743 KGVLMVGPPGTGKTMLAKAVAT 764
G L+ G GT K+ LA+A+A
Sbjct: 39 GGALIAGEKGTAKSTLARALAD 60
>gnl|CDD|222194 pfam13521, AAA_28, AAA domain.
Length = 162
Score = 32.9 bits (76), Expect = 0.29
Identities = 10/27 (37%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 745 VLMVGPPGTGKTMLAKAVATECGTTFF 771
+++ G P TGKT L +A+A G
Sbjct: 2 IVITGGPSTGKTTLLEALA-ARGYPVV 27
>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 = 34.0 bits (78), Expect = 0.35
Identities = 11/16 (68%), Positives = 14/16 (87%)
Query: 745 VLMVGPPGTGKTMLAK 760
+L+ GPPG+GKTMLA
Sbjct: 214 LLLFGPPGSGKTMLAS 229
>gnl|CDD|184311 PRK13764, PRK13764, ATPase; Provisional.
Length = 602
Score = 34.0 bits (79), Expect = 0.35
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 744 GVLMVGPPGTGKTMLAKAVAT 764
G+L+ G PG GK+ A+A+A
Sbjct: 259 GILIAGAPGAGKSTFAQALAE 279
>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 = 32.6 bits (74), Expect = 0.36
Identities = 11/39 (28%), Positives = 15/39 (38%)
Query: 745 VLMVGPPGTGKTMLAKAVATECGTTFFNVCSSTLTSKYR 783
VL+ GP GTGKT L + + + Y
Sbjct: 27 VLLTGPSGTGKTSLLRELLEGLLVAAGKCDQAERNPPYA 65
>gnl|CDD|233959 TIGR02639, ClpA, ATP-dependent Clp protease ATP-binding subunit
clpA. [Protein fate, Degradation of proteins, peptides,
and glycopeptides].
Length = 730
Score = 33.8 bits (78), Expect = 0.40
Identities = 27/86 (31%), Positives = 42/86 (48%), Gaps = 16/86 (18%)
Query: 739 RRPWKGVLMVGPPGTGKTMLAKAVATEC----------GTTFFNVCSSTLT--SKYRGES 786
RR L+VG PG GKT + + +A +++ TL +KYRG+
Sbjct: 199 RRKKNNPLLVGEPGVGKTAIVEGLALRIAEGKVPERLKNAKIYSLDMGTLLAGTKYRGDF 258
Query: 787 EK-LVRLLFEMARFYAPSTI-FIDEI 810
E+ L ++ E+ + P+ I FIDEI
Sbjct: 259 EERLKAVVSEIEKE--PNAILFIDEI 282
Score = 33.5 bits (77), Expect = 0.65
Identities = 18/39 (46%), Positives = 20/39 (51%), Gaps = 3/39 (7%)
Query: 735 FKGIRRPWKGV---LMVGPPGTGKTMLAKAVATECGTTF 770
G+ P K V L VGP G GKT LAK +A E G
Sbjct: 473 RAGLGDPNKPVGSFLFVGPTGVGKTELAKQLAEELGVHL 511
>gnl|CDD|222866 PHA02544, 44, clamp loader, small subunit; Provisional.
Length = 316
Score = 33.4 bits (77), Expect = 0.44
Identities = 21/56 (37%), Positives = 27/56 (48%), Gaps = 7/56 (12%)
Query: 723 EAVVLPMWMPEFFKGIRRPWKG-----VLMVGPPGTGKTMLAKAVATECGTTFFNV 773
+ +LP E FK I + KG +L PGTGKT +AKA+ E G V
Sbjct: 21 DECILPAADKETFKSIVK--KGRIPNMLLHSPSPGTGKTTVAKALCNEVGAEVLFV 74
>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 = 32.6 bits (75), Expect = 0.48
Identities = 11/22 (50%), Positives = 16/22 (72%)
Query: 744 GVLMVGPPGTGKTMLAKAVATE 765
+L++GPPG GKT LA A+ +
Sbjct: 49 NLLLLGPPGVGKTHLACALGHQ 70
>gnl|CDD|182120 PRK09862, PRK09862, putative ATP-dependent protease; Provisional.
Length = 506
Score = 33.4 bits (76), Expect = 0.48
Identities = 12/15 (80%), Positives = 15/15 (100%)
Query: 745 VLMVGPPGTGKTMLA 759
+L++GPPGTGKTMLA
Sbjct: 213 LLLIGPPGTGKTMLA 227
>gnl|CDD|182730 PRK10787, PRK10787, DNA-binding ATP-dependent protease La;
Provisional.
Length = 784
Score = 33.8 bits (77), Expect = 0.53
Identities = 22/77 (28%), Positives = 40/77 (51%), Gaps = 8/77 (10%)
Query: 747 MVGPPGTGKTMLAKAVATECGTTFFNVCSSTL--TSKYRGESEKLV-----RLLFEMARF 799
+VGPPG GKT L +++A G + + + ++ RG + +L+ +MA+
Sbjct: 354 LVGPPGVGKTSLGQSIAKATGRKYVRMALGGVRDEAEIRGHRRTYIGSMPGKLIQKMAKV 413
Query: 800 YAPSTIF-IDEIDSLCS 815
+ +F +DEID + S
Sbjct: 414 GVKNPLFLLDEIDKMSS 430
>gnl|CDD|224401 COG1484, DnaC, DNA replication protein [DNA replication,
recombination, and repair].
Length = 254
Score = 32.8 bits (75), Expect = 0.55
Identities = 28/128 (21%), Positives = 45/128 (35%), Gaps = 29/128 (22%)
Query: 718 KRLLEEAVVLPMWMPEFFKGIRRPWKGVLMVGPPGTGKTMLAKAVATEC-----GTTFFN 772
K+ LE+ L + + ++++GPPG GKT LA A+ E F
Sbjct: 89 KKALEDLASLVEFFERG--------ENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFIT 140
Query: 773 VCSSTLT--SKYRGESEKLVRLLFEMARFYAPSTIFIDEIDSLCSRRGSESEHEASRRVK 830
L+ E +LL E+ + + ID+I G E S+
Sbjct: 141 A-PDLLSKLKAAFDEGRLEEKLLRELKKV---DLLIIDDI-------GYEPF---SQEEA 186
Query: 831 SELLVQMD 838
L +
Sbjct: 187 DLLFQLIS 194
>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 = 32.6 bits (75), Expect = 0.56
Identities = 14/26 (53%), Positives = 17/26 (65%), Gaps = 1/26 (3%)
Query: 740 RPWKGVLMVGPPGTGKTMLAKAVATE 765
RP VL+ G PG GKT LA+A+ E
Sbjct: 11 RP-VAVLLGGQPGAGKTELARALLEE 35
>gnl|CDD|224768 COG1855, COG1855, ATPase (PilT family) [General function prediction
only].
Length = 604
Score = 33.5 bits (77), Expect = 0.59
Identities = 10/22 (45%), Positives = 16/22 (72%)
Query: 743 KGVLMVGPPGTGKTMLAKAVAT 764
+G+L+ G PG GK+ A+A+A
Sbjct: 264 EGILIAGAPGAGKSTFAQALAE 285
>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 = 33.2 bits (76), Expect = 0.59
Identities = 21/57 (36%), Positives = 32/57 (56%), Gaps = 2/57 (3%)
Query: 743 KGVLMVGPPGTGKTMLAKAVATECGTTFFNVCSSTLTS-KYRG-ESEKLVRLLFEMA 797
K +LM+GP G GKT +A+ +A F V ++ T Y G + E +VR L ++A
Sbjct: 48 KNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGRDVESMVRDLVDIA 104
>gnl|CDD|233087 TIGR00678, holB, DNA polymerase III, delta' subunit. This model
describes the N-terminal half of the delta' subunit of
DNA polymerase III. Delta' is homologous to the gamma
and tau subunits, which form an outgroup for
phylogenetic comparison. The gamma/tau branch of the
tree is much more tighly conserved than the delta'
branch, and some members of that branch score more
highly against this model than some proteins
classisified as delta'. The noise cutoff is set to
detect weakly scoring delta' subunits rather than to
exclude gamma/tau subunits. At position 126-127 of the
seed alignment, this family lacks the HM motif of
gamma/tau; at 132 it has a near-invariant A vs. an
invariant F in gamma/tau [DNA metabolism, DNA
replication, recombination, and repair].
Length = 188
Score = 32.2 bits (74), Expect = 0.63
Identities = 22/91 (24%), Positives = 33/91 (36%), Gaps = 16/91 (17%)
Query: 746 LMVGPPGTGKTMLAKAVATECGTTFFNVCSSTLTSKYRGESEKLVRL-------LFEMAR 798
L GP G GK +LA A+A C + GE + L +
Sbjct: 18 LFAGPEGVGKELLALALA----KALL--CEQPGGGEPCGECPSCRLIEAGNHPDLHRLEP 71
Query: 799 FYAPSTIFIDEIDSLCSRRGSESEHEASRRV 829
+I +D++ L S + E+ RRV
Sbjct: 72 EGQ--SIKVDQVRELV-EFLSRTPQESGRRV 99
>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 = 31.9 bits (73), Expect = 0.65
Identities = 26/97 (26%), Positives = 36/97 (37%), Gaps = 16/97 (16%)
Query: 745 VLMVGPPGTGKTML----AKAVATECGTTFFNVCSSTLTS--------KYRGESEKLVRL 792
L+ G PGTGK+ L A AVAT G F G +L L
Sbjct: 36 TLLAGAPGTGKSTLALDLAAAVAT--GRPFLGPFPVEPGRVLYLDGEDSEAGLRRRLRAL 93
Query: 793 LFEMARFYAPSTIFIDEIDSLCSRRGSESEHEASRRV 829
+ P + ID + SL G E+++ A +
Sbjct: 94 GEALEEIEGPDLVVIDPLASLLG--GDENDNAAVGAL 128
>gnl|CDD|223637 COG0563, Adk, Adenylate kinase and related kinases [Nucleotide
transport and metabolism].
Length = 178
Score = 32.2 bits (74), Expect = 0.66
Identities = 12/25 (48%), Positives = 18/25 (72%)
Query: 743 KGVLMVGPPGTGKTMLAKAVATECG 767
+L++GPPG GK+ LAK +A + G
Sbjct: 1 MRILILGPPGAGKSTLAKKLAKKLG 25
>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 = 31.1 bits (71), Expect = 0.69
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 745 VLMVGPPGTGKTMLAKAVATE 765
+ + GPPG GK+ LAK +A
Sbjct: 1 IWLYGPPGCGKSTLAKYLARA 21
>gnl|CDD|224141 COG1220, HslU, ATP-dependent protease HslVU (ClpYQ), ATPase subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 444
Score = 33.0 bits (76), Expect = 0.71
Identities = 22/57 (38%), Positives = 33/57 (57%), Gaps = 2/57 (3%)
Query: 743 KGVLMVGPPGTGKTMLAKAVATECGTTFFNVCSSTLTS-KYRG-ESEKLVRLLFEMA 797
K +LM+GP G GKT +A+ +A G F V ++ T Y G + E ++R L E+A
Sbjct: 51 KNILMIGPTGVGKTEIARRLAKLAGAPFIKVEATKFTEVGYVGRDVESIIRDLVEIA 107
Score = 29.5 bits (67), Expect = 7.5
Identities = 13/31 (41%), Positives = 18/31 (58%), Gaps = 2/31 (6%)
Query: 805 IFIDEIDSLCSRRGSESEHEASRR-VKSELL 834
+FIDEID + RG + SR V+ +LL
Sbjct: 254 VFIDEIDKIAK-RGGSGGPDVSREGVQRDLL 283
>gnl|CDD|236153 PRK08116, PRK08116, hypothetical protein; Validated.
Length = 268
Score = 32.7 bits (75), Expect = 0.74
Identities = 12/22 (54%), Positives = 15/22 (68%)
Query: 744 GVLMVGPPGTGKTMLAKAVATE 765
G+L+ G GTGKT LA +A E
Sbjct: 116 GLLLWGSVGTGKTYLAACIANE 137
>gnl|CDD|222005 pfam13245, AAA_19, Part of AAA domain.
Length = 73
Score = 30.0 bits (68), Expect = 0.82
Identities = 10/24 (41%), Positives = 13/24 (54%), Gaps = 1/24 (4%)
Query: 744 GVLMV-GPPGTGKTMLAKAVATEC 766
+ +V G PGTGKT A A+
Sbjct: 11 SLFVVDGGPGTGKTATAAAIIARL 34
>gnl|CDD|234229 TIGR03490, Mycoplas_LppA, mycoides cluster lipoprotein, LppA/P72
family. Members of this protein family occur in
Mycoplasma mycoides, Mycoplasma hyopneumoniae, and
related Mycoplasmas in small paralogous families that
may also include truncated forms and/or pseudogenes.
Members are predicted lipoproteins with a conserved
signal peptidase II processing and lipid attachment
site. Note that the name for certain characterized
members, p72, reflects an anomalous apparent molecular
weight, given a theoretical MW of about 61 kDa.
Length = 541
Score = 32.9 bits (75), Expect = 0.83
Identities = 17/97 (17%), Positives = 26/97 (26%), Gaps = 1/97 (1%)
Query: 579 TFSKTRKSSIPNKSTPQSNNSTLKRGNKTPANNKKEPNLGYKSVTYDKVLKNSSDNENVK 638
S S+ + S +K TP KK N +K + D EN
Sbjct: 18 FLSVVSCSTTSSNSKQPEKKPEIKPNENTPKIPKKPDNKEPSENNNNKSNNENKDEENPS 77
Query: 639 NKTKSNNAQGNSNPTNNSNNNNSNNNPGNSNSHDDKP 675
+ + N + P D+P
Sbjct: 78 STNPEKKPDPSKNKEEIEKPKDEPKKPDK-KPQADQP 113
>gnl|CDD|219845 pfam08448, PAS_4, PAS fold. The PAS fold corresponds to the
structural domain that has previously been defined as
PAS and PAC motifs. The PAS fold appears in archaea,
eubacteria and eukarya.
Length = 110
Score = 30.8 bits (70), Expect = 0.92
Identities = 21/88 (23%), Positives = 34/88 (38%), Gaps = 10/88 (11%)
Query: 286 RKIIGLTPEQIRQIPKEELDLPVSQRDFEEALARCNKSVAREDLENITVERIAPHMSTIG 345
++ GL PE++ EL P E AL R LE + G
Sbjct: 25 AELFGLPPEELLGKTLAELLPPEDAARLERALRRA--------LEGEEPIDFLEELLLNG 76
Query: 346 KKLYLKFQKTPIVTLATGPVGL--ISRD 371
++ + + + TP+ +G+ ISRD
Sbjct: 77 EERHYELRLTPLRDPDGEVIGVLVISRD 104
>gnl|CDD|183630 PRK12623, flgB, flagellar basal body rod protein FlgB; Provisional.
Length = 131
Score = 31.3 bits (71), Expect = 0.93
Identities = 25/93 (26%), Positives = 37/93 (39%), Gaps = 14/93 (15%)
Query: 588 IPNKSTPQSNNSTLKRG-------NKTPANNKKEPNL-GYKS--VTYDKVLKNSSDNENV 637
I + S+ Q LK+G K +NN N GYK VT+++ LKN+ DN +
Sbjct: 3 IESISSDQLVYDLLKKGLDASSYRGKVISNNIANVNTKGYKRHYVTFEENLKNNLDNLEL 62
Query: 638 KNKTKSNNAQGNSN---PTNNSNNNNSNNNPGN 667
K T + + + S GN
Sbjct: 63 K-TTNEKHINDGVEFGQIKEKVDESTSMRTDGN 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 = 32.0 bits (74), Expect = 0.93
Identities = 12/19 (63%), Positives = 13/19 (68%)
Query: 745 VLMVGPPGTGKTMLAKAVA 763
V +GP GTGKT LA A A
Sbjct: 22 VFGIGPAGTGKTYLAVAAA 40
>gnl|CDD|240339 PTZ00265, PTZ00265, multidrug resistance protein (mdr1);
Provisional.
Length = 1466
Score = 32.7 bits (74), Expect = 0.96
Identities = 24/105 (22%), Positives = 40/105 (38%), Gaps = 20/105 (19%)
Query: 590 NKSTPQSNNSTLKRGNKTPANNKKEPNLGY--KSVTYDKVLKN----------------- 630
NK NN N NNK Y + T+D ++KN
Sbjct: 674 NKENNNKNNKDDNNNNNNNNNNKINNAGSYIIEQGTHDALMKNKNGIYYTMINNQKVSSK 733
Query: 631 -SSDNENVKNKTKSNNAQGNSNPTNNSNNNNSNNNPGNSNSHDDK 674
SS+N+N K+ ++A +S + + N N+ N ++ + K
Sbjct: 734 KSSNNDNDKDSDMKSSAYKDSERGYDPDEMNGNSKHENESASNKK 778
>gnl|CDD|218719 pfam05729, NACHT, NACHT domain. This NTPase domain is found in
apoptosis proteins as well as those involved in MHC
transcription activation. This family is closely related
to pfam00931.
Length = 165
Score = 31.5 bits (72), Expect = 0.96
Identities = 8/20 (40%), Positives = 13/20 (65%)
Query: 745 VLMVGPPGTGKTMLAKAVAT 764
V++ G G+GKT L + +A
Sbjct: 3 VILQGEAGSGKTTLLQKIAL 22
>gnl|CDD|201353 pfam00625, Guanylate_kin, Guanylate kinase.
Length = 183
Score = 31.6 bits (72), Expect = 0.98
Identities = 16/50 (32%), Positives = 23/50 (46%), Gaps = 3/50 (6%)
Query: 738 IRRPWKGVLMVGPPGTGKTMLAKAVATECGTTFFNVCSSTLTSKYRGESE 787
RRP +++ GP G GK+ + KA+ E F S T GE +
Sbjct: 1 QRRP---IVLSGPSGVGKSHIKKALLDEYPEKFGYSVSHTTRPPRPGEVD 47
>gnl|CDD|225821 COG3283, TyrR, Transcriptional regulator of aromatic amino acids
metabolism [Transcription / Amino acid transport and
metabolism].
Length = 511
Score = 32.4 bits (74), Expect = 0.99
Identities = 29/112 (25%), Positives = 39/112 (34%), Gaps = 33/112 (29%)
Query: 746 LMVGPPGTGKTMLAKA------------VATECGTTFFNVCSSTLTSKYRGESEKLVRLL 793
L+ G GTGK +LAKA +A C + + S L G+ K
Sbjct: 231 LITGETGTGKDLLAKACHLASPRHSKPFLALNCASLPEDAAESELFGHAPGDEGKKG--F 288
Query: 794 FEMARFYAPSTIFIDEIDSL---------------CSRR-GSESEHEASRRV 829
FE A T+ +DEI + RR G + E RV
Sbjct: 289 FEQA---NGGTVLLDEIGEMSPRLQAKLLRFLNDGTFRRVGEDHEVHVDVRV 337
>gnl|CDD|183452 PRK12337, PRK12337, 2-phosphoglycerate kinase; Provisional.
Length = 475
Score = 32.4 bits (74), Expect = 1.1
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 733 EFFKGIRRPWKG--VLMVGPPGTGKTMLAKAVATECGTT 769
+ IRRP + VL+ G G GK++LA A+A G T
Sbjct: 244 RLLRSIRRPPRPLHVLIGGVSGVGKSVLASALAYRLGIT 282
>gnl|CDD|204202 pfam09336, Vps4_C, Vps4 C terminal oligomerisation domain. This
domain is found at the C terminal of ATPase proteins
involved in vacuolar sorting. It forms an alpha helix
structure and is required for oligomerisation.
Length = 62
Score = 29.1 bits (66), Expect = 1.1
Identities = 12/34 (35%), Positives = 23/34 (67%), Gaps = 1/34 (2%)
Query: 298 QIPKEELDLP-VSQRDFEEALARCNKSVAREDLE 330
I +++L P ++ +DF +ALA +V+++DLE
Sbjct: 19 DIEEDKLLEPPLTMKDFIKALATTKPTVSKDDLE 52
>gnl|CDD|224043 COG1118, CysA, ABC-type sulfate/molybdate transport systems, ATPase
component [Inorganic ion transport and metabolism].
Length = 345
Score = 32.3 bits (74), Expect = 1.1
Identities = 29/101 (28%), Positives = 42/101 (41%), Gaps = 8/101 (7%)
Query: 749 GPPGTGKTMLAKAVA----TECGTTFFNVCSSTLTSKYRGESEKLVRLLFEMARFYAPST 804
GP G GK+ L + +A + G N S K V +F+ + T
Sbjct: 35 GPSGAGKSTLLRIIAGLETPDAGRIRLNGRVLFDVSNLAVRDRK-VGFVFQHYALFPHMT 93
Query: 805 IFIDEID-SLCSRRGSESEHEASRRVKSEL-LVQMDGLSSA 843
+ D I L R+ SE E RV+ L LVQ++GL+
Sbjct: 94 VA-DNIAFGLKVRKERPSEAEIRARVEELLRLVQLEGLADR 133
>gnl|CDD|163542 TIGR03830, CxxCG_CxxCG_HTH, putative zinc finger/helix-turn-helix
protein, YgiT family. This model describes a family of
predicted regulatory proteins with a conserved zinc
finger/HTH architecture. The amino-terminal region
contains a novel domain, featuring two CXXC motifs and
occuring in a number of small bacterial proteins as well
as in the present family. The carboxyl-terminal region
consists of a helix-turn-helix domain, modeled by
pfam01381. The predicted function is DNA binding and
transcriptional regulation.
Length = 127
Score = 30.7 bits (70), Expect = 1.1
Identities = 17/41 (41%), Positives = 26/41 (63%), Gaps = 4/41 (9%)
Query: 278 DASMMSMRRKIIG-LTPEQIRQIPKEELDLPVSQRDFEEAL 317
A++ RK+ G LTP +IR+I +++L L SQR+ E L
Sbjct: 51 SAALADFYRKVDGLLTPPEIRRI-RKKLGL--SQREAAELL 88
>gnl|CDD|237354 PRK13341, PRK13341, recombination factor protein RarA/unknown
domain fusion protein; Reviewed.
Length = 725
Score = 32.3 bits (74), Expect = 1.1
Identities = 22/69 (31%), Positives = 33/69 (47%), Gaps = 16/69 (23%)
Query: 749 GPPGTGKTMLAKAVATECGTT--FFNVCSSTLTSKYRGESEKLVRLLFEMAR----FYAP 802
GPPG GKT LA+ +A T F+ ++ L G + +R + A+ +
Sbjct: 59 GPPGVGKTTLARIIA---NHTRAHFSSLNAVLA----GVKD--LRAEVDRAKERLERHGK 109
Query: 803 STI-FIDEI 810
TI FIDE+
Sbjct: 110 RTILFIDEV 118
>gnl|CDD|220296 pfam09580, Spore_YhcN_YlaJ, Sporulation lipoprotein YhcN/YlaJ
(Spore_YhcN_YlaJ). This entry contains YhcN and YlaJ,
which are predicted lipoproteins that have been detected
as spore proteins but not vegetative proteins in
Bacillus subtilis. Both appear to be expressed under
control of the RNA polymerase sigma-G factor. The
YlaJ-like members of this family have a low-complexity,
strongly acidic, 40-residue C-terminal domain.
Length = 169
Score = 31.2 bits (71), Expect = 1.2
Identities = 19/77 (24%), Positives = 33/77 (42%), Gaps = 8/77 (10%)
Query: 630 NSSDNENVKNKTKSNNAQGNSNPTNNSNNNNSNNNPGNSNSHDDKPVMQERRFESYGCDN 689
N++D++N +N T ++ N N NN NNNN +N + R
Sbjct: 13 NAADDDNRQNVTDNDGNTNNVNNRNNRNNNNGYGRLTKNNVTGENGYNNIER-------G 65
Query: 690 DLVEMLERDMVQKNPNI 706
++ + + R V K P +
Sbjct: 66 EVADKIAR-RVAKLPEV 81
>gnl|CDD|227478 COG5149, TOA1, Transcription initiation factor IIA, large chain
[Transcription].
Length = 293
Score = 32.0 bits (72), Expect = 1.3
Identities = 14/89 (15%), Positives = 30/89 (33%), Gaps = 4/89 (4%)
Query: 596 SNNSTLKRGNKTPANNKKEPNLGYKSVTYDKVLKNSSDNENVKNKTKSNNAQGNSNPTNN 655
S + T +P N+ N+ + S + N N + S+ Q +P N
Sbjct: 72 SLDVTAPAVANSPILNQSATNISFDSS----AIPNVQSNNTAPFPSYSSTNQTADSPIIN 127
Query: 656 SNNNNSNNNPGNSNSHDDKPVMQERRFES 684
++ + G+ + + + E
Sbjct: 128 DHSTANLKIYGDIIAEVISLPNRLEQVED 156
>gnl|CDD|219500 pfam07655, Secretin_N_2, Secretin N-terminal domain. This is a
short domain found in bacterial type II/III secretory
system proteins. The architecture of these proteins
suggest that this family may be functionally analogous
to pfam03958.
Length = 95
Score = 30.0 bits (68), Expect = 1.3
Identities = 6/30 (20%), Positives = 20/30 (66%)
Query: 641 TKSNNAQGNSNPTNNSNNNNSNNNPGNSNS 670
+ S + +S+ +++ ++S+++ G+S+S
Sbjct: 27 SSSGSNSSSSSSNSSNGGSSSSSSSGDSSS 56
Score = 29.6 bits (67), Expect = 2.0
Identities = 4/28 (14%), Positives = 18/28 (64%)
Query: 643 SNNAQGNSNPTNNSNNNNSNNNPGNSNS 670
+++ NS+ ++++++N +++ +S
Sbjct: 26 VSSSGSNSSSSSSNSSNGGSSSSSSSGD 53
Score = 28.1 bits (63), Expect = 6.8
Identities = 7/28 (25%), Positives = 17/28 (60%)
Query: 647 QGNSNPTNNSNNNNSNNNPGNSNSHDDK 674
SN +++S+N+++ + +S+S D
Sbjct: 28 SSGSNSSSSSSNSSNGGSSSSSSSGDSS 55
Score = 28.1 bits (63), Expect = 7.0
Identities = 6/28 (21%), Positives = 20/28 (71%)
Query: 643 SNNAQGNSNPTNNSNNNNSNNNPGNSNS 670
S ++ G+++ +++SN++N ++ +S+
Sbjct: 25 SVSSSGSNSSSSSSNSSNGGSSSSSSSG 52
>gnl|CDD|224616 COG1702, PhoH, Phosphate starvation-inducible protein PhoH,
predicted ATPase [Signal transduction mechanisms].
Length = 348
Score = 31.9 bits (73), Expect = 1.4
Identities = 12/21 (57%), Positives = 14/21 (66%)
Query: 745 VLMVGPPGTGKTMLAKAVATE 765
V +GP GTGKT LA A A +
Sbjct: 146 VFGIGPAGTGKTYLAVAKAVD 166
>gnl|CDD|235153 PRK03731, aroL, shikimate kinase II; Reviewed.
Length = 171
Score = 30.7 bits (70), Expect = 1.7
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 745 VLMVGPPGTGKTMLAKAVATECGTTF 770
+ +VG G GKT + A+A G F
Sbjct: 5 LFLVGARGCGKTTVGMALAQALGYRF 30
>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 = 30.6 bits (70), Expect = 1.8
Identities = 8/25 (32%), Positives = 13/25 (52%)
Query: 747 MVGPPGTGKTMLAKAVATECGTTFF 771
++G G GKT + + +A G F
Sbjct: 4 LIGMMGAGKTTVGRLLAKALGLPFV 28
>gnl|CDD|185594 PTZ00395, PTZ00395, Sec24-related protein; Provisional.
Length = 1560
Score = 32.0 bits (72), Expect = 1.8
Identities = 19/62 (30%), Positives = 26/62 (41%), Gaps = 2/62 (3%)
Query: 616 NLGYKSVTYDKVLKNSSDNENVKNKTKSNNAQGNSNP--TNNSNNNNSNNNPGNSNSHDD 673
N Y Y ++++ N + GNSNP N N+N NNP NSN+
Sbjct: 386 NASYNCAAYSNAAQSNAAQSNAGFSNAGYSNPGNSNPGYNNAPNSNTPYNNPPNSNTPYS 445
Query: 674 KP 675
P
Sbjct: 446 NP 447
Score = 31.2 bits (70), Expect = 3.0
Identities = 26/135 (19%), Positives = 40/135 (29%), Gaps = 15/135 (11%)
Query: 534 FDSIFSSDANNSLEPWVTDPDVWPPANDTDPSLYQLHTPKPQQTKTFSKTRKSSIPNKST 593
+ S+A S + + P N+ ++ P S T S+ PN +
Sbjct: 399 QSNAAQSNAGFSNAGYSNPGNSNPGYNNAP------NSNTPYNNPPNSNTPYSNPPNSNP 452
Query: 594 PQSNNSTLKRGNKTPANNKKEPNLGYKSVTYDKVLKNSSDNENVKNKTKSNNAQGNSNPT 653
P SN P +N N + + S +N N
Sbjct: 453 PYSN---------LPYSNTPYSNAPLSNAPPSSAKDHHSAYHAAYQHRAANQPAANLPTA 503
Query: 654 NNSNNNNSNNNPGNS 668
N NN + GNS
Sbjct: 504 NQPAANNFHGAAGNS 518
Score = 30.8 bits (69), Expect = 3.9
Identities = 22/78 (28%), Positives = 33/78 (42%), Gaps = 9/78 (11%)
Query: 594 PQSNNSTLKRGNKTPANNKKEPNLGYKSVTYDKVLKNSSDNENVKNKTKSNNAQGNSNPT 653
P SN S N +N + N + + ++ N N NNA ++ P
Sbjct: 383 PHSNASY----NCAAYSNAAQSNAAQSNAGFSNAGYSNPGNSN----PGYNNAPNSNTPY 434
Query: 654 NNSNNNNSN-NNPGNSNS 670
NN N+N+ +NP NSN
Sbjct: 435 NNPPNSNTPYSNPPNSNP 452
>gnl|CDD|223775 COG0703, AroK, Shikimate kinase [Amino acid transport and
metabolism].
Length = 172
Score = 30.6 bits (70), Expect = 1.8
Identities = 7/25 (28%), Positives = 13/25 (52%)
Query: 747 MVGPPGTGKTMLAKAVATECGTTFF 771
++G G GK+ + +A+A F
Sbjct: 7 LIGFMGAGKSTIGRALAKALNLPFI 31
>gnl|CDD|132697 TIGR03658, IsdH_HarA, haptoglobin-binding heme uptake protein HarA.
HarA is a heme-binding NEAT-domain (NEAr Transporter,
pfam05031) protein which has been shown to bind to the
haptoglobin-hemoglobin complex in order to extract heme
from it. HarA has also been reported to bind hemoglobin
directly. HarA (also known as IsdH) contains three NEAT
domains as well as a sortase A C-terminal signal for
localization to the cell wall. The heme bound at the
third of these NEAT domains has been shown to be
transferred to the IsdA protein also localized at the
cell wall, presumably through an additional specific
protein-protein interaction. Haptoglobin is a hemoglobin
carrier protein involved in scavenging hemoglobin in the
blood following red blood cell lysis and targetting it
to the liver.
Length = 895
Score = 31.8 bits (71), Expect = 1.8
Identities = 27/111 (24%), Positives = 44/111 (39%), Gaps = 23/111 (20%)
Query: 563 DPSLYQLHTPKPQQTKTFSKTRKSSIPNKSTPQSNNSTLKRGNKTP--ANNKKEPNLGYK 620
DPSL + T T S + S+ N +T N ST+ N P N +P
Sbjct: 226 DPSLVKSDTNDAVVTNDQSSSDASNQTNTNTSNQNTSTINNANNQPQATTNMSQP----- 280
Query: 621 SVTYDKVLKNSSDNENVKNKTKSNNAQGNSNPTNNSNNNNSNNNPGNSNSH 671
+ K+ +N Q +S P + +N+N + N+ N +S+
Sbjct: 281 ----------------AQPKSSANADQASSQPAHETNSNGNTNDKTNESSN 315
>gnl|CDD|233355 TIGR01313, therm_gnt_kin, carbohydrate kinase, thermoresistant
glucokinase family. This model represents a subfamily
of proteins that includes thermoresistant and
thermosensitve isozymes of gluconate kinase
(gluconokinase) in E. coli and other related proteins;
members of this family are often named by similarity to
the thermostable isozyme. These proteins show homology
to shikimate kinases and adenylate kinases but not to
gluconate kinases from the FGGY family of carbohydrate
kinases.
Length = 163
Score = 30.8 bits (70), Expect = 1.8
Identities = 12/26 (46%), Positives = 16/26 (61%), Gaps = 1/26 (3%)
Query: 745 VLMVGPPGTGKTMLAKAVATECGTTF 770
VLM G G+GK+ +A A+A G F
Sbjct: 2 VLM-GVAGSGKSTIASALAHRLGAKF 26
>gnl|CDD|233208 TIGR00956, 3a01205, Pleiotropic Drug Resistance (PDR) Family
protein. [Transport and binding proteins, Other].
Length = 1394
Score = 32.0 bits (73), Expect = 1.9
Identities = 17/75 (22%), Positives = 36/75 (48%), Gaps = 9/75 (12%)
Query: 737 GIRRPWKGVLMVGPPGTGKTMLAKAVATECGTTFFNVCSSTLTSKYRGESEKLVRLLFEM 796
G+ +P + +++G PG+G + L K +A T F++ + + Y G + + E+
Sbjct: 82 GLIKPGELTVVLGRPGSGCSTLLKTIA--SNTDGFHIGVEGVIT-YDGITPE------EI 132
Query: 797 ARFYAPSTIFIDEID 811
+ Y ++ E D
Sbjct: 133 KKHYRGDVVYNAETD 147
>gnl|CDD|215758 pfam00158, Sigma54_activat, Sigma-54 interaction domain.
Length = 168
Score = 30.8 bits (71), Expect = 1.9
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 745 VLMVGPPGTGKTMLAKAV 762
VL+ G GTGK + A+A+
Sbjct: 25 VLITGESGTGKELFARAI 42
>gnl|CDD|216526 pfam01487, DHquinase_I, Type I 3-dehydroquinase. Type I
3-dehydroquinase, (3-dehydroquinate dehydratase or
DHQase.) catalyzes the cis-dehydration of
3-dehydroquinate via a covalent imine intermediate
giving dehydroshikimate. Dehydroquinase functions in the
shikimate pathway which is involved in the biosynthesis
of aromatic amino acids. Type II 3-dehydroquinase
catalyzes the trans-dehydration of 3-dehydroshikimate
see pfam01220.
Length = 222
Score = 31.0 bits (71), Expect = 2.1
Identities = 8/41 (19%), Positives = 17/41 (41%), Gaps = 9/41 (21%)
Query: 330 ENITVERIAPHMSTIGKKLYLKFQKTPIVTLATGPVGLISR 370
+ + + R + K P++ ++ G +G ISR
Sbjct: 157 DVLRLLRFTSEAKELDK---------PLIAISMGELGRISR 188
>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 = 31.5 bits (72), Expect = 2.1
Identities = 15/26 (57%), Positives = 18/26 (69%), Gaps = 2/26 (7%)
Query: 739 RRPWKGV-LMVGPPGTGKTMLAKAVA 763
R+P GV L+VGP G GKT A A+A
Sbjct: 593 RKP-LGVFLLVGPSGVGKTETALALA 617
>gnl|CDD|222000 pfam13238, AAA_18, AAA domain.
Length = 128
Score = 30.1 bits (68), Expect = 2.2
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 745 VLMVGPPGTGKTMLAKAVATECGTTFFNVC 774
+L+ G PG+GKT LAK +A G ++
Sbjct: 1 ILITGTPGSGKTTLAKELAERLGDVLRDLA 30
>gnl|CDD|226350 COG3829, RocR, Transcriptional regulator containing PAS, AAA-type
ATPase, and DNA-binding domains [Transcription / Signal
transduction mechanisms].
Length = 560
Score = 31.5 bits (72), Expect = 2.3
Identities = 25/85 (29%), Positives = 37/85 (43%), Gaps = 19/85 (22%)
Query: 745 VLMVGPPGTGKTMLAKA------------VATECGTTFFNVCSSTL--TSK--YRGESEK 788
VL++G GTGK + A+A +A C + S L K + G S+
Sbjct: 271 VLILGESGTGKELFARAIHNLSPRANGPFIAINCAAIPETLLESELFGYEKGAFTGASKG 330
Query: 789 LVRLLFEMARFYAPSTIFIDEIDSL 813
LFE+A T+F+DEI +
Sbjct: 331 GKPGLFELAN---GGTLFLDEIGEM 352
>gnl|CDD|223223 COG0145, HyuA, N-methylhydantoinase A/acetone carboxylase, beta
subunit [Amino acid transport and metabolism / Secondary
metabolites biosynthesis, transport, and catabolism].
Length = 674
Score = 31.6 bits (72), Expect = 2.3
Identities = 27/146 (18%), Positives = 51/146 (34%), Gaps = 21/146 (14%)
Query: 212 IPWDIDEALR--RRLEKRIYIPLPSKA--GREALLKIN----LKEVKVDPAVDLTHIASQ 263
+ D++ A LE I + + G L + +++V V+ D
Sbjct: 385 LKLDVELAREAFSELEADIGGLIGEEVASGFIRLANLEMAGAIRKVTVERGYDPRDF--T 442
Query: 264 LDGYSGADITNVCRDASMMSMRRKIIGLTP-------EQIRQIPKEELDLPVSQR---DF 313
L G+ GA + A + ++R II P + + EL V Q+
Sbjct: 443 LIGFGGAGPLHALGVAEELGIKRVIIPPYPGVFSAYGMLLADLR-SELSKSVKQKLAEAA 501
Query: 314 EEALARCNKSVAREDLENITVERIAP 339
E +A + + E +E + +
Sbjct: 502 LELIAFVFEMLEEEAIEELLASGFSE 527
>gnl|CDD|237150 PRK12608, PRK12608, transcription termination factor Rho;
Provisional.
Length = 380
Score = 31.2 bits (71), Expect = 2.4
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 746 LMVGPPGTGKTMLAKAVA 763
L+V PP GKT+L + +A
Sbjct: 137 LIVAPPRAGKTVLLQQIA 154
>gnl|CDD|214361 CHL00095, clpC, Clp protease ATP binding subunit.
Length = 821
Score = 31.6 bits (72), Expect = 2.4
Identities = 14/28 (50%), Positives = 15/28 (53%)
Query: 736 KGIRRPWKGVLMVGPPGTGKTMLAKAVA 763
K RP L GP G GKT L KA+A
Sbjct: 533 KNPNRPIASFLFSGPTGVGKTELTKALA 560
Score = 29.6 bits (67), Expect = 9.6
Identities = 22/87 (25%), Positives = 39/87 (44%), Gaps = 12/87 (13%)
Query: 739 RRPWKGVLMVGPPGTGKTMLAKAVA---TECGTTFFNVCSSTLT---------SKYRGES 786
RR +++G PG GKT +A+ +A +T +KYRGE
Sbjct: 197 RRTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLLLAGTKYRGEF 256
Query: 787 EKLVRLLFEMARFYAPSTIFIDEIDSL 813
E+ ++ +F+ + + IDE+ +L
Sbjct: 257 EERLKRIFDEIQENNNIILVIDEVHTL 283
>gnl|CDD|217835 pfam03999, MAP65_ASE1, Microtubule associated protein (MAP65/ASE1
family).
Length = 619
Score = 31.4 bits (71), Expect = 2.5
Identities = 19/115 (16%), Positives = 38/115 (33%), Gaps = 12/115 (10%)
Query: 568 QLHTPKPQQTKTFSKTRKSSIPNKSTPQSNNST-------LKRGNKTPANNKKEPNLGYK 620
+L + + +SS+P+ + + N+ LKR ++ +
Sbjct: 448 KLANKTSTVMEPPYGSTESSVPSTPSTRRNDRNITSNTPSLKRTPNLTKSSLSQEASLIS 507
Query: 621 SVT--YDKVLKNSSDNENVKNKTKSNNAQGNSNPTNNSNNNNSN---NNPGNSNS 670
T K K S +++GN + + N +S+ NS S
Sbjct: 508 KSTGNTHKHSTPRRLTTLPKLPAASRSSKGNLIRSGANGNASSDLSSPGSINSKS 562
>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 = 2.7
Identities = 21/97 (21%), Positives = 37/97 (38%), Gaps = 22/97 (22%)
Query: 745 VLMVGPPGTGKTMLAKAVATE-------CGTTFFNV--------CSSTLTSKYRGESE-- 787
+++ GP GTGKT K V E + N S + +K
Sbjct: 45 IIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNKLGKVPLTG 104
Query: 788 ----KLVRLLFEMARFYAPSTIFI-DEIDSLCSRRGS 819
++++ L++ + I I DE+D+L + G
Sbjct: 105 DSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGE 141
>gnl|CDD|238978 cd02020, CMPK, Cytidine monophosphate kinase (CMPK) catalyzes the
reversible phosphorylation of cytidine monophosphate
(CMP) to produce cytidine diphosphate (CDP), using ATP
as the preferred phosphoryl donor.
Length = 147
Score = 30.1 bits (69), Expect = 2.7
Identities = 9/24 (37%), Positives = 16/24 (66%)
Query: 749 GPPGTGKTMLAKAVATECGTTFFN 772
GP G+GK+ +AK +A + G + +
Sbjct: 6 GPAGSGKSTVAKLLAKKLGLPYLD 29
>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 = 31.1 bits (71), Expect = 2.7
Identities = 26/102 (25%), Positives = 34/102 (33%), Gaps = 32/102 (31%)
Query: 745 VLMVGPPGTGKTMLAKAVATE-----------CGTTFFNVC--SSTLTS----------- 780
V + G GTGKT + K V E T + N C TL
Sbjct: 43 VFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVN-CQILDTLYQVLVELANQLRG 101
Query: 781 -----KYRGES-EKLVRLLF-EMARFYAPSTIFIDEIDSLCS 815
G S ++ R L+ E+ I +DEID L
Sbjct: 102 SGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVG 143
>gnl|CDD|223989 COG1061, SSL2, DNA or RNA helicases of superfamily II
[Transcription / DNA replication, recombination, and
repair].
Length = 442
Score = 31.3 bits (71), Expect = 2.8
Identities = 12/42 (28%), Positives = 18/42 (42%), Gaps = 1/42 (2%)
Query: 733 EFFKGIRRPWKGVLMVGPPGTGKTMLAKAVATECGTTFFNVC 774
K R +GV+ V P G GKT++A E + +
Sbjct: 47 ALVKNRRTERRGVI-VLPTGAGKTVVAAEAIAELKRSTLVLV 87
>gnl|CDD|214940 smart00962, SRP54, SRP54-type protein, GTPase domain. This entry
represents the GTPase domain of the 54 kDa SRP54
component, a GTP-binding protein that interacts with the
signal sequence when it emerges from the ribosome. SRP54
of the signal recognition particle has a three-domain
structure: an N-terminal helical bundle domain, a GTPase
domain, and the M-domain that binds the 7s RNA and also
binds the signal sequence. The extreme C-terminal region
is glycine-rich and lower in complexity and poorly
conserved between species. The GTPase domain is
evolutionary related to P-loop NTPase domains found in a
variety of other proteins.
Length = 197
Score = 30.5 bits (70), Expect = 2.9
Identities = 10/17 (58%), Positives = 13/17 (76%), Gaps = 1/17 (5%)
Query: 745 VLMVGPPGTGKTM-LAK 760
+L+VGP G GKT +AK
Sbjct: 4 ILLVGPNGVGKTTTIAK 20
>gnl|CDD|112562 pfam03753, HHV6-IE, Human herpesvirus 6 immediate early protein.
The proteins in this family are poorly characterized,
but an investigation has indicated that the immediate
early protein is required the down-regulation of MHC
class I expression in dendritic cells. Human herpesvirus
6 immediate early protein is also referred to as U90.
Length = 993
Score = 31.2 bits (70), Expect = 3.0
Identities = 31/158 (19%), Positives = 45/158 (28%), Gaps = 9/158 (5%)
Query: 522 DERMLGNSRPNQFDSIFSSDANNSLEPWVTDPDVWPPANDTDPSLYQLHTPKPQQTKTFS 581
D + N S E D + D T K +
Sbjct: 484 DSVVTQTVSKNNEAFNMSLYNLKRNEETYQDKNSRDKKTDNQAGPTFSRTDKKTNSPA-G 542
Query: 582 KTRKSSIPNKSTPQSNN--STLKRGNKTPANNKKEPNL--GYKSVTYDKVLKNSSDNENV 637
+ SI NK T + T N L GY++ S +N+ +
Sbjct: 543 ILMERSIFNKDTQDKEQYFELFTMTDGTLDNPLISEMLSFGYETDHSAPYESESDNNDEI 602
Query: 638 KNKTKSNNAQGNSNPTNNSNNNNSNNNPGNSNSHDDKP 675
++ N TNN + NN+N N S S P
Sbjct: 603 DYIASVDSG----NRTNNIHMNNTNENTPFSKSGKSPP 636
>gnl|CDD|218177 pfam04615, Utp14, Utp14 protein. This protein is found to be part
of a large ribonucleoprotein complex containing the U3
snoRNA. Depletion of the Utp proteins impedes production
of the 18S rRNA, indicating that they are part of the
active pre-rRNA processing complex. This large RNP
complex has been termed the small subunit (SSU)
processome.
Length = 728
Score = 31.2 bits (71), Expect = 3.2
Identities = 17/133 (12%), Positives = 47/133 (35%), Gaps = 15/133 (11%)
Query: 532 NQFDSIFSSDANNSLEPWVTDPDVWPPANDTDPSLYQLHTPKPQQTKTFSKTRKSSIPNK 591
N+F SD LE ++ + + ++ ++++ K + ++
Sbjct: 445 NEFKEKKESDEEEELE------------DEEEAKVEKVANKLLKRSEKAQKEEEEEELDE 492
Query: 592 STPQSNNSTLKRGNKTPANNKKEPNLGYKSVTYDKVLKNSSDNENVKNKTKSNNAQGNSN 651
P +T G + K+ + +K+ K + + K K KS + + +
Sbjct: 493 ENPWLK-TTSSVGKSAKKQDSKKKSSSKLDKAANKISKAAVKVKKKKKKEKSIDL--DDD 549
Query: 652 PTNNSNNNNSNNN 664
+ ++ + +
Sbjct: 550 LIDEEDSIKLDVD 562
>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 = 30.4 bits (69), Expect = 3.4
Identities = 11/24 (45%), Positives = 13/24 (54%)
Query: 745 VLMVGPPGTGKTMLAKAVATECGT 768
V GP TGKT LA+A+A
Sbjct: 116 VWFYGPASTGKTNLAQAIAHAVPL 139
>gnl|CDD|222912 PHA02624, PHA02624, large T antigen; Provisional.
Length = 647
Score = 31.1 bits (71), Expect = 3.4
Identities = 25/115 (21%), Positives = 40/115 (34%), Gaps = 27/115 (23%)
Query: 676 VMQERRFESYGCDNDLVEMLERDMVQKNPNIRWDDIAELTDAKRLLEEAVVLPMW----- 730
V+ +RR L+ M +++ + D + E+ + + + W
Sbjct: 358 VLAKRRV-------KLLTMTREELLAERFKKLLDKMDEIFKGSVDILQYMAGVAWLHCLL 410
Query: 731 --MPEFFKGI----------RRPWKGVLMVGPPGTGKTMLAKAVATECGTTFFNV 773
+ I RR W L GP +GKT LA A+ CG NV
Sbjct: 411 PNFDDVIYDILKLIVENVPKRRYW---LFKGPVNSGKTTLAAALLDLCGGKSLNV 462
>gnl|CDD|225080 COG2169, Ada, Adenosine deaminase [Nucleotide transport and
metabolism].
Length = 187
Score = 30.0 bits (68), Expect = 3.5
Identities = 13/37 (35%), Positives = 18/37 (48%), Gaps = 6/37 (16%)
Query: 268 SGADITNVCRDASMMSMRR------KIIGLTPEQIRQ 298
GA +T+ DA S R KI+G+TP + R
Sbjct: 144 MGASVTDAQIDAGFESSSRFYDAFSKILGMTPTKFRH 180
>gnl|CDD|233914 TIGR02538, type_IV_pilB, type IV-A pilus assembly ATPase PilB.
This model describes a protein of type IV pilus
biogenesis designated PilB in Pseudomonas aeruginosa but
PilF in Neisseria gonorrhoeae; the more common usage,
reflected here, is PilB. This protein is an ATPase
involved in protein export for pilin assembly and is
closely related to GspE (TIGR02533) of type II
secretion, also called the main terminal branch of the
general secretion pathway. Note that type IV pilus
systems are often divided into type IV-A and IV-B, with
the latter group including bundle-forming pilus,
mannose-sensitive hemagglutinin, etc. Members of this
family are found in type IV-A systems [Cell envelope,
Surface structures, Protein fate, Protein and peptide
secretion and trafficking].
Length = 564
Score = 30.8 bits (70), Expect = 3.5
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 734 FFKGIRRPWKGVLMVGPPGTGKT 756
F + I +P VL+ GP G+GKT
Sbjct: 308 FLEAIHKPQGMVLVTGPTGSGKT 330
>gnl|CDD|219927 pfam08601, PAP1, Transcription factor PAP1. The transcription
factor Pap1 regulates antioxidant-gene transcription in
response to H2O2. This region is cysteine rich.
Alkylation of cysteine residues following treatment with
a cysteine alkylating agent can mask the accessibility
of the nuclear exporter Crm1, triggering nuclear
accumulation and Pap1 dependent transcriptional
expression.
Length = 344
Score = 30.7 bits (69), Expect = 3.6
Identities = 37/181 (20%), Positives = 61/181 (33%), Gaps = 34/181 (18%)
Query: 528 NSRPNQFDSIFSSDANNSLEPWVTDPDVW----PPANDTDPSLYQLHTPKPQQTKTFSKT 583
NS+ NQ + SS +N + + D + P A T + P P+ K S +
Sbjct: 1 NSKSNQLHNDCSSMSNFNNNNFDFDFPKFCGKLPGACGTK------NCPIPKLAKNSSVS 54
Query: 584 RKSSIP------NKSTPQSNNSTLKRGNKTPANNKKEPNLGYKSVTYDKVLKNSSDNENV 637
N S+P +N + + NNK D S+ + N
Sbjct: 55 SPVPGLLNSTESNVSSPNNNPNGYTSPSSAAMNNKSNNR------AVDPSANASAASTNS 108
Query: 638 KNKTKSNNAQGNSNPTNN---------SNNNNSNNNPGNS--NSHDDKPVM-QERRFESY 685
N +S+ Q NSN ++ N ++ G S S + P + F +
Sbjct: 109 PNGLQSSATQYNSNDNSSSDSPSSGSDGFTNQLLSSLGTSPEPSTESPPQLASVNNFAAI 168
Query: 686 G 686
Sbjct: 169 R 169
>gnl|CDD|236442 PRK09270, PRK09270, nucleoside triphosphate hydrolase
domain-containing protein; Reviewed.
Length = 229
Score = 30.3 bits (69), Expect = 3.7
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 745 VLMVGPPGTGKTMLAKAVA 763
V + GPPG GK+ LA+ +
Sbjct: 36 VGIAGPPGAGKSTLAEFLE 54
>gnl|CDD|232930 TIGR00342, TIGR00342, tRNA sulfurtransferase ThiI. Members of this
protein family are "ThiI", a sulfurtransferase involved
in 4-thiouridine modification of tRNA. This protein
often is bifunctional, with genetically separable
activities, where the C-terminal rhodanese-like domain
(residues 385 to 482 in E. coli ThiI), a domain not
included in this model, is sufficient to synthesize the
thiazole moiety of thiamine (see TIGR04271). Note that
ThiI, because of its role in tRNA modification, may
occur in species (such as Mycoplasma genitalium) that
lack de novo thiamine biosynthesis [Biosynthesis of
cofactors, prosthetic groups, and carriers, Thiamine,
Protein synthesis, tRNA and rRNA base modification].
Length = 371
Score = 30.5 bits (69), Expect = 3.8
Identities = 32/115 (27%), Positives = 45/115 (39%), Gaps = 21/115 (18%)
Query: 191 IHKYRLLTFPSTPVQYSIQKGIPWDIDEALRRRLEKRIYIPLPSK-AGREALLKINLKEV 249
+L F T VQ I IP E L +R+ SK A +E L I E
Sbjct: 229 GGSVKLYVFDFTDVQEEIIHIIP----EGYTCVLCRRMMYKAASKVAEKEGCLAIVTGES 284
Query: 250 KVDPAVDLTHIASQLDGYSGADITN--VCRDASMMSMRRKIIGLTPEQIRQIPKE 302
L +ASQ + N V + S + R +IG+ E+I ++ KE
Sbjct: 285 -------LGQVASQ-------TLENLRVIQAVSNTPILRPLIGMDKEEIIELAKE 325
>gnl|CDD|215324 PLN02604, PLN02604, oxidoreductase.
Length = 566
Score = 30.6 bits (69), Expect = 3.9
Identities = 39/152 (25%), Positives = 54/152 (35%), Gaps = 35/152 (23%)
Query: 551 TDPDVWPPANDTDPSLYQ----------LHTPKPQQTKTF---------SKTRKSSIPNK 591
T P P ND +P L Q +H P + + R+ S+ N
Sbjct: 329 TVPPSGPLWNDVEPRLNQSLAIKARHGYIHPPPLTSDRVIVLLNTQNEVNGYRRWSVNNV 388
Query: 592 S--TPQSNNSTLKRGNKTPANNKKEPNLGYKSVTYDKVLKNSSDNENVKNKTKSNNA--- 646
S P + + N T A ++ P GY YD K N N T S++
Sbjct: 389 SFNLPHTPYLIALKENLTGAFDQTPPPEGYDFANYDIYAK-----PNNSNATSSDSIYRL 443
Query: 647 QGNS------NPTNNSNNNNSNNNPGNSNSHD 672
Q NS N N NNS +P + + HD
Sbjct: 444 QFNSTVDIILQNANTMNANNSETHPWHLHGHD 475
>gnl|CDD|238688 cd01394, radB, RadB. The archaeal protein radB shares similarity
radA, the archaeal functional homologue to the bacterial
RecA. The precise function of radB is unclear.
Length = 218
Score = 30.1 bits (68), Expect = 3.9
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 749 GPPGTGKTMLAKAVATECGTTFFNV 773
GPPGTGKT +A +A E V
Sbjct: 26 GPPGTGKTNIAIQLAVETAGQGKKV 50
>gnl|CDD|181681 PRK09183, PRK09183, transposase/IS protein; Provisional.
Length = 259
Score = 30.1 bits (68), Expect = 4.1
Identities = 11/26 (42%), Positives = 16/26 (61%), Gaps = 3/26 (11%)
Query: 745 VLMVGPPGTGKTMLAKAV---ATECG 767
++++GP G GKT LA A+ A G
Sbjct: 105 IVLLGPSGVGKTHLAIALGYEAVRAG 130
>gnl|CDD|234173 TIGR03346, chaperone_ClpB, ATP-dependent chaperone ClpB. Members
of this protein family are the bacterial ATP-dependent
chaperone ClpB. This protein belongs to the AAA family,
ATPases associated with various cellular activities
(pfam00004). This molecular chaperone does not act as a
protease, but rather serves to disaggregate misfolded
and aggregated proteins [Protein fate, Protein folding
and stabilization].
Length = 852
Score = 30.7 bits (70), Expect = 4.1
Identities = 14/25 (56%), Positives = 16/25 (64%)
Query: 739 RRPWKGVLMVGPPGTGKTMLAKAVA 763
RP L +GP G GKT LAKA+A
Sbjct: 592 NRPIGSFLFLGPTGVGKTELAKALA 616
>gnl|CDD|215599 PLN03140, PLN03140, ABC transporter G family member; Provisional.
Length = 1470
Score = 31.0 bits (70), Expect = 4.1
Identities = 13/27 (48%), Positives = 19/27 (70%)
Query: 737 GIRRPWKGVLMVGPPGTGKTMLAKAVA 763
GI +P + L++GPP +GKT L A+A
Sbjct: 186 GIIKPSRMTLLLGPPSSGKTTLLLALA 212
>gnl|CDD|234751 PRK00411, cdc6, cell division control protein 6; Reviewed.
Length = 394
Score = 30.6 bits (70), Expect = 4.2
Identities = 13/21 (61%), Positives = 14/21 (66%)
Query: 745 VLMVGPPGTGKTMLAKAVATE 765
VL+ GPPGTGKT K V E
Sbjct: 58 VLIYGPPGTGKTTTVKKVFEE 78
>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 = 29.5 bits (67), Expect = 4.4
Identities = 18/84 (21%), Positives = 31/84 (36%), Gaps = 18/84 (21%)
Query: 745 VLMVGPPGTGKTMLAKAVATE----CGTTFFNVCSSTLTSKYRGESEKLVRLLF------ 794
V +VGP G+GK+ L +A+A G + + E + + +
Sbjct: 28 VALVGPNGSGKSTLLRAIAGLLKPTSGEILID--GKDIAKLPLEELRRRIGYVPQLSGGQ 85
Query: 795 ----EMAR--FYAPSTIFIDEIDS 812
+AR P + +DE S
Sbjct: 86 RQRVALARALLLNPDLLLLDEPTS 109
>gnl|CDD|226372 COG3854, SpoIIIAA, ncharacterized protein conserved in bacteria
[Function unknown].
Length = 308
Score = 30.2 bits (68), Expect = 4.5
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 742 WKGVLMVGPPGTGKTMLAKAVA 763
W L++GPP GKT L + +A
Sbjct: 137 WLNTLIIGPPQVGKTTLLRDIA 158
>gnl|CDD|224945 COG2034, COG2034, Predicted membrane protein [Function unknown].
Length = 85
Score = 28.0 bits (63), Expect = 4.6
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 724 AVVLPMWMPEFFKGIRRPWKGVLMVGP 750
+VLP + P G + GV+M+GP
Sbjct: 25 GIVLPAFSPFAESGSSVEYGGVVMIGP 51
>gnl|CDD|234175 TIGR03348, VI_IcmF, type VI secretion protein IcmF. Members of
this protein family are IcmF homologs and tend to be
associated with type VI secretion systems [Cellular
processes, Pathogenesis].
Length = 1169
Score = 30.8 bits (70), Expect = 4.6
Identities = 11/18 (61%), Positives = 14/18 (77%), Gaps = 2/18 (11%)
Query: 741 PWKGVLMVGPPGTGKTML 758
PW L++GPPG+GKT L
Sbjct: 112 PW--YLVIGPPGSGKTTL 127
>gnl|CDD|237090 PRK12402, PRK12402, replication factor C small subunit 2; Reviewed.
Length = 337
Score = 30.0 bits (68), Expect = 4.9
Identities = 32/115 (27%), Positives = 45/115 (39%), Gaps = 37/115 (32%)
Query: 746 LMVGPPGTGKTMLAKAVATEC-------GTTFFNVC----------------SSTLTSKY 782
L+ GPPG+GKT +A+A E T FNV + L +
Sbjct: 40 LVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADFFDQGKKYLVEDPRFAHFLGTDK 99
Query: 783 RGESEKLV---RLLFEMARFYAP-----STIFIDEIDSLCSRRGSESEHEASRRV 829
R S K+ +L E A Y P TI +D ++L E +A RR+
Sbjct: 100 RIRSSKIDNFKHVLKEYAS-YRPLSADYKTILLDNAEAL-----REDAQQALRRI 148
>gnl|CDD|225804 COG3265, GntK, Gluconate kinase [Carbohydrate transport and
metabolism].
Length = 161
Score = 29.2 bits (66), Expect = 5.0
Identities = 8/22 (36%), Positives = 12/22 (54%)
Query: 749 GPPGTGKTMLAKAVATECGTTF 770
G G+GK+ + A+A G F
Sbjct: 2 GVSGSGKSTVGSALAERLGAKF 23
>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 = 29.7 bits (68), Expect = 5.0
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 745 VLMVGPPGTGKTMLAKAVA 763
+ + G GTGKT+L +A
Sbjct: 18 IGIFGGSGTGKTVLLGMIA 36
>gnl|CDD|234763 PRK00440, rfc, replication factor C small subunit; Reviewed.
Length = 319
Score = 30.2 bits (69), Expect = 5.0
Identities = 13/20 (65%), Positives = 14/20 (70%)
Query: 746 LMVGPPGTGKTMLAKAVATE 765
L GPPGTGKT A A+A E
Sbjct: 42 LFAGPPGTGKTTAALALARE 61
>gnl|CDD|235364 PRK05201, hslU, ATP-dependent protease ATP-binding subunit HslU;
Provisional.
Length = 443
Score = 30.0 bits (69), Expect = 5.3
Identities = 11/23 (47%), Positives = 15/23 (65%), Gaps = 1/23 (4%)
Query: 805 IFIDEIDSLCSRRGSESEHEASR 827
+FIDEID + + RG S + SR
Sbjct: 253 VFIDEIDKIAA-RGGSSGPDVSR 274
>gnl|CDD|224985 COG2074, COG2074, 2-phosphoglycerate kinase [Carbohydrate transport
and metabolism].
Length = 299
Score = 30.0 bits (68), Expect = 5.4
Identities = 18/77 (23%), Positives = 32/77 (41%), Gaps = 10/77 (12%)
Query: 699 MVQKNPNIRWDDIAELTDAKRLL------EEAVVLPMWMPEFFKGIRRPWKGVLMVGPPG 752
++K IR E+ + + L E A +W + ++RP +L+ G G
Sbjct: 44 ELKKE-GIRLVTKDEIREVYQKLLEKGDPEVAKRYLLW--RRIRKMKRP-LIILIGGASG 99
Query: 753 TGKTMLAKAVATECGTT 769
GK+ +A +A G
Sbjct: 100 VGKSTIAGELARRLGIR 116
>gnl|CDD|238548 cd01128, rho_factor, Transcription termination factor rho is a
bacterial ATP-dependent RNA/DNA helicase. It is a
homohexamer. Each monomer consists of an N-terminal
domain of the OB fold, which is responsible for binding
to cysteine rich nucleotides. This alignment is of the
C-terminal ATP binding domain.
Length = 249
Score = 29.6 bits (67), Expect = 5.5
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 746 LMVGPPGTGKTMLAKAVA 763
L+V PP GKT L +++A
Sbjct: 20 LIVAPPKAGKTTLLQSIA 37
>gnl|CDD|222856 PHA02530, pseT, polynucleotide kinase; Provisional.
Length = 300
Score = 30.0 bits (68), Expect = 5.5
Identities = 16/56 (28%), Positives = 21/56 (37%), Gaps = 12/56 (21%)
Query: 746 LMVGPPGTGKTMLAKAVATECGTTFFNV-----------CSSTLTSKYRGESEKLV 790
L VG PG+GK+ A+ A + NV K+ E E LV
Sbjct: 6 LTVGVPGSGKSTWAREFAAK-NPKAVNVNRDDLRQSLFGHGEWGEYKFTKEKEDLV 60
>gnl|CDD|225713 COG3172, NadR, Predicted ATPase/kinase involved in NAD metabolism
[Coenzyme metabolism].
Length = 187
Score = 29.3 bits (66), Expect = 5.6
Identities = 11/33 (33%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 740 RPW--KGVLMVGPPGTGKTMLAKAVATECGTTF 770
RP+ K V ++G +GK+ L +A TT
Sbjct: 4 RPFFVKTVAILGGESSGKSTLVNKLANIFNTTS 36
>gnl|CDD|189049 cd09879, PIN_AF0591, PIN domain of Archaeoglobus fulgidus AF0591
protein and other similar archaeal homologs. PIN (PilT
N terminus) domain of Archaeoglobus fulgidus AF0591
protein and other similar uncharacterized archaeal
homologs are included in this family. These PIN domains
are structural homologs of flap endonuclease-1
(FEN1)-like PIN domains, but lack the extensive
arch/clamp region and the H3TH (helix-3-turn-helix)
domain, an atypical helix-hairpin-helix-2-like region,
seen in FEN1-like PIN domains. PIN domains within this
subgroup contain four highly conserved acidic residues
(putative metal-binding, active site residues) which
cluster at the C-terminal end of the beta-sheet and form
a negatively charged pocket near the center of the
molecule.
Length = 117
Score = 28.7 bits (65), Expect = 5.8
Identities = 9/26 (34%), Positives = 12/26 (46%), Gaps = 2/26 (7%)
Query: 206 YSIQKGIPWDIDEALRRRLEKRIYIP 231
Y +Q G+ DI E L R +P
Sbjct: 10 YPVQFGV--DIFEELERLGYPEFVVP 33
>gnl|CDD|180607 PRK06526, PRK06526, transposase; Provisional.
Length = 254
Score = 29.8 bits (67), Expect = 5.9
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 745 VLMVGPPGTGKTMLAKAVA 763
V+ +GPPGTGKT LA +
Sbjct: 101 VVFLGPPGTGKTHLAIGLG 119
>gnl|CDD|114740 pfam06034, DUF919, Nucleopolyhedrovirus protein of unknown function
(DUF919). This family consists of several short
Nucleopolyhedrovirus proteins of unknown function.
Length = 62
Score = 27.2 bits (61), Expect = 5.9
Identities = 15/58 (25%), Positives = 28/58 (48%), Gaps = 9/58 (15%)
Query: 468 QSVLQQINRIVVELRDNEKQKRHWDHINNQLTKEYNEVQRLQSMIRNFGSHNVNDERM 525
QS+ QQ++ I R + +H++ + ++TK E+Q L+ +N RM
Sbjct: 4 QSLRQQLDEINQIKRQLTIKSQHFERL-KKITKNPKELQDLE--------KRLNKSRM 52
>gnl|CDD|236490 PRK09376, rho, transcription termination factor Rho; Provisional.
Length = 416
Score = 29.7 bits (68), Expect = 6.4
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 746 LMVGPPGTGKTMLAKAVA 763
L+V PP GKT+L + +A
Sbjct: 173 LIVAPPKAGKTVLLQNIA 190
>gnl|CDD|227400 COG5068, ARG80, Regulator of arginine metabolism and related MADS
box-containing transcription factors [Transcription].
Length = 412
Score = 30.0 bits (67), Expect = 6.7
Identities = 18/113 (15%), Positives = 32/113 (28%), Gaps = 10/113 (8%)
Query: 562 TDPSLYQLHTPKPQQTKTFSKTRKSSIPNKSTPQSNNSTLKRGNKTPANNKKEPNLGYKS 621
+ S L + + +++ S P S TP + P +
Sbjct: 243 SSHSTLDLPSDFISDSGFPNQSSTSIFPLDSAII---------QITPPHLPNNPPQENRH 293
Query: 622 VTYDKVLKNSSDNENVKNKTKSNNAQGNSNPTNNSNNNNSN-NNPGNSNSHDD 673
Y S+ KN + Q N + N + N N+ D+
Sbjct: 294 ELYSNDSSMVSETPPPKNLPNGSPNQSPLNNLSRGNPASPNSIIRENNQVEDE 346
>gnl|CDD|240264 PTZ00094, PTZ00094, serine hydroxymethyltransferase; Provisional.
Length = 452
Score = 30.0 bits (68), Expect = 6.7
Identities = 12/43 (27%), Positives = 19/43 (44%), Gaps = 9/43 (20%)
Query: 775 SSTLTSKYRGESEKLVRLLFEMARFYAPSTIFIDEIDSLCSRR 817
S T+KY +E L Y +D+I++LC +R
Sbjct: 55 GSCFTNKY---AEGL------PGNRYYGGNEVVDKIENLCQKR 88
>gnl|CDD|218762 pfam05816, TelA, Toxic anion resistance protein (TelA). This
family consists of several prokaryotic TelA like
proteins. TelA and KlA are associated with tellurite
resistance and plasmid fertility inhibition.
Length = 333
Score = 29.9 bits (68), Expect = 6.7
Identities = 16/53 (30%), Positives = 27/53 (50%), Gaps = 13/53 (24%)
Query: 467 YQSVLQQINRIVVELRDNEKQKRHWDHI---NNQLTKEYNEV----QRLQSMI 512
YQSV QI++I+VEL ++ D + N L + Y++ + L+ I
Sbjct: 93 YQSVGGQIDKILVEL------EKGKDELLKDNAMLDQLYDKNLEYYEELEKYI 139
>gnl|CDD|217465 pfam03266, NTPase_1, NTPase. This domain is found across all
species from bacteria to human, and the function was
determined first in a hyperthermophilic bacterium to be
an NTPase. The structure of one member-sequence
represents a variation of the RecA fold, and implies
that the function might be that of a DNA/RNA modifying
enzyme. The sequence carries both a Walker A and Walker
B motif which together are characteristic of ATPases or
GTPases. The protein exhibits an increased expression
profile in human liver cholangiocarcinoma when compared
to normal tissue.
Length = 168
Score = 29.1 bits (66), Expect = 6.8
Identities = 11/26 (42%), Positives = 12/26 (46%)
Query: 749 GPPGTGKTMLAKAVATECGTTFFNVC 774
GPPG GKT L K V + V
Sbjct: 6 GPPGVGKTTLVKKVIELLKSEGVKVG 31
>gnl|CDD|114270 pfam05539, Pneumo_att_G, Pneumovirinae attachment membrane
glycoprotein G.
Length = 408
Score = 29.6 bits (66), Expect = 6.9
Identities = 26/139 (18%), Positives = 43/139 (30%), Gaps = 17/139 (12%)
Query: 570 HTPKPQQTKTFSKTRKSSIPNK---STPQSNNSTLKRGNKT-------PA-NNKKEPNLG 618
+ QT+ R S + ST + ST G + PA +N++ P+
Sbjct: 227 SSNPEPQTEPPPSQRGPSGSPQHPPSTTSQDQSTTGDGQEHTQRRKTPPATSNRRSPHST 286
Query: 619 YKSVTYDKVLKNSSDNENVKNKTKSNNAQGNSNPTNNSNNNNSNNNPGNSNSHDDKPVMQ 678
K + T+S ++ +S+P N + N KP
Sbjct: 287 ATPPPTTKRQETGRPTPRPTATTQSGSSPPHSSPPGVQANPTTQNLVDCKELDPPKPNSI 346
Query: 679 ERRFESY------GCDNDL 691
Y GCD +
Sbjct: 347 CYGVGIYNEALPRGCDIVV 365
>gnl|CDD|182791 PRK10865, PRK10865, protein disaggregation chaperone; Provisional.
Length = 857
Score = 29.8 bits (67), Expect = 7.3
Identities = 13/25 (52%), Positives = 15/25 (60%)
Query: 740 RPWKGVLMVGPPGTGKTMLAKAVAT 764
RP L +GP G GKT L KA+A
Sbjct: 596 RPIGSFLFLGPTGVGKTELCKALAN 620
>gnl|CDD|234654 PRK00131, aroK, shikimate kinase; Reviewed.
Length = 175
Score = 29.0 bits (66), Expect = 7.3
Identities = 7/27 (25%), Positives = 15/27 (55%)
Query: 745 VLMVGPPGTGKTMLAKAVATECGTTFF 771
++++G G GK+ + + +A G F
Sbjct: 7 IVLIGFMGAGKSTIGRLLAKRLGYDFI 33
>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 = 29.0 bits (66), Expect = 7.4
Identities = 10/19 (52%), Positives = 15/19 (78%)
Query: 745 VLMVGPPGTGKTMLAKAVA 763
+L+ GP GTGK+ L +A+A
Sbjct: 30 LLITGPSGTGKSSLFRALA 48
>gnl|CDD|224047 COG1122, CbiO, ABC-type cobalt transport system, ATPase component
[Inorganic ion transport and metabolism].
Length = 235
Score = 29.1 bits (66), Expect = 7.4
Identities = 27/103 (26%), Positives = 43/103 (41%), Gaps = 11/103 (10%)
Query: 745 VLMVGPPGTGKTMLAKAVA----TECGTTFFNVCSSTLTSKYRGESEKLVRLLFEMA--R 798
VL++GP G+GK+ L K + G + T + K E + V L+F+ +
Sbjct: 33 VLLIGPNGSGKSTLLKLLNGLLKPTSGEVLVDG-LDTSSEKSLLELRQKVGLVFQNPDDQ 91
Query: 799 FYAPSTIFIDEIDSLCSRRGSESEHEASRRVKSEL-LVQMDGL 840
+ P+ DE+ G E RV L LV ++ L
Sbjct: 92 LFGPTV--EDEVAFGLENLG-LPREEIEERVAEALELVGLEEL 131
>gnl|CDD|224402 COG1485, COG1485, Predicted ATPase [General function prediction
only].
Length = 367
Score = 29.6 bits (67), Expect = 7.5
Identities = 17/56 (30%), Positives = 22/56 (39%), Gaps = 6/56 (10%)
Query: 709 DDIAELTDA---KRLLEEAVVLPMWMPEFFKGIRR---PWKGVLMVGPPGTGKTML 758
D A+ A RL +E V R P +G+ + G G GKTML
Sbjct: 26 PDPAQPAAAAALDRLYDELVAPRSARKALGWLFGRDHGPVRGLYLWGGVGRGKTML 81
>gnl|CDD|226646 COG4178, COG4178, ABC-type uncharacterized transport system,
permease and ATPase components [General function
prediction only].
Length = 604
Score = 29.6 bits (67), Expect = 8.0
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 740 RPWKGVLMVGPPGTGKTMLAKAVA 763
RP + +L+ G G GKT L +A+A
Sbjct: 417 RPGERLLITGESGAGKTSLLRALA 440
>gnl|CDD|223543 COG0467, RAD55, RecA-superfamily ATPases implicated in signal
transduction [Signal transduction mechanisms].
Length = 260
Score = 29.4 bits (66), Expect = 8.0
Identities = 12/21 (57%), Positives = 14/21 (66%)
Query: 745 VLMVGPPGTGKTMLAKAVATE 765
VL+ GPPGTGKT+ A E
Sbjct: 26 VLITGPPGTGKTIFALQFLYE 46
>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 = 29.2 bits (66), Expect = 8.0
Identities = 13/29 (44%), Positives = 21/29 (72%)
Query: 735 FKGIRRPWKGVLMVGPPGTGKTMLAKAVA 763
F G+ +P + VL++G PG+G + L KA+A
Sbjct: 26 FSGVVKPGEMVLVLGRPGSGCSTLLKALA 54
>gnl|CDD|215489 PLN02902, PLN02902, pantothenate kinase.
Length = 876
Score = 29.5 bits (66), Expect = 8.7
Identities = 33/120 (27%), Positives = 51/120 (42%), Gaps = 25/120 (20%)
Query: 757 MLAKAVATECGTTFFNVCSSTLTSKYRGE------SEKLVRLLFEMARFYAPSTIFIDEI 810
++ KAVA+E GT +K RG+ S L RL+ E A + + E+
Sbjct: 536 LVDKAVASEGGTD---------DAKRRGDAFARAFSAHLARLMEEPAAYGKLGLANLLEL 586
Query: 811 DSLCSRRG---------SESEHEASRRVKSELLVQMDGLS-SAEDSSKVVMVLAATNFPW 860
C R + E+EAS V +LL ++D ++ + + VLAA F W
Sbjct: 587 REECLREFHFVDAYRSIKQRENEASLAVLPDLLAELDSMTEETRLLTLIEGVLAANIFDW 646
>gnl|CDD|217112 pfam02571, CbiJ, Precorrin-6x reductase CbiJ/CobK. This family
consists of Precorrin-6x reductase EC:1.3.1.54. This
enzyme catalyzes the reaction: precorrin-6Y + NADP(+)
<=> precorrin-6X + NADPH. CbiJ and CobK both catalyze
the reduction of macocycle in the colbalmin biosynthesis
pathway.
Length = 246
Score = 29.1 bits (66), Expect = 8.8
Identities = 11/31 (35%), Positives = 13/31 (41%)
Query: 694 MLERDMVQKNPNIRWDDIAELTDAKRLLEEA 724
LER Q P RW + L +A L E
Sbjct: 96 RLERPAWQPGPGDRWIYVDSLAEAAAALAEL 126
>gnl|CDD|214396 CHL00206, ycf2, Ycf2; Provisional.
Length = 2281
Score = 29.9 bits (67), Expect = 8.8
Identities = 11/24 (45%), Positives = 18/24 (75%)
Query: 741 PWKGVLMVGPPGTGKTMLAKAVAT 764
P +G+L++G GTG++ L K +AT
Sbjct: 1629 PSRGILVIGSIGTGRSYLVKYLAT 1652
>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 = 28.4 bits (64), Expect = 9.0
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 743 KGVLMVGPPGTGKTMLA 759
GVL+ GP G GK+ LA
Sbjct: 15 IGVLITGPSGIGKSELA 31
>gnl|CDD|200451 cd00551, AmyAc_family, Alpha amylase catalytic domain family. The
Alpha-amylase family comprises the largest family of
glycoside hydrolases (GH), with the majority of enzymes
acting on starch, glycogen, and related oligo- and
polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; and C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost this catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2 Asp
residues (GH31). The family members are quite extensive
and include: alpha amylase, maltosyltransferase,
cyclodextrin glycotransferase, maltogenic amylase,
neopullulanase, isoamylase, 1,4-alpha-D-glucan
maltotetrahydrolase, 4-alpha-glucotransferase,
oligo-1,6-glucosidase, amylosucrase, sucrose
phosphorylase, and amylomaltase.
Length = 260
Score = 29.1 bits (65), Expect = 9.1
Identities = 33/172 (19%), Positives = 51/172 (29%), Gaps = 29/172 (16%)
Query: 46 VDGFVYIFGNILTFLTSKYPSVFLLPKAIR-----IGNLTFIFGSEFQSEPVVGSGTYLK 100
VDGF + P FL + IR T + G + + +
Sbjct: 111 VDGFRLDAAK---HVPKPEPVEFL--REIRKDAKLAKPDTLLLGEAWGGPDELLAKAGFD 165
Query: 101 HKSPIKMNFLSLVLPLLAEEHGKLKFKEAITLALTVGSSLNLYRSITNRGFYIEDYEVSP 160
+F L A + G+ L L L ++ +
Sbjct: 166 DGLDSVFDFPLLEALRDALKGGEGALAILAAL-------LLLNPEGALLVNFLG----NH 214
Query: 161 PGPTLAVAKMFSSLAVQKLLRGSKTFRTLCIHKYRLLTFPSTPVQYSIQKGI 212
LA + + ++K K L LLT P TP+ Y I+K I
Sbjct: 215 DTFRLADLVSYKIVELRK--ARLKLALAL------LLTLPGTPMIYYIKKLI 258
>gnl|CDD|221803 pfam12846, AAA_10, AAA-like 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 = 316
Score = 29.3 bits (66), Expect = 9.6
Identities = 24/94 (25%), Positives = 40/94 (42%), Gaps = 5/94 (5%)
Query: 745 VLMVGPPGTGKTMLAKAVATECGTTFFNVCSSTLTSKYRGESEKLVRLLF-EMARFYAPS 803
+L+VGP G+GK+ L K +A + K GE L R L E+ S
Sbjct: 4 MLIVGPSGSGKSTLLKLLA--LRLLARGGRVIVIDPK--GEYSGLARALGGEVIDLGPGS 59
Query: 804 TIFIDEIDSLCSRRGSESEHEASRRVKSELLVQM 837
I ++ +D + +E + K +LL+ +
Sbjct: 60 GISLNPLDIFPTGEDAEELEADAHARKLDLLLAL 93
>gnl|CDD|235871 PRK06835, PRK06835, DNA replication protein DnaC; Validated.
Length = 329
Score = 29.1 bits (66), Expect = 10.0
Identities = 11/33 (33%), Positives = 17/33 (51%)
Query: 733 EFFKGIRRPWKGVLMVGPPGTGKTMLAKAVATE 765
F + + + +L G GTGKT L+ +A E
Sbjct: 174 NFIENFDKNNENLLFYGNTGTGKTFLSNCIAKE 206
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
0.315 0.131 0.375
Gapped
Lambda K H
0.267 0.0649 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 43,133,548
Number of extensions: 4242185
Number of successful extensions: 5550
Number of sequences better than 10.0: 1
Number of HSP's gapped: 5278
Number of HSP's successfully gapped: 271
Length of query: 863
Length of database: 10,937,602
Length adjustment: 105
Effective length of query: 758
Effective length of database: 6,280,432
Effective search space: 4760567456
Effective search space used: 4760567456
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 63 (28.2 bits)