RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780226|ref|YP_003064639.1| translation-associated GTPase
[Candidatus Liberibacter asiaticus str. psy62]
(367 letters)
>gnl|CDD|181981 PRK09601, PRK09601, GTP-binding protein YchF; Reviewed.
Length = 364
Score = 631 bits (1630), Expect = 0.0
Identities = 235/372 (63%), Positives = 288/372 (77%), Gaps = 13/372 (3%)
Query: 1 MGFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAE 60
MG KCGI+GLPNVGKSTLFNALT+ A A+AANYPFCTIEPN G V VPDPR+ KLAEI +
Sbjct: 1 MGLKCGIVGLPNVGKSTLFNALTK-AGAEAANYPFCTIEPNVGVVPVPDPRLDKLAEIVK 59
Query: 61 SKDLVPTRMSFVDIAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRI 120
K +VP + FVDIAGLV+GASKGEGLGNQFLA+IREVDAI+HV+RCF+D+NI HVEG++
Sbjct: 60 PKKIVPATIEFVDIAGLVKGASKGEGLGNQFLANIREVDAIVHVVRCFEDDNITHVEGKV 119
Query: 121 DPINDIETIETELMLSDLE----RLERLFEKNKKYRNHKS-EEIVLLQSIISSSLRLIEE 175
DPI DIETI TEL+L+DLE RLERL EK K + ++ E+ LL+ + L +EE
Sbjct: 120 DPIRDIETINTELILADLETVEKRLERL-EKKAKGGDKEAKAELELLEKL----LEHLEE 174
Query: 176 GKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNA 235
GKP R+L L + + KSL LLTAKP+LY+ NV E D GN Y + V+ +A+++ A
Sbjct: 175 GKPARTL--ELTDEEEKLLKSLQLLTAKPVLYVANVDEDDLADGNPYVKKVREIAAKEGA 232
Query: 236 EMIIISAAIEAEISQLPEEERALFMEELDISISGLELLIRSGYRLLDLITYFTVGPKETR 295
E+++I A IEAEI++L +EE+A F+EEL + SGL+ LIR+GY LL LITYFT GPKE R
Sbjct: 233 EVVVICAKIEAEIAELDDEEKAEFLEELGLEESGLDRLIRAGYELLGLITYFTAGPKEVR 292
Query: 296 AWTIPRGTNAQKAAGVIHTDFEKGFIRALTISYKDYVAMGGENAAKEAGKARDEGKEYIV 355
AWTI +GT A +AAGVIHTDFEKGFIRA ISY D + G E AKEAGK R EGK+YIV
Sbjct: 293 AWTIKKGTTAPQAAGVIHTDFEKGFIRAEVISYDDLIEYGSEAGAKEAGKVRLEGKDYIV 352
Query: 356 KDGDILHFRFNV 367
+DGD++HFRFNV
Sbjct: 353 QDGDVMHFRFNV 364
>gnl|CDD|185530 PTZ00258, PTZ00258, GTP-binding protein; Provisional.
Length = 390
Score = 482 bits (1244), Expect = e-137
Identities = 178/373 (47%), Positives = 244/373 (65%), Gaps = 16/373 (4%)
Query: 4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKD 63
K GI+GLPNVGKST FNAL + A N+PFCTI+PN+ V VPD R L + + K
Sbjct: 23 KMGIVGLPNVGKSTTFNALCKQ-QVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKS 81
Query: 64 LVPTRMSFVDIAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPI 123
+VP ++ DIAGLV+GAS+GEGLGN FL+HIR VD I HV+R F+DE+I HVEG IDP+
Sbjct: 82 IVPAQLDITDIAGLVKGASEGEGLGNAFLSHIRAVDGIYHVVRAFEDEDITHVEGEIDPV 141
Query: 124 NDIETIETELMLSDLERLERLFEKNKKYRNHK------SEEIVLLQSIISSSLRLIEEGK 177
D+E I +EL+L DLE +E+ ++ K R K E+ +L+ + L +EEGK
Sbjct: 142 RDLEIISSELILKDLEFVEKRLDELTKKRKKKKKKKEEKVELDVLKKV----LEWLEEGK 197
Query: 178 PVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHD-CKKGNIYTEAVQR-LASQQNA 235
PVR I I LLTAKP++Y+ N+SE D ++ N + ++ + +
Sbjct: 198 PVRD--GDWTDKEIEILNEYQLLTAKPMIYLVNMSEKDFIRQKNKWLAKIKEWVGEKGGG 255
Query: 236 EMIIISAAIEAEISQLP-EEERALFMEELDISISGLELLIRSGYRLLDLITYFTVGPKET 294
+I SA E E+++L EEER ++EE I S L+ +I++GY+LL+LI +FT GP E
Sbjct: 256 PIIPYSAEFEEELAELGSEEERKEYLEEYGIKQSMLDKIIKTGYKLLNLIHFFTAGPDEV 315
Query: 295 RAWTIPRGTNAQKAAGVIHTDFEKGFIRALTISYKDYVAMGGENAAKEAGKARDEGKEYI 354
R WTI +GT A +AAGVIH+DFEKGFI A + Y+D++ +G E A K GK R EGK+Y+
Sbjct: 316 RCWTIQKGTKAPQAAGVIHSDFEKGFICAEVMKYEDFLELGSEAAVKAEGKYRQEGKDYV 375
Query: 355 VKDGDILHFRFNV 367
V+DGDI+ F+FNV
Sbjct: 376 VQDGDIIFFKFNV 388
>gnl|CDD|129200 TIGR00092, TIGR00092, GTP-binding protein YchF. This predicted
GTP-binding protein is found in a single copy in every
complete bacterial genome, and is found in Eukaryotes. A
more distantly related protein, separated from this
model, is found in the archaea. It is known to bind GTP
and double-stranded nucleic acid. It is suggested to
belong to a nucleoprotein complex and act as a
translation factor.
Length = 368
Score = 359 bits (922), Expect = e-100
Identities = 175/373 (46%), Positives = 232/373 (62%), Gaps = 11/373 (2%)
Query: 1 MGFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAE 60
MG GI+GLPNVGKSTLF A T +AAN PF TIEPN+G V DPR+ LA +
Sbjct: 1 MGLSGGIVGLPNVGKSTLFAATTNLLGNEAANPPFTTIEPNAGVVNPSDPRLDLLAIYIK 60
Query: 61 SKDLVPTRMSFVDIAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRI 120
+ + PT FVDIAGLV GASKGEGLGNQFLA+IREVD I HV+RCF+D+ I HV
Sbjct: 61 PEKVPPTTTEFVDIAGLVGGASKGEGLGNQFLANIREVDIIQHVVRCFEDDIIHHVGNVD 120
Query: 121 DPINDIETIETELMLSDLERLERLFEKNKKYRNHK--SEEIVLLQSIISSSLRLIEEGKP 178
DP +D E I+ EL+ +D +E+ ++KK +E +LL II L L+ G+
Sbjct: 121 DPRDDFEIIDEELLKADEFLVEKRIGRSKKSAEGGKDKKEELLLLEII---LPLLNGGQM 177
Query: 179 VRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDC-KKGNIYTEAVQRLASQQNAEM 237
R + L + + + KSLNLLT KPI+ I NVSE N Y V+ +A+ +
Sbjct: 178 ARHV--DLSKEELILIKSLNLLTKKPIILIANVSEDYLRNLNNNYLLIVEWIAAYSKGDP 235
Query: 238 III--SAAIEAEISQLPEEERALFMEELDISIS-GLELLIRSGYRLLDLITYFTVGPKET 294
++ A E+E+S+L +EER F+++L ++ S GL ++IR+ Y+LL L +FT G +E
Sbjct: 236 KVVFVCALEESELSELDDEERQEFLQKLGLTESAGLNIIIRARYKLLLLSFFFTGGKEEV 295
Query: 295 RAWTIPRGTNAQKAAGVIHTDFEKGFIRALTISYKDYVAMGGENAAKEAGKARDEGKEYI 354
RAWT G A +AAG+IHTDFE GFI A IS+ D++ AK+ G R EGK Y+
Sbjct: 296 RAWTRKGGWAAPQAAGIIHTDFETGFIAAEVISWDDFIYKKSSQGAKKGGLMRLEGKYYV 355
Query: 355 VKDGDILHFRFNV 367
V DGD+L F FNV
Sbjct: 356 VDDGDVLFFAFNV 368
>gnl|CDD|114773 pfam06071, YchF-GTPase_C, Protein of unknown function (DUF933).
This domain is found at the C terminus of the YchF
GTP-binding protein and is possibly related to the
ubiquitin-like and MoaD/ThiS superfamilies.
Length = 84
Score = 172 bits (438), Expect = 2e-43
Identities = 60/84 (71%), Positives = 68/84 (80%)
Query: 283 LITYFTVGPKETRAWTIPRGTNAQKAAGVIHTDFEKGFIRALTISYKDYVAMGGENAAKE 342
LIT+FT GPKE RAWTI +GT A +AAGVIH+DFEKGFIRA ISY D + G E AKE
Sbjct: 1 LITFFTAGPKEVRAWTIRKGTTAPQAAGVIHSDFEKGFIRAEVISYDDLIEYGSEAKAKE 60
Query: 343 AGKARDEGKEYIVKDGDILHFRFN 366
AGK R EGK+YIV+DGDI+HFRFN
Sbjct: 61 AGKLRLEGKDYIVQDGDIIHFRFN 84
>gnl|CDD|181982 PRK09602, PRK09602, translation-associated GTPase; Reviewed.
Length = 396
Score = 141 bits (359), Expect = 2e-34
Identities = 115/427 (26%), Positives = 182/427 (42%), Gaps = 114/427 (26%)
Query: 6 GIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGE--VAVPDPRMHKLAEIAES-- 61
G++G PNVGKST FNA T A + ANYPF TI+PN G V V P K E+
Sbjct: 5 GLVGKPNVGKSTFFNAATL-ADVEIANYPFTTIDPNVGVAYVRVECP--CK--ELGVKCN 59
Query: 62 ---------KDLVPTRMSFVDIAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFKDEN 112
+P + +D+AGLV GA +G GLGNQFL +R+ DA+IHV+ +
Sbjct: 60 PRNGKCIDGTRFIPVEL--IDVAGLVPGAHEGRGLGNQFLDDLRQADALIHVVDASGSTD 117
Query: 113 IIHVEGRI------DPINDIETIETEL---MLSDLERLERLFEKNKKYRNHKSEEIVLLQ 163
EG DP+ DI+ +E EL + LE+ K R ++E+ + +
Sbjct: 118 E---EGNPVEPGSHDPVEDIKFLEEELDMWIYGILEK-----NWEKFSRKAQAEKFDIEE 169
Query: 164 SIIS--SSLRLIEEGKPVRSLLESLDSDAIPI---------FKSLNLLTAKPILYICNVS 212
++ S L + EE V+ L L P +KP++ N +
Sbjct: 170 ALAEQLSGLGINEE--HVKEALRELGLPEDPSKWTDEDLLELARELRKISKPMVIAANKA 227
Query: 213 EHDCKKGNIYTEAVQRLASQQNAEMIIISAAIE------AE---ISQLP----------- 252
+ + NI +RL ++ ++ SA E A+ I +P
Sbjct: 228 DLPPAEENI-----ERLKEEKYYIVVPTSAEAELALRRAAKAGLIDYIPGDSDFEILGEL 282
Query: 253 --EEERAL-----FMEELDISISGLELLIRSGYRLLDLITYFTVGPKETRAWT------- 298
++++AL +++ E + + + LLD+I + V E + T
Sbjct: 283 SEKQKKALEYIREVLKKYG-GTGVQEAINTAVFDLLDMIVVYPVE-DENK-LTDKKGNVL 339
Query: 299 -----IPRGTNAQKAAGVIHTDFEKGFIRALTISYKDYVAMGGENAAKEAGKARDEGKEY 353
+P+G+ A+ A IHTD +GF+ A+ +A R G++Y
Sbjct: 340 PDAFLLPKGSTARDLAYKIHTDIGEGFLYAI-----------------DARTKRRIGEDY 382
Query: 354 IVKDGDI 360
+KDGD+
Sbjct: 383 ELKDGDV 389
>gnl|CDD|183415 PRK12297, obgE, GTPase CgtA; Reviewed.
Length = 424
Score = 108 bits (273), Expect = 2e-24
Identities = 59/140 (42%), Positives = 74/140 (52%), Gaps = 28/140 (20%)
Query: 6 GIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLV 65
G++G PNVGKSTL + ++ A + ANY F T+ PN G V D R
Sbjct: 162 GLVGFPNVGKSTLLSVVSN-AKPKIANYHFTTLVPNLGVVETDDGR-------------- 206
Query: 66 PTRMSFV--DIAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPI 123
SFV DI GL+ GAS+G GLG+QFL HI I+HV+ ++ EGR DPI
Sbjct: 207 ----SFVMADIPGLIEGASEGVGLGHQFLRHIERTRVIVHVI------DMSGSEGR-DPI 255
Query: 124 NDIETIETELMLSDLERLER 143
D E I EL L + LER
Sbjct: 256 EDYEKINKELKLYNPRLLER 275
>gnl|CDD|162989 TIGR02729, Obg_CgtA, Obg family GTPase CgtA. This model describes
a univeral, mostly one-gene-per-genome GTP-binding
protein that associates with ribosomal subunits and
appears to play a role in ribosomal RNA maturation. This
GTPase, related to the nucleolar protein Obg, is
designated CgtA in bacteria. Mutations in this gene are
pleiotropic, but it appears that effects on cellular
functions such as chromosome partition may be secondary
to the effect on ribosome structure. Recent work done in
Vibrio cholerae shows an essential role in the stringent
response, in which RelA-dependent ability to synthesize
the alarmone ppGpp is required for deletion of this
GTPase to be lethal.
Length = 329
Score = 102 bits (258), Expect = 1e-22
Identities = 60/175 (34%), Positives = 84/175 (48%), Gaps = 44/175 (25%)
Query: 6 GIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLV 65
G++GLPN GKSTL +A++ A + A+YPF T+ PN G V V D R
Sbjct: 161 GLVGLPNAGKSTLISAVSA-AKPKIADYPFTTLVPNLGVVRVDDGR-------------- 205
Query: 66 PTRMSFV--DIAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPI 123
SFV DI GL+ GAS+G GLG++FL HI ++H++ +I ++GR DPI
Sbjct: 206 ----SFVIADIPGLIEGASEGAGLGHRFLKHIERTRVLLHLI------DISPLDGR-DPI 254
Query: 124 NDIETIETELML----------------SDLERLERLFEKNKKYRNHKSEEIVLL 162
D E I EL DL E L E K+ + + + +
Sbjct: 255 EDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDEEELAELLKELKKALGKPVFPI 309
>gnl|CDD|183417 PRK12299, obgE, GTPase CgtA; Reviewed.
Length = 335
Score = 93.6 bits (234), Expect = 8e-20
Identities = 49/128 (38%), Positives = 68/128 (53%), Gaps = 27/128 (21%)
Query: 6 GIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLV 65
G++GLPN GKSTL +A++ A + A+YPF T+ PN G V V D K V
Sbjct: 162 GLVGLPNAGKSTLISAVSA-AKPKIADYPFTTLHPNLGVVRVDD-----------YKSFV 209
Query: 66 PTRMSFVDIAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPIND 125
DI GL+ GAS+G GLG++FL HI ++H++ D +DP+ D
Sbjct: 210 -----IADIPGLIEGASEGAGLGHRFLKHIERTRLLLHLV----D------IEAVDPVED 254
Query: 126 IETIETEL 133
+TI EL
Sbjct: 255 YKTIRNEL 262
>gnl|CDD|183414 PRK12296, obgE, GTPase CgtA; Reviewed.
Length = 500
Score = 91.9 bits (229), Expect = 3e-19
Identities = 49/128 (38%), Positives = 70/128 (54%), Gaps = 24/128 (18%)
Query: 6 GIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLV 65
G++G P+ GKS+L +AL+ A + A+YPF T+ PN G V D
Sbjct: 163 GLVGFPSAGKSSLISALSA-AKPKIADYPFTTLVPNLGVVQAGD---------------- 205
Query: 66 PTRMSFVDIAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPIND 125
TR + D+ GL+ GAS+G+GLG FL HI ++HV+ C E GR DP++D
Sbjct: 206 -TRFTVADVPGLIPGASEGKGLGLDFLRHIERCAVLVHVVDCATLE-----PGR-DPLSD 258
Query: 126 IETIETEL 133
I+ +E EL
Sbjct: 259 IDALEAEL 266
>gnl|CDD|183416 PRK12298, obgE, GTPase CgtA; Reviewed.
Length = 390
Score = 81.8 bits (203), Expect = 2e-16
Identities = 47/131 (35%), Positives = 65/131 (49%), Gaps = 30/131 (22%)
Query: 6 GIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLV 65
G++GLPN GKST A++ A + A+YPF T+ PN G V V D R
Sbjct: 163 GLLGLPNAGKSTFIRAVSA-AKPKVADYPFTTLVPNLGVVRVDDER-------------- 207
Query: 66 PTRMSFV--DIAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFK-DENIIHVEGRIDP 122
SFV DI GL+ GAS+G GLG +FL H+ ++H++ D + DP
Sbjct: 208 ----SFVVADIPGLIEGASEGAGLGIRFLKHLERCRVLLHLIDIAPIDGS--------DP 255
Query: 123 INDIETIETEL 133
+ + I EL
Sbjct: 256 VENARIIINEL 266
>gnl|CDD|163343 TIGR03594, GTPase_EngA, ribosome-associated GTPase EngA. EngA
(YfgK, Der) is a ribosome-associated essential GTPase
with a duplication of its GTP-binding domain. It is
broadly to universally distributed among bacteria. It
appears to function in ribosome biogenesis or
stability.
Length = 429
Score = 47.8 bits (115), Expect = 5e-06
Identities = 16/28 (57%), Positives = 19/28 (67%)
Query: 7 IIGLPNVGKSTLFNALTRTASAQAANYP 34
I+G PNVGKSTLFN LT A ++ P
Sbjct: 4 IVGRPNVGKSTLFNRLTGKRDAIVSDTP 31
Score = 39.7 bits (94), Expect = 0.001
Identities = 15/23 (65%), Positives = 15/23 (65%)
Query: 2 GFKCGIIGLPNVGKSTLFNALTR 24
K IIG PNVGKSTL NAL
Sbjct: 172 PIKIAIIGRPNVGKSTLVNALLG 194
>gnl|CDD|178858 PRK00093, PRK00093, GTP-binding protein Der; Reviewed.
Length = 435
Score = 45.8 bits (110), Expect = 2e-05
Identities = 17/28 (60%), Positives = 19/28 (67%)
Query: 7 IIGLPNVGKSTLFNALTRTASAQAANYP 34
I+G PNVGKSTLFN LT A A+ P
Sbjct: 6 IVGRPNVGKSTLFNRLTGKRDAIVADTP 33
Score = 38.9 bits (92), Expect = 0.002
Identities = 14/22 (63%), Positives = 15/22 (68%)
Query: 2 GFKCGIIGLPNVGKSTLFNALT 23
K IIG PNVGKS+L NAL
Sbjct: 173 PIKIAIIGRPNVGKSSLINALL 194
>gnl|CDD|178854 PRK00089, era, GTPase Era; Reviewed.
Length = 292
Score = 45.0 bits (108), Expect = 3e-05
Identities = 18/25 (72%), Positives = 19/25 (76%), Gaps = 3/25 (12%)
Query: 1 MGFKCG---IIGLPNVGKSTLFNAL 22
MGFK G I+G PNVGKSTL NAL
Sbjct: 1 MGFKSGFVAIVGRPNVGKSTLLNAL 25
>gnl|CDD|161778 TIGR00231, small_GTP, small GTP-binding protein domain. This model
recognizes a large number of small GTP-binding proteins
and related domains in larger proteins. Note that the
alpha chains of heterotrimeric G proteins are larger
proteins in which the NKXD motif is separated from the
GxxxxGK[ST] motif (P-loop) by a long insert and are not
easily detected by this model.
Length = 161
Score = 43.5 bits (103), Expect = 9e-05
Identities = 24/104 (23%), Positives = 34/104 (32%), Gaps = 16/104 (15%)
Query: 3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESK 62
K I+G PNVGKSTL N L P T + +
Sbjct: 2 IKIVIVGDPNVGKSTLLNRLLGNKFITEY-KPGTTRNYVTTVIEE--------------- 45
Query: 63 DLVPTRMSFVDIAGLVRGASKGEGLGNQFLAHIREVDAIIHVLR 106
D + + +D AG + + +R D +I VL
Sbjct: 46 DGKTYKFNLLDTAGQEDYRAIRRLYYRAVESSLRVFDIVILVLD 89
>gnl|CDD|163345 TIGR03596, GTPase_YlqF, ribosome biogenesis GTP-binding protein
YlqF. Members of this protein family are GTP-binding
proteins involved in ribosome biogenesis, including the
essential YlqF protein of Bacillus subtilis, which is an
essential protein. They are related to Era, EngA, and
other GTPases of ribosome biogenesis, but are circularly
permuted. This family is not universal, and is not
present in Escherichia coli, and so is not as well
studied as some other GTPases. This model is built for
bacterial members.
Length = 276
Score = 42.1 bits (100), Expect = 2e-04
Identities = 15/32 (46%), Positives = 19/32 (59%)
Query: 3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYP 34
+ I+G+PNVGKSTL N L A+ N P
Sbjct: 119 IRAMIVGIPNVGKSTLINRLAGKKVAKVGNRP 150
>gnl|CDD|179996 PRK05291, trmE, tRNA modification GTPase TrmE; Reviewed.
Length = 449
Score = 41.6 bits (99), Expect = 3e-04
Identities = 14/23 (60%), Positives = 15/23 (65%)
Query: 2 GFKCGIIGLPNVGKSTLFNALTR 24
G K I G PNVGKS+L NAL
Sbjct: 215 GLKVVIAGRPNVGKSSLLNALLG 237
>gnl|CDD|181957 PRK09563, rbgA, GTPase YlqF; Reviewed.
Length = 287
Score = 41.7 bits (99), Expect = 3e-04
Identities = 16/28 (57%), Positives = 18/28 (64%)
Query: 7 IIGLPNVGKSTLFNALTRTASAQAANYP 34
IIG+PNVGKSTL N L A+ N P
Sbjct: 126 IIGIPNVGKSTLINRLAGKKIAKTGNRP 153
>gnl|CDD|163162 TIGR03156, GTP_HflX, GTP-binding protein HflX. This protein family
is one of a number of homologous small, well-conserved
GTP-binding proteins with pleiotropic effects. Bacterial
members are designated HflX, following the naming
convention in Escherichia coli where HflX is encoded
immediately downstream of the RNA chaperone Hfq, and
immediately upstream of HflKC, a membrane-associated
protease pair with an important housekeeping function.
Over large numbers of other bacterial genomes, the
pairing with hfq is more significant than with hflK and
hlfC. The gene from Homo sapiens in this family has been
named PGPL (pseudoautosomal GTP-binding protein-like).
Length = 351
Score = 41.3 bits (98), Expect = 4e-04
Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 6 GIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPR 51
++G N GKSTLFNALT A AA+ F T++P + + +PD
Sbjct: 193 ALVGYTNAGKSTLFNALTG-ADVYAADQLFATLDPTTRRLDLPDGG 237
>gnl|CDD|161885 TIGR00450, mnmE_trmE_thdF, tRNA modification GTPase TrmE. TrmE,
also called MnmE and previously designated ThdF
(thiophene and furan oxidation protein), is a GTPase
involved in tRNA modification to create
5-methylaminomethyl-2-thiouridine in the wobble position
of some tRNAs. This protein and GidA form an
alpha2/beta2 heterotetramer.
Length = 442
Score = 40.5 bits (95), Expect = 6e-04
Identities = 17/36 (47%), Positives = 22/36 (61%)
Query: 2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCT 37
GFK I+G PNVGKS+L NAL + A ++ T
Sbjct: 203 GFKLAIVGSPNVGKSSLLNALLKQDRAIVSDIKGTT 238
>gnl|CDD|161878 TIGR00437, feoB, ferrous iron transporter FeoB. FeoB (773 amino
acids in E. coli), a cytoplasmic membrane protein
required for iron(II) update, is encoded in an operon
with FeoA (75 amino acids), which is also required, and
is regulated by Fur. There appear to be two copies in
Archaeoglobus fulgidus and Clostridium acetobutylicum.
Length = 591
Score = 40.1 bits (94), Expect = 8e-04
Identities = 20/37 (54%), Positives = 25/37 (67%), Gaps = 1/37 (2%)
Query: 9 GLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEV 45
G PNVGKSTLFNALT A+ N+P T+E G++
Sbjct: 1 GNPNVGKSTLFNALTG-ANQTVGNWPGVTVEKKEGKL 36
>gnl|CDD|181948 PRK09554, feoB, ferrous iron transport protein B; Reviewed.
Length = 772
Score = 39.3 bits (92), Expect = 0.002
Identities = 19/44 (43%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 6 GIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD 49
G+IG PN GK+TLFN LT A + N+ T+E G+ + D
Sbjct: 7 GLIGNPNSGKTTLFNQLT-GARQRVGNWAGVTVERKEGQFSTTD 49
>gnl|CDD|182934 PRK11058, PRK11058, GTPase HflX; Provisional.
Length = 426
Score = 35.1 bits (81), Expect = 0.027
Identities = 18/43 (41%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 7 IIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD 49
++G N GKSTLFN +T A AA+ F T++P + V D
Sbjct: 202 LVGYTNAGKSTLFNRIT-EARVYAADQLFATLDPTLRRIDVAD 243
>gnl|CDD|181925 PRK09518, PRK09518, bifunctional cytidylate kinase/GTPase Der;
Reviewed.
Length = 712
Score = 34.0 bits (78), Expect = 0.068
Identities = 27/95 (28%), Positives = 41/95 (43%), Gaps = 19/95 (20%)
Query: 7 IIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVP 66
++G PNVGKS+L N LT A + T +P + ++ EI L
Sbjct: 455 LVGRPNVGKSSLLNQLTHEERAVVNDLAGTTRDP-----------VDEIVEIDGEDWL-- 501
Query: 67 TRMSFVDIAGLVRGASKGEGLGNQFLAHIREVDAI 101
F+D AG+ R K G ++ + +R AI
Sbjct: 502 ----FIDTAGIKRRQHKLT--GAEYYSSLRTQAAI 530
Score = 29.8 bits (67), Expect = 1.1
Identities = 11/14 (78%), Positives = 12/14 (85%)
Query: 7 IIGLPNVGKSTLFN 20
I+G PNVGKSTL N
Sbjct: 280 IVGRPNVGKSTLVN 293
>gnl|CDD|129528 TIGR00436, era, GTP-binding protein Era. Era is an essential
GTPase in Escherichia coli and many other bacteria. It
plays a role in ribosome biogenesis. Few bacteria lack
this protein.
Length = 270
Score = 32.4 bits (74), Expect = 0.19
Identities = 12/17 (70%), Positives = 13/17 (76%)
Query: 6 GIIGLPNVGKSTLFNAL 22
I+G PNVGKSTL N L
Sbjct: 4 AILGRPNVGKSTLLNQL 20
>gnl|CDD|179525 PRK03003, PRK03003, GTP-binding protein Der; Reviewed.
Length = 472
Score = 31.1 bits (71), Expect = 0.50
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 7 IIGLPNVGKSTLFN 20
++G PNVGKSTL N
Sbjct: 43 VVGRPNVGKSTLVN 56
Score = 30.3 bits (69), Expect = 0.77
Identities = 10/17 (58%), Positives = 13/17 (76%)
Query: 7 IIGLPNVGKSTLFNALT 23
++G PNVGKS+L N L
Sbjct: 216 LVGKPNVGKSSLLNKLA 232
>gnl|CDD|183324 PRK11819, PRK11819, putative ABC transporter ATP-binding protein;
Reviewed.
Length = 556
Score = 30.5 bits (70), Expect = 0.69
Identities = 13/19 (68%), Positives = 14/19 (73%), Gaps = 2/19 (10%)
Query: 6 GIIGLPN-VGKSTLFNALT 23
GIIG PN GKSTLF +T
Sbjct: 354 GIIG-PNGAGKSTLFKMIT 371
>gnl|CDD|179035 PRK00454, engB, GTP-binding protein YsxC; Reviewed.
Length = 196
Score = 30.1 bits (69), Expect = 1.1
Identities = 10/12 (83%), Positives = 11/12 (91%)
Query: 12 NVGKSTLFNALT 23
NVGKS+L NALT
Sbjct: 34 NVGKSSLINALT 45
>gnl|CDD|151741 pfam11300, DUF3102, Protein of unknown function (DUF3102). This
family of proteins has no known function.
Length = 130
Score = 29.7 bits (67), Expect = 1.3
Identities = 12/23 (52%), Positives = 16/23 (69%), Gaps = 1/23 (4%)
Query: 251 LPEEERALFMEELDI-SISGLEL 272
+PEEER F+ E D+ S+S EL
Sbjct: 101 VPEEEREQFIAENDVESMSTREL 123
>gnl|CDD|178676 PLN03130, PLN03130, ABC transporter C family member; Provisional.
Length = 1622
Score = 29.3 bits (66), Expect = 1.4
Identities = 13/46 (28%), Positives = 19/46 (41%), Gaps = 12/46 (26%)
Query: 4 KCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPD 49
K GI+G GKS++ NAL R +E G + +
Sbjct: 1267 KVGIVGRTGAGKSSMLNALFR------------IVELERGRILIDG 1300
>gnl|CDD|163346 TIGR03598, GTPase_YsxC, ribosome biogenesis GTP-binding protein
YsxC/EngB. Members of this protein family are a GTPase
associated with ribosome biogenesis, typified by YsxC
from Bacillus subutilis. The family is widely but not
universally distributed among bacteria. Members
commonly are called EngB based on homology to EngA, one
of several other GTPases of ribosome biogenesis.
Cutoffs as set find essentially all bacterial members,
but also identify large numbers of eukaryotic (probably
organellar) sequences. This protein is found in about
80 percent of bacterial genomes.
Length = 179
Score = 29.4 bits (67), Expect = 1.6
Identities = 10/13 (76%), Positives = 11/13 (84%)
Query: 12 NVGKSTLFNALTR 24
NVGKS+L NALT
Sbjct: 28 NVGKSSLINALTN 40
>gnl|CDD|132636 TIGR03597, GTPase_YqeH, ribosome biogenesis GTPase YqeH. This
family describes YqeH, a member of a larger family of
GTPases involved in ribosome biogenesis. Like YqlF, it
shows a cyclical permutation relative to GTPases EngA
(in which the GTPase domain is duplicated), Era, and
others. Members of this protein family are found in a
relatively small number of bacterial species, including
Bacillus subtilis but not Escherichia coli.
Length = 360
Score = 29.1 bits (66), Expect = 1.8
Identities = 9/16 (56%), Positives = 13/16 (81%)
Query: 7 IIGLPNVGKSTLFNAL 22
++G+ NVGKS+L N L
Sbjct: 159 VVGVTNVGKSSLINKL 174
>gnl|CDD|152367 pfam11932, DUF3450, Protein of unknown function (DUF3450). This
family of proteins are functionally uncharacterized.
This protein is found in bacteria and eukaryotes.
Proteins in this family are about 260 amino acids in
length.
Length = 250
Score = 29.1 bits (66), Expect = 2.0
Identities = 15/58 (25%), Positives = 29/58 (50%), Gaps = 9/58 (15%)
Query: 221 IYTEAVQRLASQQNAEMIIISAAIEAEISQLPEEERAL--FMEELDISISGLELLIRS 276
+Y + +QRL + Q E+ A+++ +I Q+ + + L M + I GLE +
Sbjct: 71 VYNDQLQRLVANQQQEI----ASLQQQIEQIEKTRQGLVPLMYRM---IDGLEQFVAL 121
>gnl|CDD|180753 PRK06924, PRK06924, short chain dehydrogenase; Provisional.
Length = 251
Score = 28.9 bits (65), Expect = 2.1
Identities = 14/73 (19%), Positives = 29/73 (39%), Gaps = 10/73 (13%)
Query: 77 LVRGASKG--EGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELM 134
++ G S+G E + NQ L E + + +++ + ++ + L
Sbjct: 5 IITGTSQGLGEAIANQLL----EKGTHVISISRTENKELT----KLAEQYNSNLTFHSLD 56
Query: 135 LSDLERLERLFEK 147
L D+ LE F +
Sbjct: 57 LQDVHELETNFNE 69
>gnl|CDD|185452 PTZ00109, PTZ00109, DNA gyrase subunit b; Provisional.
Length = 903
Score = 29.1 bits (65), Expect = 2.1
Identities = 11/60 (18%), Positives = 22/60 (36%), Gaps = 12/60 (20%)
Query: 180 RSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMII 239
R LE L D P++K +N+++ + N+ E + + +I
Sbjct: 378 REFLEELIKDKTPLYKDINIISIR------------GVIKNVNVEVSLSWSLESYTALIK 425
>gnl|CDD|163431 TIGR03719, ABC_ABC_ChvD, ATP-binding cassette protein, ChvD family.
Members of this protein family have two copies of the
ABC transporter ATP-binding cassette, but are found
outside the common ABC transporter operon structure that
features integral membrane permease proteins and
substrate-binding proteins encoded next to the
ATP-binding cassette (ABC domain) protein. The member
protein ChvD from Agrobacterium tumefaciens was
identified as both a candidate to interact with VirB8,
based on yeast two-hybrid analysis, and as an apparent
regulator of VirG. The general function of this protein
family is unknown.
Length = 552
Score = 28.7 bits (65), Expect = 2.6
Identities = 24/73 (32%), Positives = 38/73 (52%), Gaps = 17/73 (23%)
Query: 6 GIIGLPN-VGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKD- 63
G+IG PN GKSTLF +T +P+SG + + + KLA + +S+D
Sbjct: 352 GVIG-PNGAGKSTLFRMITGQE------------QPDSGTIKIGETV--KLAYVDQSRDA 396
Query: 64 LVPTRMSFVDIAG 76
L P + + +I+G
Sbjct: 397 LDPNKTVWEEISG 409
>gnl|CDD|184332 PRK13796, PRK13796, GTPase YqeH; Provisional.
Length = 365
Score = 28.7 bits (65), Expect = 2.6
Identities = 9/16 (56%), Positives = 13/16 (81%)
Query: 7 IIGLPNVGKSTLFNAL 22
++G+ NVGKSTL N +
Sbjct: 165 VVGVTNVGKSTLINRI 180
>gnl|CDD|180287 PRK05849, PRK05849, hypothetical protein; Provisional.
Length = 783
Score = 28.0 bits (63), Expect = 4.3
Identities = 14/54 (25%), Positives = 27/54 (50%), Gaps = 7/54 (12%)
Query: 124 NDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLLQSIISSSLRLIEEGK 177
N I + ++ L DLE++E+L ++Y+ + + L I L+E+ K
Sbjct: 399 NRIISPKSGLFRKDLEKIEKL---EERYKELLNSNLDPLDKI----YWLLEDCK 445
>gnl|CDD|162666 TIGR02027, rpoA, DNA-directed RNA polymerase, alpha subunit,
bacterial and chloroplast-type. This family consists of
the bacterial (and chloroplast) DNA-directed RNA
polymerase alpha subunit, encoded by the rpoA gene. The
RNA polymerase catalyzes the transcription of DNA into
RNA using the four ribonucleoside triphosphates as
substrates. The amino terminal domain is involved in
dimerizing and assembling the other RNA polymerase
subunits into a transcriptionally active enzyme. The
carboxy-terminal domain contains determinants for
interaction with DNA and with transcriptional activator
proteins.
Length = 297
Score = 28.0 bits (63), Expect = 4.3
Identities = 15/53 (28%), Positives = 21/53 (39%)
Query: 224 EAVQRLASQQNAEMIIISAAIEAEISQLPEEERALFMEELDISISGLELLIRS 276
EA + L + + E Q EEE + L I I L+L +RS
Sbjct: 194 EAAKILIEHLEPFVNLDEEIEAFEEEQEEEEEELEDAKLLSIKIEELDLSVRS 246
>gnl|CDD|181855 PRK09435, PRK09435, membrane ATPase/protein kinase; Provisional.
Length = 332
Score = 27.9 bits (63), Expect = 4.5
Identities = 11/17 (64%), Positives = 12/17 (70%)
Query: 6 GIIGLPNVGKSTLFNAL 22
GI G+P VGKST AL
Sbjct: 60 GITGVPGVGKSTFIEAL 76
>gnl|CDD|182558 PRK10572, PRK10572, DNA-binding transcriptional regulator AraC;
Provisional.
Length = 290
Score = 27.6 bits (62), Expect = 5.0
Identities = 13/46 (28%), Positives = 21/46 (45%), Gaps = 14/46 (30%)
Query: 318 KGFIRALTISYKDYVAMGGENAAKEAGKARDEGKEYIVKDGDILHF 363
KG+I LTI G+ G + G+ ++ + GD+L F
Sbjct: 48 KGYILNLTIR--------GQ------GVIFNGGRAFVCRPGDLLLF 79
>gnl|CDD|183280 PRK11701, phnK, phosphonate C-P lyase system protein PhnK;
Provisional.
Length = 258
Score = 27.6 bits (62), Expect = 5.3
Identities = 32/106 (30%), Positives = 48/106 (45%), Gaps = 26/106 (24%)
Query: 6 GIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEV--AVPDPRMHKLAEIAESKD 63
GI+G GK+TL NAL SA+ A P++GEV + D ++ L ++E++
Sbjct: 36 GIVGESGSGKTTLLNAL----SARLA--------PDAGEVHYRMRDGQLRDLYALSEAER 83
Query: 64 --LVPTRMSFVD---IAGLVRGASKGEGLGNQFLA-------HIRE 97
L+ T FV GL S G +G + +A IR
Sbjct: 84 RRLLRTEWGFVHQHPRDGLRMQVSAGGNIGERLMAVGARHYGDIRA 129
>gnl|CDD|181623 PRK09047, PRK09047, RNA polymerase factor sigma-70; Validated.
Length = 161
Score = 27.6 bits (62), Expect = 5.8
Identities = 10/41 (24%), Positives = 21/41 (51%), Gaps = 7/41 (17%)
Query: 230 ASQQNAEMIIISAAIEAEISQLPEEERALFM----EELDIS 266
+ A+++ IE I +LP +R F+ E++D++
Sbjct: 89 DKLERAQVL---QLIEEAIQKLPARQREAFLLRYWEDMDVA 126
>gnl|CDD|182605 PRK10636, PRK10636, putative ABC transporter ATP-binding protein;
Provisional.
Length = 638
Score = 27.4 bits (61), Expect = 5.8
Identities = 14/34 (41%), Positives = 17/34 (50%)
Query: 2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPF 35
G K G++G GKSTL L SA +Y F
Sbjct: 27 GQKVGLVGKNGCGKSTLLALLKNEISADGGSYTF 60
>gnl|CDD|149105 pfam07851, TMPIT, TMPIT-like protein. A number of members of this
family are annotated as being transmembrane proteins
induced by tumour necrosis factor alpha, but no
literature was found to support this.
Length = 330
Score = 27.4 bits (61), Expect = 6.0
Identities = 13/45 (28%), Positives = 26/45 (57%), Gaps = 3/45 (6%)
Query: 142 ERLFEKNKKYRNHKSEEIVLLQSIISSSLRLIEEGKPVRSLLESL 186
++L E ++ Y+ K EE+ LQ +S++ + K ++ L+ SL
Sbjct: 14 QQLQETHRLYK-QKLEEVEKLQEQCTSAIA--RQRKRLKQLIVSL 55
>gnl|CDD|162913 TIGR02546, III_secr_ATP, type III secretion apparatus
H+-transporting two-sector ATPase.
Length = 422
Score = 27.3 bits (61), Expect = 6.3
Identities = 13/28 (46%), Positives = 15/28 (53%)
Query: 1 MGFKCGIIGLPNVGKSTLFNALTRTASA 28
G + GI VGKSTL + R ASA
Sbjct: 144 EGQRIGIFAGAGVGKSTLLGMIARGASA 171
>gnl|CDD|183825 PRK12903, secA, preprotein translocase subunit SecA; Reviewed.
Length = 925
Score = 27.3 bits (61), Expect = 6.3
Identities = 12/24 (50%), Positives = 14/24 (58%), Gaps = 1/24 (4%)
Query: 338 NAAKEAGKARDEGKEYIVKDGDIL 361
NA + A K E EYIV+DG I
Sbjct: 289 NALR-AHKVMKEDVEYIVRDGKIE 311
>gnl|CDD|179790 PRK04213, PRK04213, GTP-binding protein; Provisional.
Length = 201
Score = 27.2 bits (61), Expect = 6.8
Identities = 10/17 (58%), Positives = 11/17 (64%)
Query: 7 IIGLPNVGKSTLFNALT 23
+G NVGKSTL LT
Sbjct: 14 FVGRSNVGKSTLVRELT 30
>gnl|CDD|181142 PRK07846, PRK07846, mycothione reductase; Reviewed.
Length = 451
Score = 27.2 bits (61), Expect = 7.2
Identities = 22/62 (35%), Positives = 29/62 (46%), Gaps = 18/62 (29%)
Query: 65 VPTRMSFV---DIAGLVRGASKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRID 121
+PT+M FV D+A +R A++ LG A + V V R F GRID
Sbjct: 43 IPTKM-FVYAADVARTIREAAR---LGVD--AELDGVRWPDIVSRVF---------GRID 87
Query: 122 PI 123
PI
Sbjct: 88 PI 89
>gnl|CDD|129833 TIGR00750, lao, LAO/AO transport system ATPase. Mutations have
also been found that do not phosphorylate the
periplasmic binding proteins, yet still allow
transport. The ATPase activity of this protein seems to
be necessary, however.
Length = 300
Score = 27.0 bits (60), Expect = 7.3
Identities = 11/18 (61%), Positives = 11/18 (61%)
Query: 6 GIIGLPNVGKSTLFNALT 23
GI G P GKSTL AL
Sbjct: 38 GITGTPGAGKSTLLEALG 55
>gnl|CDD|162807 TIGR02323, CP_lyasePhnK, phosphonate C-P lyase system protein PhnK.
Members of this family are the PhnK protein of C-P
lyase systems for utilization of phosphonates. These
systems resemble phosphonatase-based systems in having a
three component ABC transporter, where TIGR01097 is the
permease, TIGR01098 is the phosphonates binding protein,
and TIGR02315 is the ATP-binding cassette (ABC) protein.
They differ, however, in having, typically, ten or more
additional genes, many of which are believed to form a
membrane-associated complex. This protein (PhnK) and the
adjacent-encoded PhnL resemble transporter ATP-binding
proteins but are suggested, based on mutatgenesis
studies, to be part of this complex rather than part of
a transporter per se.
Length = 253
Score = 27.1 bits (60), Expect = 7.4
Identities = 26/91 (28%), Positives = 37/91 (40%), Gaps = 11/91 (12%)
Query: 6 GIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLV 65
GI+G GKSTL L + T SG +++L+E AE + L+
Sbjct: 33 GIVGESGSGKSTLLGCLAGRLAPDHGT---ATYIMRSGAEL----ELYQLSE-AERRRLM 84
Query: 66 PTRMSFVD---IAGLVRGASKGEGLGNQFLA 93
T FV GL S G +G + +A
Sbjct: 85 RTEWGFVHQNPRDGLRMRVSAGANIGERLMA 115
>gnl|CDD|178224 PLN02615, PLN02615, arginase.
Length = 338
Score = 26.7 bits (59), Expect = 8.6
Identities = 19/69 (27%), Positives = 38/69 (55%), Gaps = 6/69 (8%)
Query: 162 LQSIISSSLRLIEEGKPVRSLLESLD-SDAIPIFKSLNLLTAKPILYICNVSEH----DC 216
L ++IS S++L+ E +P+R L+ D S + P+ ++++ P+ I ++ H
Sbjct: 131 LMNVISESVKLVMEEEPLRPLVLGGDHSISYPVVRAVSEKLGGPV-DILHLDAHPDIYHA 189
Query: 217 KKGNIYTEA 225
+GN Y+ A
Sbjct: 190 FEGNKYSHA 198
>gnl|CDD|183003 PRK11160, PRK11160, cysteine/glutathione ABC transporter
membrane/ATP-binding component; Reviewed.
Length = 574
Score = 26.7 bits (60), Expect = 9.0
Identities = 16/60 (26%), Positives = 26/60 (43%), Gaps = 15/60 (25%)
Query: 2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAES 61
G K ++G GKSTL LTR + +P GE+ + +A+ +E+
Sbjct: 366 GEKVALLGRTGCGKSTLLQLLTR-------AW-----DPQQGEILLNG---QPIADYSEA 410
>gnl|CDD|179225 PRK01112, PRK01112, phosphoglyceromutase; Provisional.
Length = 228
Score = 27.0 bits (60), Expect = 9.1
Identities = 18/50 (36%), Positives = 24/50 (48%), Gaps = 15/50 (30%)
Query: 170 LRLIEEGKPV---------RSL---LESLDSDAIPIFKSLNLLTAKPILY 207
L +++GK V RSL LE L + + SL L T KPI+Y
Sbjct: 167 LPHLQQGKNVFVSAHGNSLRSLIMDLEKLSEEEVL---SLELPTGKPIVY 213
>gnl|CDD|163576 TIGR03864, PQQ_ABC_ATP, ABC transporter, ATP-binding subunit,
PQQ-dependent alcohol dehydrogenase system. Members of
this protein family are the ATP-binding subunit of an
ABC transporter system that is associated with PQQ
biosynthesis and PQQ-dependent alcohol dehydrogenases.
While this family shows homology to several efflux ABC
transporter subunits, the presence of a periplasmic
substrate-binding protein and association with systems
for catabolism of alcohols suggests a role in import
rather than detoxification.
Length = 236
Score = 26.9 bits (60), Expect = 9.5
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 5 CGIIGLPNVGKSTLFNALTRTASAQA 30
++G GKSTLF+ LTR AQ
Sbjct: 30 VALLGPNGAGKSTLFSLLTRLYVAQE 55
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.318 0.136 0.383
Gapped
Lambda K H
0.267 0.0738 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 6,022,540
Number of extensions: 400859
Number of successful extensions: 1227
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1196
Number of HSP's successfully gapped: 80
Length of query: 367
Length of database: 5,994,473
Length adjustment: 95
Effective length of query: 272
Effective length of database: 3,941,713
Effective search space: 1072145936
Effective search space used: 1072145936
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (26.1 bits)