RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780711|ref|YP_003065124.1| signal recognition particle
protein [Candidatus Liberibacter asiaticus str. psy62]
(461 letters)
>gnl|CDD|30887 COG0541, Ffh, Signal recognition particle GTPase [Intracellular
trafficking and secretion].
Length = 451
Score = 546 bits (1408), Expect = e-156
Identities = 232/459 (50%), Positives = 317/459 (69%), Gaps = 9/459 (1%)
Query: 1 MFDNLQERLGSIFQNITGKGSLSETDISNTLREIRRTFLEADVSLEVVQSFSKRVQEKAK 60
MF++L +RL + + + GKG ++E D+ LREIRR LEADV+L+VV+ F KR++E+A
Sbjct: 1 MFESLSDRLSNALKKLRGKGRITEKDVKEALREIRRALLEADVNLKVVKDFIKRIKERAL 60
Query: 61 GEKILRSIQPGQMVIKIVHDELVEVLGKESIELDLNAPSPLVIMLVGLQGSGKTTTTAKI 120
GE++ + + PGQ IKIV++ELV++LG E+ EL+L P VI++VGLQGSGKTTT K+
Sbjct: 61 GEEVPKGLTPGQQFIKIVYEELVKLLGGENSELNLAKKPPTVILMVGLQGSGKTTTAGKL 120
Query: 121 AYHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSAR 180
A +LK K KK+L+ + D +RPAA EQL+ L EQ+ V E+ P +IA A + A+
Sbjct: 121 AKYLKK-KGKKVLLVAADTYRPAAIEQLKQLAEQVGVPFFGSGTEKDPVEIAKAALEKAK 179
Query: 181 DGGYDAVILDTAGRNHINDSLMQEISEIKSLTNPHEILLVADALTGQDAVHLARNFDKIV 240
+ GYD VI+DTAGR HI++ LM E+ EIK + NP E LLV DA+ GQDAV+ A+ F++ +
Sbjct: 180 EEGYDVVIVDTAGRLHIDEELMDELKEIKEVINPDETLLVVDAMIGQDAVNTAKAFNEAL 239
Query: 241 DLTGIILTRMDGDGRGGAALSMRTVTGKPIKAIGTGEKINDLENFFPDRIANRILGMGDV 300
+TG+ILT++DGD RGGAALS R +TGKPIK IGTGEKI+DLE F PDR A+RILGMGDV
Sbjct: 240 GITGVILTKLDGDARGGAALSARAITGKPIKFIGTGEKIDDLEPFHPDRFASRILGMGDV 299
Query: 301 VSLVEKAARNLNEKQAALTAKKIAKGKFDLEDLAEQFRQTQKIGGIGSILRMLPGMPSLK 360
+SL+EKA ++E++A A+K+ KGKF LED EQ Q +K+G + +L M+PGM +K
Sbjct: 300 LSLIEKAEEVVDEEEAEKLAEKLKKGKFTLEDFLEQLEQMKKMGPLSKLLSMIPGM-GMK 358
Query: 361 QNIMPSSFDDKTINHHIAIIASMTKEERANPSIIKHSRKKRIAAGSGTNAAKINKLLKLH 420
+ D+K + AII SMT EER NP II SRK+RIA GSGT+ +NKLLK
Sbjct: 359 DSDKDIELDEKKLKRIEAIIDSMTPEERENPDIINASRKRRIARGSGTSVQDVNKLLKQF 418
Query: 421 RQVAEMMHSTQGLGGNALTQQIMGRLKSKIGFGKNGRFP 459
+Q+ +MM G GG G++ + G+FP
Sbjct: 419 KQMKKMMKKMSGGGG-------KGKMMRGMKGMMGGKFP 450
>gnl|CDD|35999 KOG0780, KOG0780, KOG0780, Signal recognition particle, subunit
Srp54 [Intracellular trafficking, secretion, and
vesicular transport].
Length = 483
Score = 314 bits (805), Expect = 5e-86
Identities = 156/457 (34%), Positives = 238/457 (52%), Gaps = 8/457 (1%)
Query: 1 MFDNLQERLGSIFQNITGKGSLSETDISNTLREIRRTFLEADVSLEVVQSFSKRVQEKAK 60
+ L R+ S F ++ S+ ET ++ L+EI R LE+DV+ +V+ + +++
Sbjct: 2 VLAELGRRITSAFSRMSNATSIDETALNTMLKEICRALLESDVNPRLVKELRENIRKIIN 61
Query: 61 GEKILRSIQPGQMVIKIVHDELVEVLGKESIELDLNAPSPLVIMLVGLQGSGKTTTTAKI 120
EK+ + +++ K V DELV++L L P VIM VGLQGSGKTTT K+
Sbjct: 62 LEKLASGVNKRRIIQKAVFDELVKLLDPGKSALQPKKGKPSVIMFVGLQGSGKTTTCTKL 121
Query: 121 AYHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSAR 180
AY+ K K K+ + D R A +QL+ + +V E P KIA +
Sbjct: 122 AYYYKK-KGYKVALVCADTFRAGAFDQLKQNATKARVPFYGSYTEADPVKIASEGVDRFK 180
Query: 181 DGGYDAVILDTAGRNHINDSLMQEISEIKSLTNPHEILLVADALTGQDAVHLARNFDKIV 240
+D +I+DT+GR+ SL +E+ ++ P EI+ V DA GQ A AR F + V
Sbjct: 181 KENFDVIIVDTSGRHKQEASLFEEMKQVSKAIKPDEIIFVMDASIGQAAEAQARAFKETV 240
Query: 241 DLTGIILTRMDGDGRGGAALSMRTVTGKPIKAIGTGEKINDLENFFPDRIANRILGMGDV 300
D+ +ILT++DG +GG ALS T PI IGTGE ++DLE F P +R+LGMGD+
Sbjct: 241 DVGAVILTKLDGHAKGGGALSAVAATKSPIIFIGTGEHMDDLEPFDPKPFVSRLLGMGDI 300
Query: 301 VSLVEKAARNLNEKQAALTAKKIAKGKFDLEDLAEQFRQTQKIGGIGSILRMLPGMPSL- 359
LVEK + L +K+ +GKF L D +QF+ K+G + +L M+PGM +
Sbjct: 301 EGLVEKVQEVGKDDAKELV-EKLKQGKFTLRDFYDQFQNIMKMGPLSQVLGMIPGMSMMS 359
Query: 360 KQNIMPSSFDDKTINHHIAIIASMTKEERANPSII--KHSRKKRIAAGSGTNAAKINKLL 417
K N SS + + ++ SMT EE +P + + SR R+A GSGT+ ++ +LL
Sbjct: 360 KGNEEESS---AKLKRMMTMMDSMTDEELDSPELFVEEPSRIMRVARGSGTSVQEVMELL 416
Query: 418 KLHRQVAEMMHSTQGLGGNALTQQIMGRLKSKIGFGK 454
+++ A MM G+ G + + K
Sbjct: 417 AQYKKFAAMMKKIGGIKGIFGALGNPNKNMNPAPMAK 453
>gnl|CDD|144151 pfam00448, SRP54, SRP54-type protein, GTPase domain. This family
includes relatives of the G-domain of the SRP54 family
of proteins.
Length = 196
Score = 250 bits (641), Expect = 6e-67
Identities = 99/197 (50%), Positives = 136/197 (69%), Gaps = 1/197 (0%)
Query: 100 PLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDT 159
P VI+LVGLQGSGKTTT AK+A +LK + KK+L+ + D R AA EQL+ L E++ V
Sbjct: 1 PNVILLVGLQGSGKTTTIAKLAAYLK-KQGKKVLLVAADTFRAAAIEQLKQLAERLGVPV 59
Query: 160 LEVIPEQSPEKIAIRATQSARDGGYDAVILDTAGRNHINDSLMQEISEIKSLTNPHEILL 219
P +A A + A+ YD V++DTAGR + +LM E+ +IK + P E+LL
Sbjct: 60 FGSGTGSDPAAVAFDAVEKAKAENYDVVLVDTAGRLQNDKNLMDELKKIKRVIAPDEVLL 119
Query: 220 VADALTGQDAVHLARNFDKIVDLTGIILTRMDGDGRGGAALSMRTVTGKPIKAIGTGEKI 279
V DA TGQ+A++ A+ F++ V +TG+ILT++DGD +GGAALS+ TGKPIK IG GEKI
Sbjct: 120 VLDATTGQNALNQAKAFNEAVGITGVILTKLDGDAKGGAALSIAAETGKPIKFIGVGEKI 179
Query: 280 NDLENFFPDRIANRILG 296
+DLE F P+R +R+LG
Sbjct: 180 DDLEPFDPERFVSRLLG 196
>gnl|CDD|48379 cd03115, SRP, The signal recognition particle (SRP) mediates the
transport to or across the plasma membrane in bacteria
and the endoplasmic reticulum in eukaryotes. SRP
recognizes N-terminal sighnal sequences of newly
synthesized polypeptides at the ribosome. The
SRP-polypeptide complex is then targeted to the membrane
by an interaction between SRP and its cognated receptor
(SR). In mammals, SRP consists of six protein subunits
and a 7SL RNA. One of these subunits is a 54 kd protein
(SRP54), which is a GTP-binding protein that interacts
with the signal sequence when it emerges from the
ribosome. SRP54 is a multidomain protein that consists
of an N-terminal domain, followed by a central G
(GTPase) domain and a C-terminal M domain..
Length = 173
Score = 226 bits (577), Expect = 1e-59
Identities = 98/173 (56%), Positives = 130/173 (75%), Gaps = 1/173 (0%)
Query: 102 VIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTLE 161
VI+LVGLQG GKTTT AK+A +LK K KK+L+ + D +RPAA EQLR LGEQ+ V E
Sbjct: 2 VILLVGLQGVGKTTTAAKLALYLKK-KGKKVLLVAADTYRPAAIEQLRVLGEQVGVPVFE 60
Query: 162 VIPEQSPEKIAIRATQSARDGGYDAVILDTAGRNHINDSLMQEISEIKSLTNPHEILLVA 221
+ P IA RA + AR+ +D VI+DTAGR I+++LM+E+ +IK + P E+LLV
Sbjct: 61 EGEGKDPVSIAKRAIEHAREENFDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVV 120
Query: 222 DALTGQDAVHLARNFDKIVDLTGIILTRMDGDGRGGAALSMRTVTGKPIKAIG 274
DA+TGQDAV+ A+ F++ + +TG+ILT++DGD RGGAALS+R VTGKPIK IG
Sbjct: 121 DAMTGQDAVNQAKAFNEALGITGVILTKLDGDARGGAALSIRAVTGKPIKFIG 173
>gnl|CDD|30898 COG0552, FtsY, Signal recognition particle GTPase [Intracellular
trafficking and secretion].
Length = 340
Score = 212 bits (542), Expect = 1e-55
Identities = 107/312 (34%), Positives = 162/312 (51%), Gaps = 20/312 (6%)
Query: 1 MFDNLQERLGSIFQNITGK------GSLSETDISNTLREIRRTFLEADVSLEVVQSFSKR 54
F+ L++ L +N + E + L E+ +EADV +E + +
Sbjct: 33 WFERLKQGLSKTKKNFGKGIKGLFLKKIKEKLDEDLLEELEELLIEADVGVETAEEIIEE 92
Query: 55 VQEKAKGEKILRSIQPGQMVIKIVHDELVEVLGK----ESIELDLNAPSPLVIMLVGLQG 110
++ K E + I+ + V + + + L+E+L + P VI+ VG+ G
Sbjct: 93 LR---KREGKKKKIKDEETVKEALREALIEILRPVDKVDLPLEIPKEKKPFVILFVGVNG 149
Query: 111 SGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTLEVIPEQSPEK 170
GKTTT AK+A +LK + K +L+A+ D R AA EQL GE++ V + P
Sbjct: 150 VGKTTTIAKLAKYLKQ-QGKSVLLAAGDTFRAAAIEQLEVWGERLGVPVISGKEGADPAA 208
Query: 171 IAIRATQSARDGGYDAVILDTAGRNHINDSLMQEISEIKSLTN------PHEILLVADAL 224
+A A Q+A+ G D V++DTAGR H +LM E+ +I + PHEILLV DA
Sbjct: 209 VAFDAIQAAKARGIDVVLIDTAGRLHNKKNLMDELKKIVRVIKKDDPDAPHEILLVLDAT 268
Query: 225 TGQDAVHLARNFDKIVDLTGIILTRMDGDGRGGAALSMRTVTGKPIKAIGTGEKINDLEN 284
TGQ+A+ A+ F++ V L GIILT++DG +GG LS+ G PIK IG GE +DL
Sbjct: 269 TGQNALSQAKIFNEAVGLDGIILTKLDGTAKGGIILSIAYELGIPIKFIGVGEGYDDLRP 328
Query: 285 FFPDRIANRILG 296
F + + +LG
Sbjct: 329 FDAEWFVDALLG 340
>gnl|CDD|36000 KOG0781, KOG0781, KOG0781, Signal recognition particle receptor,
alpha subunit [Intracellular trafficking, secretion, and
vesicular transport].
Length = 587
Score = 145 bits (368), Expect = 2e-35
Identities = 94/306 (30%), Positives = 158/306 (51%), Gaps = 22/306 (7%)
Query: 11 SIFQNITGKGSLSETDISNTLREIRRTFLEADVSLEVVQSFSKRVQEKAKGEKILRSIQP 70
+F+ + G SLSE D++ L ++ + +V+ E+ + + V +G+K+
Sbjct: 282 GLFKGLVGSKSLSEEDLNPVLDKMTEHLITKNVAAEIAEKLCESVAASLEGKKVGSFSTV 341
Query: 71 GQMVIKIVHDELVEVLG-KESIEL--DLNAPS----PLVIMLVGLQGSGKTTTTAKIAYH 123
V + + D LV++L + S++L D+ + P VI VG+ G GK+T AKIAY
Sbjct: 342 ESTVKEALRDALVQILTPQRSVDLLRDIMSARRRKRPYVISFVGVNGVGKSTNLAKIAYW 401
Query: 124 LKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTLEVIP------EQSPEKIAIRATQ 177
L K ++L+A+ D R A EQLR E++ ++ + +A A Q
Sbjct: 402 L-LQNKFRVLIAACDTFRSGAVEQLRTHVERLSALHGTMVELFEKGYGKDAAGVAKEAIQ 460
Query: 178 SARDGGYDAVILDTAGRNHINDSLMQEISEIKSLTNPHEILLVADALTGQDAVHLARNFD 237
AR+ G+D V++DTAGR H N LM ++++ + P IL V +AL G D+V + F+
Sbjct: 461 EARNQGFDVVLIDTAGRMHNNAPLMTSLAKLIKVNKPDLILFVGEALVGNDSVDQLKKFN 520
Query: 238 KIV-------DLTGIILTRMDG-DGRGGAALSMRTVTGKPIKAIGTGEKINDLENFFPDR 289
+ + + GI+LT+ D D + GAA+SM +TGKPI +G G+ +DL
Sbjct: 521 RALADHSTPRLIDGILLTKFDTVDDKVGAAVSMVYITGKPILFVGVGQTYSDLRKLNVKA 580
Query: 290 IANRIL 295
+ ++
Sbjct: 581 VVATLM 586
>gnl|CDD|145891 pfam02978, SRP_SPB, Signal peptide binding domain.
Length = 100
Score = 127 bits (321), Expect = 8e-30
Identities = 47/101 (46%), Positives = 65/101 (64%), Gaps = 1/101 (0%)
Query: 327 KFDLEDLAEQFRQTQKIGGIGSILRMLPGMPSLKQNIMPSSFDDKTINHHIAIIASMTKE 386
KF L D EQ +Q +K+G + +L M+PGM L + + D+K + AII SMT +
Sbjct: 1 KFTLRDFLEQLQQIKKMGPLSKLLSMIPGMGKLPK-LAEQELDEKKLKRIEAIIDSMTPK 59
Query: 387 ERANPSIIKHSRKKRIAAGSGTNAAKINKLLKLHRQVAEMM 427
ER NP II SRK+RIA GSGT+ ++NKLLK +Q+ +MM
Sbjct: 60 ERDNPEIINGSRKRRIAKGSGTSVQEVNKLLKQFKQMKKMM 100
>gnl|CDD|31609 COG1419, FlhF, Flagellar GTP-binding protein [Cell motility and
secretion].
Length = 407
Score = 95.8 bits (238), Expect = 2e-20
Identities = 65/212 (30%), Positives = 108/212 (50%), Gaps = 10/212 (4%)
Query: 88 KESIELDLNAPSPLVIMLVGLQGSGKTTTTAKIAYHLKTL-KKKKILMASLDVHRPAAQE 146
S+ +L VI LVG G GKTTT AK+A L KKKK+ + + D +R A E
Sbjct: 191 LLSLIENLIVEQKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVE 250
Query: 147 QLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSARDGGYDAVILDTAGRNHINDSLMQEIS 206
QL+ + + V LEV+ SP+++A D +++DTAGR+ + ++E+
Sbjct: 251 QLKTYADIMGVP-LEVV--YSPKELAEAIEALRD---CDVILVDTAGRSQYDKEKIEELK 304
Query: 207 EIKSLTNPHEILLVADALT-GQDAVHLARNFDKIVDLTGIILTRMDGDGRGGAALSMRTV 265
E+ +++ E+ LV A T +D + + F + + G+I T++D G S+
Sbjct: 305 ELIDVSHSIEVYLVLSATTKYEDLKEIIKQF-SLFPIDGLIFTKLDETTSLGNLFSLMYE 363
Query: 266 TGKPIKAIGTGEKI-NDLENFFPDRIANRILG 296
T P+ + G+++ D+ PD + RILG
Sbjct: 364 TRLPVSYVTNGQRVPEDIVVANPDYLVRRILG 395
>gnl|CDD|145830 pfam02881, SRP54_N, SRP54-type protein, helical bundle domain.
Length = 77
Score = 57.2 bits (139), Expect = 8e-09
Identities = 21/81 (25%), Positives = 35/81 (43%), Gaps = 7/81 (8%)
Query: 5 LQERLGSIFQNITGKGS---LSETDISNTLREIRRTFLEADVSLEVVQSFSKRVQEKAKG 61
L+E L + GK L E I L E+ LEADV +E + +R++E
Sbjct: 1 LKEGLSKTRSKLGGKIKDLFLGEKKIDELLEELEEALLEADVGVETTEKIIERLKELVGR 60
Query: 62 EKILRSIQPGQMVIKIVHDEL 82
+ + + + K + +EL
Sbjct: 61 ----KGLSDPEEIKKALKEEL 77
>gnl|CDD|73298 cd02035, ArsA, ArsA ATPase functionas as an efflux pump located on
the inner membrane of the cell. This ATP-driven oxyanion
pump catalyzes the extrusion of arsenite, antimonite and
arsenate. Maintenance of a low intracellular
concentration of oxyanion produces resistance to the
toxic agents. The pump is composed of two subunits, the
catalytic ArsA subunit and the membrane subunit ArsB,
which are encoded by arsA and arsB genes respectively.
Arsenic efflux in bacteria is catalyzed by either ArsB
alone or by ArsAB complex. The ATP-coupled pump,
however, is more efficient. ArsA is composed of two
homologous halves, A1 and A2, connected by a short
linker sequence..
Length = 217
Score = 38.7 bits (90), Expect = 0.003
Identities = 36/154 (23%), Positives = 55/154 (35%), Gaps = 40/154 (25%)
Query: 102 VIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTLE 161
VI G G GKTT A A L + KK+L+ S D + + L L + V+ E
Sbjct: 1 VIFFTGKGGVGKTTIAAATAVRL-AEEGKKVLLVSTDPAHNLSDKGLPNLSDAFIVEDPE 59
Query: 162 VIPEQSPEKIA--------------------------------IRATQSARDGGYDAVIL 189
+ P E++ + + +G YD ++
Sbjct: 60 IAPNLYREEVDATRRVERAWGGEGGLMLELAAALPGIEELASLLAVFREFSEGLYDVIVF 119
Query: 190 DTAGRNHINDSLMQEISEIKSLTNPHE--ILLVA 221
DTA H L++E+ LT+P LV
Sbjct: 120 DTAPTGHTLRLLVREL-----LTDPERTSFRLVT 148
>gnl|CDD|38089 KOG2878, KOG2878, KOG2878, Predicted kinase [General function
prediction only].
Length = 282
Score = 38.9 bits (90), Expect = 0.003
Identities = 17/52 (32%), Positives = 24/52 (46%), Gaps = 2/52 (3%)
Query: 100 PLVIMLVGLQGSGKTTTTAKIAYHL--KTLKKKKILMASLDVHRPAAQEQLR 149
PLVI G QGSGK+T + Y L K +++ S+D + Q
Sbjct: 31 PLVIGFSGPQGSGKSTLVFALDYKLTKKYIQEYSSATISVDDFYLTHEGQAE 82
>gnl|CDD|33963 COG4240, COG4240, Predicted kinase [General function prediction
only].
Length = 300
Score = 38.4 bits (89), Expect = 0.004
Identities = 19/73 (26%), Positives = 31/73 (42%), Gaps = 7/73 (9%)
Query: 69 QPGQMVIKIVHDELVEVLGK---ESIELDLNAPSPLVIMLVGLQGSGKTTTTAKIAYHLK 125
+ + D + +L K + E PL++ + G QGSGK+T +A I L
Sbjct: 20 RLPPAFAALAQDLHLPLLAKIAPWAQERG----RPLIVGISGPQGSGKSTLSALIVRLLA 75
Query: 126 TLKKKKILMASLD 138
++ SLD
Sbjct: 76 AKGLERTATLSLD 88
>gnl|CDD|73290 cd01983, Fer4_NifH, The Fer4_NifH superfamily contains a variety of
proteins which share a common ATP-binding domain.
Functionally, proteins in this superfamily use the
energy from hydrolysis of NTP to transfer electron or
ion..
Length = 99
Score = 36.2 bits (83), Expect = 0.017
Identities = 13/33 (39%), Positives = 19/33 (57%)
Query: 102 VIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILM 134
VI++ G G GKTT A +A L K+ +L+
Sbjct: 1 VIVVTGKGGVGKTTLAANLAAALAKRGKRVLLI 33
>gnl|CDD|31385 COG1192, Soj, ATPases involved in chromosome partitioning [Cell
division and chromosome partitioning].
Length = 259
Score = 34.4 bits (78), Expect = 0.071
Identities = 31/180 (17%), Positives = 57/180 (31%), Gaps = 42/180 (23%)
Query: 110 GSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDT---------- 159
G GKTTT +A L KK+L+ LD +LG + ++
Sbjct: 13 GVGKTTTAVNLAAALAKRGGKKVLLIDLDPQGSL----TSWLGLRPDLEGDLYNLLSGLK 68
Query: 160 --------------LEVIPE-------------QSPEKIAIRATQSARDGGYDAVILDTA 192
L++IP +++ ++ YD +I+DT
Sbjct: 69 ERPDILDYTVVIEGLDLIPSNIDLAEGAEIELNAVAKELLLKRLLDPVKDDYDYIIIDTP 128
Query: 193 -GRNHINDSLMQEISEIKSLTNPHEILLVADALTGQDAVHLARNFDKIVDLTGIILTRMD 251
+ + + + P + L L + + + GI++TR D
Sbjct: 129 PSLGVLTLNALAAADHVLIPVQPEFLDLEGLEQLLNTLEDLLKLRRNKLIVVGILITRFD 188
>gnl|CDD|110585 pfam01591, 6PF2K, 6-phosphofructo-2-kinase. This enzyme occurs as
a bifunctional enzyme with fructose-2,6-bisphosphatase.
The bifunctional enzyme catalyses both the synthesis and
degradation of fructose-2,6-bisphosphate, a potent
regulator of glycolysis. This enzyme contains a P-loop
motif.
Length = 223
Score = 33.8 bits (78), Expect = 0.10
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 99 SPLVIMLVGLQGSGKTTTTAKIAYHLKTL 127
S +I++VGL GKT + K+ +L L
Sbjct: 12 SKTMIVMVGLPARGKTYISKKLTRYLNWL 40
>gnl|CDD|133254 cd00878, Arf_Arl, Arf (ADP-ribosylation factor)/Arl (Arf-like)
small GTPases. Arf proteins are activators of
phospholipase D isoforms. Unlike Ras proteins they lack
cysteine residues at their C-termini and therefore are
unlikely to be prenylated. Arfs are N-terminally
myristoylated. Members of the Arf family are regulators
of vesicle formation in intracellular traffic that
interact reversibly with membranes of the secretory and
endocytic compartments in a GTP-dependent manner. They
depart from other small GTP-binding proteins by a unique
structural device, interswitch toggle, that implements
front-back communication from N-terminus to the
nucleotide binding site. Arf-like (Arl) proteins are
close relatives of the Arf, but only Arl1 has been shown
to function in membrane traffic like the Arf proteins.
Arl2 has an unrelated function in the folding of native
tubulin, and Arl4 may function in the nucleus. Most
other Arf family proteins are so far relatively poorly
characterized. Thus, despite their significant sequence
homologies, Arf family proteins may regulate unrelated
functions.
Length = 158
Score = 33.3 bits (77), Expect = 0.13
Identities = 17/61 (27%), Positives = 31/61 (50%), Gaps = 15/61 (24%)
Query: 103 IMLVGLQGSGKTT------------TTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLRY 150
I+++GL G+GKTT T I ++++T++ K + DV Q+++R
Sbjct: 2 ILILGLDGAGKTTILYKLKLGEVVTTIPTIGFNVETVEYKNVSFTVWDV---GGQDKIRP 58
Query: 151 L 151
L
Sbjct: 59 L 59
>gnl|CDD|29986 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 = 32.4 bits (73), Expect = 0.26
Identities = 27/133 (20%), Positives = 56/133 (42%), Gaps = 14/133 (10%)
Query: 102 VIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTLE 161
+I++ G GSGKTT ++A ++ T K K++ ++ E+L + +D L
Sbjct: 1 LILVFGPTGSGKTTLALQLALNIAT-KGGKVVYVDIEEEIEELTERLIGESLKGALDNLI 59
Query: 162 VI----PEQSPEKIAIRATQSARDGGYDAVILDTAGRNHINDS---------LMQEISEI 208
++ + + ++ +A + GG D +ILD R L +E+ E+
Sbjct: 60 IVFATADDPAAARLLSKAERLRERGGDDLIILDELTRLVRALREIREGYPGELDEELREL 119
Query: 209 KSLTNPHEILLVA 221
+ ++
Sbjct: 120 LERARKGGVTVIF 132
>gnl|CDD|32257 COG2074, COG2074, 2-phosphoglycerate kinase [Carbohydrate transport
and metabolism].
Length = 299
Score = 32.2 bits (73), Expect = 0.35
Identities = 26/95 (27%), Positives = 45/95 (47%), Gaps = 9/95 (9%)
Query: 36 RTFLEADVSLEVVQSFSKRVQEKAKGEKILRSIQPGQMVIKIVHDELVEVLGKESIELDL 95
R+ A V ++ S + +QE+ K E I R + + I+ V+ +L+E E + L
Sbjct: 22 RSLTAAGVDPDLAYSIAIEIQEELKKEGI-RLVTKDE--IREVYQKLLEKGDPEVAKRYL 78
Query: 96 ------NAPSPLVIMLVGLQGSGKTTTTAKIAYHL 124
PL+I++ G G GK+T ++A L
Sbjct: 79 LWRRIRKMKRPLIILIGGASGVGKSTIAGELARRL 113
>gnl|CDD|144508 pfam00931, NB-ARC, NB-ARC domain.
Length = 285
Score = 31.5 bits (72), Expect = 0.46
Identities = 12/41 (29%), Positives = 21/41 (51%), Gaps = 4/41 (9%)
Query: 80 DELVEVLGKESIELDLNAPSPLVIMLVGLQGSGKTTTTAKI 120
D + ++ K L + + V+ +VG+ G GKTT +I
Sbjct: 3 DMIEALIEK----LLEMSENLGVVGIVGMGGVGKTTLAKQI 39
>gnl|CDD|36745 KOG1532, KOG1532, KOG1532, GTPase XAB1, interacts with DNA repair
protein XPA [Replication, recombination and repair].
Length = 366
Score = 31.5 bits (71), Expect = 0.52
Identities = 18/48 (37%), Positives = 28/48 (58%), Gaps = 4/48 (8%)
Query: 99 SPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQE 146
P++I++VG+ GSGKTT ++ HL KK + +LD PA +
Sbjct: 18 RPVIILVVGMAGSGKTTFMQRLNSHLHA-KKTPPYVINLD---PAVRN 61
>gnl|CDD|31114 COG0771, MurD, UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell
envelope biogenesis, outer membrane].
Length = 448
Score = 31.4 bits (71), Expect = 0.57
Identities = 19/69 (27%), Positives = 34/69 (49%), Gaps = 5/69 (7%)
Query: 67 SIQPGQMVIKIVHDELVEVLGKESIELDLNAPSPLVIMLVGLQGS-GKTTTTAKIAYHLK 125
I P +++ +E++G + L+ +P+V + G+ GKTTTT+ IA+ LK
Sbjct: 78 GIPPTHPLVEAAKAAGIEIIGDIELFYRLSGEAPIV----AITGTNGKTTTTSLIAHLLK 133
Query: 126 TLKKKKILM 134
+L
Sbjct: 134 AAGLDALLG 142
>gnl|CDD|73302 cd02042, ParA, ParA and ParB of Caulobacter crescentus belong to a
conserved family of bacterial proteins implicated in
chromosome segregation. ParB binds to DNA sequences
adjacent to the origin of replication and localizes to
opposite cell poles shortly following the initiation of
DNA replication. ParB regulates the ParA ATPase activity
by promoting nucleotide exchange in a fashion
reminiscent of the exchange factors of eukaryotic G
proteins. ADP-bound ParA binds single-stranded DNA,
whereas the ATP-bound form dissociates ParB from its DNA
binding sites. Increasing the fraction of ParA-ADP in
the cell inhibits cell division, suggesting that this
simple nucleotide switch may regulate cytokinesis. ParA
shares sequence similarity to a conserved and widespread
family of ATPases which includes the repA protein of the
repABC operon in R. etli Sym plasmid. This operon is
involved in the plasmid replication and partition..
Length = 104
Score = 31.0 bits (70), Expect = 0.69
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 1/29 (3%)
Query: 110 GSGKTTTTAKIAYHLKTLKKKKILMASLD 138
G GKTTT +A L + K++L+ LD
Sbjct: 10 GVGKTTTAVNLAAAL-ARRGKRVLLIDLD 37
>gnl|CDD|31889 COG1703, ArgK, Putative periplasmic protein kinase ArgK and related
GTPases of G3E family [Amino acid transport and
metabolism].
Length = 323
Score = 31.1 bits (70), Expect = 0.72
Identities = 26/114 (22%), Positives = 50/114 (43%), Gaps = 15/114 (13%)
Query: 92 ELDLNAPSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLRYL 151
L + VI + G+ G+GK+T + L+ + ++ + ++D P + L
Sbjct: 43 ALYPRTGNAHVIGITGVPGAGKSTLIEALGRELRE-RGHRVAVLAVDPSSPFTGGSI--L 99
Query: 152 GEQIQVDTLEVIPEQSPEKIAIRAT-----QSARD-------GGYDAVILDTAG 193
G++I++ L V P R T ++ R+ GYD +I++T G
Sbjct: 100 GDRIRMQRLAVDPGVFIRSSPSRGTLGGLSRATREAIKLLDAAGYDVIIVETVG 153
>gnl|CDD|147155 pfam04851, ResIII, Type III restriction enzyme, res subunit.
Length = 103
Score = 31.0 bits (71), Expect = 0.74
Identities = 17/47 (36%), Positives = 22/47 (46%), Gaps = 4/47 (8%)
Query: 103 IMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLR 149
++V GSGKT T AK+ L KKK + + V R EQ
Sbjct: 21 GLIVMATGSGKTLTAAKLIARLLKGKKKVLFL----VPRKDLLEQAL 63
>gnl|CDD|146036 pfam03205, MobB, Molybdopterin guanine dinucleotide synthesis
protein B. This protein contains a P-loop.
Length = 122
Score = 30.8 bits (70), Expect = 0.77
Identities = 12/38 (31%), Positives = 22/38 (57%)
Query: 102 VIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDV 139
++++VG + SGKTT K+ +LK + ++ LD
Sbjct: 2 IVLVVGPKDSGKTTLIRKLLNYLKRRGYRVAVVKHLDH 39
>gnl|CDD|109652 pfam00604, Flu_PB2, Influenza RNA-dependent RNA polymerase subunit
PB2. PB2 can bind 5' end cap structure of RNA.
Length = 759
Score = 31.0 bits (70), Expect = 0.78
Identities = 23/69 (33%), Positives = 28/69 (40%), Gaps = 4/69 (5%)
Query: 245 IILTRMDGDGRGG---AALSMRTVTGKPIKAIGTGEKINDLENFFPDRIANRILGMGDVV 301
L + G A L V GK G IN+L N AN ++G GDVV
Sbjct: 673 GALPEDPDEETMGVESAVLRGFLVLGKEDPRYGPALTINELSNLAKGEKANVLIGQGDVV 732
Query: 302 SLVEKAARN 310
LV K R+
Sbjct: 733 -LVMKRKRD 740
>gnl|CDD|31829 COG1643, HrpA, HrpA-like helicases [DNA replication, recombination,
and repair].
Length = 845
Score = 30.7 bits (69), Expect = 0.85
Identities = 30/112 (26%), Positives = 44/112 (39%), Gaps = 16/112 (14%)
Query: 102 VIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILM------ASLDVHRPAAQEQLRYLGEQI 155
V+++VG GSGKTT + KI A+ V A+E LGE +
Sbjct: 67 VVIIVGETGSGKTTQLPQFLLEEGLGIAGKIGCTQPRRLAARSVAERVAEELGEKLGETV 126
Query: 156 --------QVDTLEVIPEQSPEKIAIRATQSARD-GGYDAVILDTAGRNHIN 198
+V I + + I +R Q+ GY VI+D A +N
Sbjct: 127 GYSIRFESKVSPRTRI-KVMTDGILLREIQNDPLLSGYSVVIIDEAHERSLN 177
>gnl|CDD|173942 cd08183, Fe-ADH2, Iron-containing alcohol dehydrogenases-like.
Iron-containing alcohol dehydrogenases (Fe-ADH). Alcohol
dehydrogenase catalyzes the reduction of acetaldehyde to
alcohol with NADP as cofactor. Its activity requires
iron ions. The protein structure represents a
dehydroquinate synthase-like fold and is a member of the
iron-activated alcohol dehydrogenase-like family. They
are distinct from other alcohol dehydrogenases which
contains different protein domain. Proteins of this
family have not been characterized. Their specific
function is unknown. They are mainly found in bacteria.
Length = 374
Score = 30.6 bits (70), Expect = 1.0
Identities = 18/54 (33%), Positives = 23/54 (42%), Gaps = 10/54 (18%)
Query: 146 EQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSARDGGYDAVI-------LDTA 192
E LR G I+V + V E S E + A AR+ G D VI +D
Sbjct: 41 EALRAAG--IEVTHVVVAGEPSVELVD-AAVAEARNAGCDVVIAIGGGSVIDAG 91
>gnl|CDD|177094 CHL00195, ycf46, Ycf46; Provisional.
Length = 489
Score = 30.4 bits (69), Expect = 1.1
Identities = 12/25 (48%), Positives = 18/25 (72%)
Query: 98 PSPLVIMLVGLQGSGKTTTTAKIAY 122
P+P ++LVG+QG+GK+ T IA
Sbjct: 257 PTPRGLLLVGIQGTGKSLTAKAIAN 281
>gnl|CDD|37264 KOG2053, KOG2053, KOG2053, Mitochondrial inheritance and actin
cytoskeleton organization protein [Cytoskeleton].
Length = 932
Score = 30.3 bits (68), Expect = 1.1
Identities = 16/83 (19%), Positives = 27/83 (32%), Gaps = 1/83 (1%)
Query: 120 IAYHLKTLKKKKILMASLD-VHRPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQS 178
KTL K I +L + A+ R + + S ++ +
Sbjct: 492 AYELYKTLDIKNIQTDTLGHLIFRRAETSGRSSFASNTFNEHLKFYDSSLKETPEYIALA 551
Query: 179 ARDGGYDAVILDTAGRNHINDSL 201
R G Y + A R+ + SL
Sbjct: 552 YRRGAYSKIPEMLAFRDRLMHSL 574
>gnl|CDD|30909 COG0563, Adk, Adenylate kinase and related kinases [Nucleotide
transport and metabolism].
Length = 178
Score = 30.2 bits (68), Expect = 1.3
Identities = 19/64 (29%), Positives = 32/64 (50%), Gaps = 8/64 (12%)
Query: 103 IMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQ--VDTL 160
I+++G G+GK+T K+A KK + AA + LGE+I+ +D
Sbjct: 3 ILILGPPGAGKSTLAKKLA------KKLGLPHLDTGDILRAAIAERTELGEEIKKYIDKG 56
Query: 161 EVIP 164
E++P
Sbjct: 57 ELVP 60
>gnl|CDD|37013 KOG1802, KOG1802, KOG1802, RNA helicase nonsense mRNA reducing
factor (pNORF1) [RNA processing and modification].
Length = 935
Score = 30.0 bits (67), Expect = 1.4
Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 3/49 (6%)
Query: 88 KESIELDLNAPSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMAS 136
+++ L P + ++ G G+GKT T+A I YHL +L+ +
Sbjct: 416 SNAVKHVLQRP---LSLIQGPPGTGKTVTSATIVYHLARQHAGPVLVCA 461
>gnl|CDD|30812 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational
modification, protein turnover, chaperones].
Length = 494
Score = 30.1 bits (67), Expect = 1.4
Identities = 22/100 (22%), Positives = 36/100 (36%), Gaps = 9/100 (9%)
Query: 31 LREIRRTFLEADVSLEVVQSFSKRVQEKAKGEKILRSIQPGQMVIKIVHDELVEVLGKES 90
LRE+RR + V + + +K + + + I E + KE+
Sbjct: 198 LRELRRAIDLVGEYIGVTEDDFEEALKKVLPSRGVLFEDEDVTLDDIGGLEEAKEELKEA 257
Query: 91 IELDL---------NAPSPLVIMLVGLQGSGKTTTTAKIA 121
IE L P ++L G G+GKT +A
Sbjct: 258 IETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVA 297
>gnl|CDD|73299 cd02036, MinD, Bacterial cell division requires the formation of a
septum at mid-cell. The site is determined by the min
operon products MinC, MinD and MinE. MinC is a
nonspecific inhibitor of the septum protein FtsZ. MinE
is the supressor of MinC. MinD plays a pivotal role,
selecting the mid-cell over other sites through the
activation and regulation of MinC and MinE. MinD is a
membrane-associated ATPase, related to nitrogenase iron
protein. More distantly related proteins include
flagellar biosynthesis proteins and ParA chromosome
partitioning proteins. MinD is a monomer..
Length = 179
Score = 29.8 bits (67), Expect = 1.5
Identities = 25/111 (22%), Positives = 45/111 (40%), Gaps = 20/111 (18%)
Query: 102 VIMLVGLQGSGKTTTTAKIAYHLKTLKKKKIL------MASLDVHRPAAQEQLRYLGEQI 155
+++ G G GKTTTTA + L L K +L + +LD+ L ++
Sbjct: 2 IVVTSGKGGVGKTTTTANLGTALAQLGYKVVLIDADLGLRNLDLI--------LGLENRV 53
Query: 156 QVDTLEVIPEQ-----SPEKIAIRATQSARDGGYDAVILDTAGRNHINDSL 201
+V+ SP I R +A +A+++ T + + D+
Sbjct: 54 VYTLHDVLAGDYILIDSPAGIE-RGFITAIAPADEALLVTTPEISSLRDAD 103
>gnl|CDD|36142 KOG0924, KOG0924, KOG0924, mRNA splicing factor ATP-dependent RNA
helicase [RNA processing and modification].
Length = 1042
Score = 30.0 bits (67), Expect = 1.6
Identities = 44/215 (20%), Positives = 77/215 (35%), Gaps = 36/215 (16%)
Query: 3 DNLQERLGSIFQNITGKGSLSETDISNTLREIRRTFLEADVSLEVVQSFSKRVQEKAKGE 62
+ G+ N+ G + E + V S+ V E A +
Sbjct: 295 KKHWKLAGTALGNVMG--------LEKKNDEDGKVAYRGSVKFASHMKKSEAVSEFASKK 346
Query: 63 KILRSIQPGQMVIKIVHDELVEVLGKESIELDLNAPSPLVIMLVGLQGSGKTTTTAKIAY 122
I Q + + D+L+ V+ + V+++VG GSGKTT A+ Y
Sbjct: 347 SIRE--QRQYLPVFACRDQLLSVIRENQ-----------VVVIVGETGSGKTTQLAQYLY 393
Query: 123 HLKTLKKKKI------LMASLDVHRPAAQEQLRYLGEQI-------QVDTLEVIPEQSPE 169
I +A++ V + A+E LG+ + V + + + +
Sbjct: 394 EDGYADNGMIGCTQPRRVAAISVAKRVAEEMGVTLGDTVGYSIRFEDVTSEDTKIKYMTD 453
Query: 170 KIAIRATQSARD-GGYDAVILDTAGRNHIN-DSLM 202
I +R + RD Y +I+D A +N D L
Sbjct: 454 GILLRESLKDRDLDKYSVIIMDEAHERSLNTDILF 488
>gnl|CDD|29614 cd01567, NAPRTase_PncB, Nicotinate phosphoribosyltransferase
(NAPRTase) family. Nicotinate phosphoribosyltransferase
catalyses the formation of NAMN and PPi from
5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic
acid, this is the first, and also rate limiting,
reaction in the NAD salvage synthesis. This salvage
pathway serves to recycle NAD degradation products..
Length = 343
Score = 29.9 bits (67), Expect = 1.6
Identities = 32/148 (21%), Positives = 47/148 (31%), Gaps = 30/148 (20%)
Query: 212 TNPHEILLVADALTGQDAVHLARNFDKIVDLTGIILTRMDGDGRGGAALSMRTVTGKPIK 271
T H + AL AR + GI L G
Sbjct: 203 TMAHSWIQAFGALEEAAFEAFARWLPQFGGGLGIALIDTYDTDNG--------------- 247
Query: 272 AIGTGEKINDLENFFPDRIANRILGM----GDVVSLVEKAARNLNEKQAALTAKKI-AKG 326
+N L+ +LG+ GD V L++K ++L+E L KKI G
Sbjct: 248 ------FLNALKLAKALGAGGGLLGVRLDSGDPVELIKKVRKHLDELGIDLNKKKIIISG 301
Query: 327 KFDLEDLAEQFRQTQKIG----GIGSIL 350
D E+ E + G+G+ L
Sbjct: 302 DLDTEEAIELLLEQGASPNDAFGVGTSL 329
>gnl|CDD|48380 cd03116, MobB, Molybdenum is an essential trace element in the form
of molybdenum cofactor (Moco) which is associated with
the metabolism of nitrogen, carbon and sulfur by redox
active enzymes. In E. coli, the synthesis of Moco
involves genes from several loci: moa, mob, mod, moe and
mog. The mob locus contains mobA and mobB genes. MobB
catalyzes the attachment of the guanine dinucleotide to
molybdopterin..
Length = 159
Score = 29.8 bits (67), Expect = 1.8
Identities = 12/26 (46%), Positives = 13/26 (50%)
Query: 100 PLVIMLVGLQGSGKTTTTAKIAYHLK 125
VI VG GSGKTT K+ L
Sbjct: 1 MKVIGFVGYSGSGKTTLLEKLIPALS 26
>gnl|CDD|73297 cd02034, CooC, The accessory protein CooC, which contains a
nucleotide-binding domain (P-loop) near the N-terminus,
participates in the maturation of the nickel center of
carbon monoxide dehydrogenase (CODH). CODH from
Rhodospirillum rubrum catalyzes the reversible oxidation
of CO to CO2. CODH contains a nickel-iron-sulfur cluster
(C-center) and an iron-sulfur cluster (B-center). CO
oxidation occurs at the C-center. Three accessory
proteins encoded by cooCTJ genes are involved in nickel
incorporation into a nickel site. CooC functions as a
nickel insertase that mobilizes nickel to apoCODH using
energy released from ATP hydrolysis. CooC is a homodimer
and has NTPase activities. Mutation at the P-loop
abolishs its function..
Length = 116
Score = 29.4 bits (66), Expect = 2.0
Identities = 27/113 (23%), Positives = 41/113 (36%), Gaps = 13/113 (11%)
Query: 102 VIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLD--------VHRPAAQEQLRYLGE 153
I + G G GKTT A +A +L K K +L D + L +G
Sbjct: 1 KIAITGKGGVGKTTIAALLARYLAE-KGKPVLAIDADPDDLPERLSVEVGEIKLLLVMGM 59
Query: 154 QIQVDTLEVIPEQSPEKIAIRATQSARDGGYDAVILDT-AGRNHINDSLMQEI 205
PE + +R RD + V++DT AG H+ + +
Sbjct: 60 GRPGGEGCYCPENALLNALLRHLVLTRD---EQVVVDTEAGLEHLGRGTAEGV 109
>gnl|CDD|145019 pfam01656, CbiA, CobQ/CobB/MinD/ParA nucleotide binding domain.
This family consists of various cobyrinic acid
a,c-diamide synthases. These include CbiA and CbiP from
S.typhimurium, and CobQ from R. capsulatus. These
amidases catalyse amidations to various side chains of
hydrogenobyrinic acid or cobyrinic acid a,c-diamide in
the biosynthesis of cobalamin (vitamin B12) from
uroporphyrinogen III. Vitamin B12 is an important
cofactor and an essential nutrient for many plants and
animals and is primarily produced by bacteria. The
family also contains dethiobiotin synthetases as well as
the plasmid partitioning proteins of the MinD/ParA
family.
Length = 212
Score = 29.3 bits (66), Expect = 2.1
Identities = 34/182 (18%), Positives = 60/182 (32%), Gaps = 47/182 (25%)
Query: 110 GSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAA---------QEQLRYLGEQIQ---- 156
G GKTT A +A L + ++L+ LD + L+ E +
Sbjct: 9 GVGKTTLAANLARALA-KRGYRVLLIDLDPQANLTSSLGKGPDLIDVLKEGLEIVDAQPL 67
Query: 157 ------------VDTLEVIPE----QSPEKIAIRATQSAR--DGGYDAVILDTAGRNHIN 198
+D L +IP + E I YD VI+D A
Sbjct: 68 QHIAAAIVPSRNLDPLLLIPSNLSLANFESELILEGGEEGLIKLAYDYVIIDGAP----- 122
Query: 199 DSLMQEISEIKSLTNPHEILLVADALTGQDAVHLARNFDKIV-----DLTGIILTRMDGD 253
L + +L +++ + AV A+ ++V + G++L ++D
Sbjct: 123 -GLGELT--ANALVAADILVVPIEP--EGVAVLGAQRLLELVERLGLKILGVVLNKVDRG 177
Query: 254 GR 255
Sbjct: 178 DE 179
>gnl|CDD|32636 COG2805, PilT, Tfp pilus assembly protein, pilus retraction ATPase
PilT [Cell motility and secretion / Intracellular
trafficking and secretion].
Length = 353
Score = 29.4 bits (66), Expect = 2.1
Identities = 26/109 (23%), Positives = 48/109 (44%), Gaps = 9/109 (8%)
Query: 27 ISNTLREIRRTFLEADVSLEVVQSFSKRVQEKAKGEKILRSIQPGQMVIKIVHDEL--VE 84
+++ R+I E D S + RV + +V++++ ++ +E
Sbjct: 57 LNDDQRKILEENGELDFSYTLPGVARFRVN-------AFKQRGGYALVLRLIPSKIPTLE 109
Query: 85 VLGKESIELDLNAPSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKIL 133
LG I +L +I++ G GSGK+TT A + ++ K K IL
Sbjct: 110 ELGLPPIVRELAESPRGLILVTGPTGSGKSTTLAAMIDYINKHKAKHIL 158
>gnl|CDD|31532 COG1341, COG1341, Predicted GTPase or GTP-binding protein [General
function prediction only].
Length = 398
Score = 29.5 bits (66), Expect = 2.2
Identities = 17/62 (27%), Positives = 29/62 (46%), Gaps = 1/62 (1%)
Query: 81 ELVEVLGKESIELDLNAPSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVH 140
E +E + +A V+M+VG SGK+T T +A L + +K+ + DV
Sbjct: 54 EPLEEIADTWESKSESAGKVGVVMVVGPVDSGKSTLTTYLANKL-LARGRKVAIIDADVG 112
Query: 141 RP 142
+
Sbjct: 113 QS 114
>gnl|CDD|133359 cd04159, Arl10_like, Arl10-like subfamily. Arl9/Arl10 was
identified from a human cancer-derived EST dataset. No
functional information about the subfamily is available
at the current time, but crystal structures of human
Arl10b and Arl10c have been solved.
Length = 159
Score = 29.2 bits (66), Expect = 2.2
Identities = 13/19 (68%), Positives = 13/19 (68%)
Query: 103 IMLVGLQGSGKTTTTAKIA 121
I LVGLQ SGKTT IA
Sbjct: 2 ITLVGLQNSGKTTLVNVIA 20
>gnl|CDD|31969 COG1783, XtmB, Phage terminase large subunit [General function
prediction only].
Length = 414
Score = 29.2 bits (65), Expect = 2.3
Identities = 25/112 (22%), Positives = 42/112 (37%), Gaps = 6/112 (5%)
Query: 103 IMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASL----DVHRPAAQEQLRYLGEQIQVD 158
+ G +GS K+ TA K L + I + + + H+ + + ++ V
Sbjct: 27 FIAKGGRGSSKSYATALKNI-EKLLSEPGIDVLVIREVENTHKQSTYALFKEALSELGVT 85
Query: 159 TLEVIPEQSPEKIA-IRATQSARDGGYDAVILDTAGRNHINDSLMQEISEIK 209
I + SPE I + G D L + N I+D +E SE
Sbjct: 86 KFFKISKSSPEIILKDTGQRIIFKGLDDPAKLKSIAVNWISDLWFEEASEFS 137
>gnl|CDD|72973 cd03214, ABC_Iron-Siderophores_B12_Hemin, ABC transporters,
involved in the uptake of siderophores, heme, and
vitamin B12, are widely conserved in bacteria and
archaea. Only very few species lack representatives of
the siderophore family transporters. The E. coli BtuCD
protein is an ABC transporter mediating vitamin B12
uptake. The two ATP-binding cassettes (BtuD) are in
close contact with each other, as are the two
membrane-spanning subunits (BtuC); this arrangement is
distinct from that observed for the E. coli lipid
flippase MsbA. The BtuC subunits provide 20
transmembrane helices grouped around a translocation
pathway that is closed to the cytoplasm by a gate
region, whereas the dimer arrangement of the BtuD
subunits resembles the ATP-bound form of the Rad50 DNA
repair enzyme. A prominent cytoplasmic loop of BtuC
forms the contact region with the ATP-binding cassette
and represent a conserved motif among the ABC
transporters..
Length = 180
Score = 29.2 bits (66), Expect = 2.3
Identities = 15/60 (25%), Positives = 30/60 (50%), Gaps = 1/60 (1%)
Query: 93 LDLNAPSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLRYLG 152
L L+ + ++ ++G G+GK+T +A LK +IL+ D+ + +E R +
Sbjct: 18 LSLSIEAGEIVGILGPNGAGKSTLLKTLAGLLK-PSSGEILLDGKDLASLSPKELARKIA 76
>gnl|CDD|29991 cd01125, repA, Hexameric Replicative Helicase RepA. RepA is
encoded by a plasmid, which is found in most Gram
negative bacteria. RepA is a 5'-3' DNA helicase which
can utilize ATP, GTP and CTP to a lesser extent..
Length = 239
Score = 29.2 bits (65), Expect = 2.3
Identities = 31/196 (15%), Positives = 53/196 (27%), Gaps = 57/196 (29%)
Query: 102 VIMLVGLQGSGKTTTTAKIAYH-----------LKTLKKKKILMASLDVHRPAAQEQLRY 150
V LV G+GK++ +A LK + +++ S + R +L
Sbjct: 3 VSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDPREEIHRRLEA 62
Query: 151 LGEQIQVDTLEV------------------IPEQSPEKIAIRATQSARDGGYDAVILDTA 192
+ + ++ D PE I D V++D
Sbjct: 63 ILQHLEPDDAGDRLFIDSGRIQPISIAREGRIIVVPEFERIIE--QLLIRRIDLVVIDPL 120
Query: 193 GRNHINDSLMQEISEIKSLTNPHEILLVADALTGQDAVHLARNFDKIVDLT--------G 244
H S + + V AL +A + L
Sbjct: 121 VSFH-----------GVSENDNGAMDAVIKALR-----RIAAQTGAAILLVHHVRKGSAK 164
Query: 245 IILTRMDGDGRGGAAL 260
T+ RG +AL
Sbjct: 165 DGDTQ--EAARGASAL 178
>gnl|CDD|173952 cd08193, HVD, 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the
oxidation of 5-hydroxyvalerate to 5-oxovalerate with
NAD+ as cofactor. 5-hydroxyvalerate dehydrogenase (HVD)
is an iron-containing (type III) NAD-dependent alcohol
dehydrogenase. It plays a role in the cyclopentanol
metabolism biochemical pathway. It catalyzes the
oxidation of 5-hydroxyvalerate to 5-oxovalerate with
NAD+ as cofactor. This cyclopentanol (cpn) degradation
pathway is present in some bacteria which can use
cyclopentanol as sole carbon source. In Comamonas sp.
strain NCIMB 9872, this enzyme is encoded by the CpnD
gene.
Length = 376
Score = 29.0 bits (66), Expect = 2.4
Identities = 21/88 (23%), Positives = 35/88 (39%), Gaps = 16/88 (18%)
Query: 118 AKIAYHLKTLKKKKIL------MASLDVHRPAAQEQLRYLGEQIQVDTLEVIPEQSPEKI 171
A++ L L K++L + + P L G ++ V +V + PE +
Sbjct: 15 ARLGELLAALGAKRVLVVTDPGILKAGLIDPLLAS-LEAAGIEVTVFD-DVEAD-PPEAV 71
Query: 172 AIRATQSARDGGYDAVI-------LDTA 192
A ++AR G D VI +D A
Sbjct: 72 VEAAVEAARAAGADGVIGFGGGSSMDVA 99
>gnl|CDD|30917 COG0572, Udk, Uridine kinase [Nucleotide transport and metabolism].
Length = 218
Score = 29.1 bits (65), Expect = 2.4
Identities = 13/41 (31%), Positives = 24/41 (58%), Gaps = 3/41 (7%)
Query: 98 PSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLD 138
++I + G GSGKTT +++ + L +K+++ SLD
Sbjct: 6 EKVIIIGIAGGSGSGKTTVAKELS---EQLGVEKVVVISLD 43
>gnl|CDD|37016 KOG1805, KOG1805, KOG1805, DNA replication helicase [Replication,
recombination and repair].
Length = 1100
Score = 29.2 bits (65), Expect = 2.5
Identities = 12/33 (36%), Positives = 21/33 (63%), Gaps = 1/33 (3%)
Query: 104 MLVGLQGSGKTTTTAKIAYHLKTLKKKKILMAS 136
+++G+ G+GKTTT + + L KK+L+ S
Sbjct: 689 LILGMPGTGKTTTISLLIKIL-VALGKKVLLTS 720
>gnl|CDD|110578 pfam01583, APS_kinase, Adenylylsulphate kinase. Enzyme that
catalyses the phosphorylation of adenylylsulphate to
3'-phosphoadenylylsulfate. This domain contains an ATP
binding P-loop motif.
Length = 157
Score = 29.2 bits (66), Expect = 2.5
Identities = 14/40 (35%), Positives = 19/40 (47%), Gaps = 5/40 (12%)
Query: 100 PLVIMLVGLQGSGKTTTTAKIAYHL-KTLKKKKILMASLD 138
+ GL GSGK+T IA L + L + I + LD
Sbjct: 2 GCTVWFTGLSGSGKST----IANALERKLFAQGISVYVLD 37
>gnl|CDD|29988 cd01122, GP4d_helicase, GP4d_helicase is a homohexameric 5'-3'
helicases. Helicases couple NTP hydrolysis to the
unwinding of nucleic acid duplexes into their component
strands..
Length = 271
Score = 29.1 bits (65), Expect = 2.6
Identities = 12/37 (32%), Positives = 18/37 (48%)
Query: 102 VIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLD 138
+I+L G GKTT + A L T ++ SL+
Sbjct: 32 LIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLE 68
>gnl|CDD|33900 COG4148, ModC, ABC-type molybdate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 352
Score = 29.1 bits (65), Expect = 2.9
Identities = 12/36 (33%), Positives = 19/36 (52%)
Query: 86 LGKESIELDLNAPSPLVIMLVGLQGSGKTTTTAKIA 121
LG +++ + P+ + L G GSGKT+ IA
Sbjct: 10 LGNFALDANFTLPARGITALFGPSGSGKTSLINMIA 45
>gnl|CDD|30190 cd01672, TMPK, Thymidine monophosphate kinase (TMPK), also known as
thymidylate kinase, catalyzes the phosphorylation of
thymidine monophosphate (TMP) to thymidine diphosphate
(TDP) utilizing ATP as its preferred phophoryl donor.
TMPK represents the rate-limiting step in either de novo
or salvage biosynthesis of thymidine triphosphate
(TTP)..
Length = 200
Score = 28.7 bits (64), Expect = 3.0
Identities = 10/33 (30%), Positives = 18/33 (54%)
Query: 101 LVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKIL 133
+ I+ G+ G+GKTT +A L+ + +L
Sbjct: 1 MFIVFEGIDGAGKTTLIELLAERLEARGYEVVL 33
>gnl|CDD|39857 KOG4658, KOG4658, KOG4658, Apoptotic ATPase [Signal transduction
mechanisms].
Length = 889
Score = 28.7 bits (64), Expect = 3.1
Identities = 21/88 (23%), Positives = 33/88 (37%), Gaps = 9/88 (10%)
Query: 45 LEVVQSF-SKRVQEKAKGEKILRSIQ---PGQMVIKIVHDELVEVLGKESIELDLNAPSP 100
L V+S SK V E R P Q + + ++E L +E D
Sbjct: 125 LREVESLGSKGVFEVVGESLDPREKVETRPIQSESDVGLETMLEKLWNRLMEDD-----V 179
Query: 101 LVIMLVGLQGSGKTTTTAKIAYHLKTLK 128
++ + G+ G GKTT +I +
Sbjct: 180 GIVGIYGMGGVGKTTLARQIFNKFDEVG 207
>gnl|CDD|30853 COG0507, RecD, ATP-dependent exoDNAse (exonuclease V), alpha
subunit - helicase superfamily I member [DNA
replication, recombination, and repair].
Length = 696
Score = 28.9 bits (64), Expect = 3.3
Identities = 24/89 (26%), Positives = 34/89 (38%), Gaps = 10/89 (11%)
Query: 54 RVQEKAKGEKILRSIQPGQMVIKIVHDELVEVLGKESIELDLNAPSPL-------VIMLV 106
E + + +++ VH L EV K + L L L V ML
Sbjct: 284 ARAELRILDSLFVALKIRA---GTVHRLLGEVPAKVKLRLSLEQKEALDVLVVDEVSMLT 340
Query: 107 GLQGSGKTTTTAKIAYHLKTLKKKKILMA 135
G G+GKTT IA +K ++L A
Sbjct: 341 GGPGTGKTTAIKAIARLIKEGDGDQLLAA 369
>gnl|CDD|133337 cd04137, RheB, Rheb (Ras Homolog Enriched in Brain) subfamily.
Rheb was initially identified in rat brain, where its
expression is elevated by seizures or by long-term
potentiation. It is expressed ubiquitously, with
elevated levels in muscle and brain. Rheb functions as
an important mediator between the tuberous sclerosis
complex proteins, TSC1 and TSC2, and the mammalian
target of rapamycin (TOR) kinase to stimulate cell
growth. TOR kinase regulates cell growth by controlling
nutrient availability, growth factors, and the energy
status of the cell. TSC1 and TSC2 form a dimeric
complex that has tumor suppressor activity, and TSC2 is
a GTPase activating protein (GAP) for Rheb. The
TSC1/TSC2 complex inhibits the activation of TOR kinase
through Rheb. Rheb has also been shown to induce the
formation of large cytoplasmic vacuoles in a process
that is dependent on the GTPase cycle of Rheb, but
independent of the TOR kinase, suggesting Rheb plays a
role in endocytic trafficking that leads to cell growth
and cell-cycle progression. Most Ras proteins contain a
lipid modification site at the C-terminus, with a
typical sequence motif CaaX, where a = an aliphatic
amino acid and X = any amino acid. Lipid binding is
essential for membrane attachment, a key feature of most
Ras proteins.
Length = 180
Score = 28.7 bits (65), Expect = 3.4
Identities = 13/34 (38%), Positives = 24/34 (70%), Gaps = 10/34 (29%)
Query: 74 VIKIVHDELVEVLGKESIELDLNAPSPLVIMLVG 107
V+K+++D+++++LGKES+ P I+LVG
Sbjct: 90 VVKVIYDKILDMLGKESV------P----IVLVG 113
>gnl|CDD|29997 cd01131, PilT, Pilus retraction ATPase PilT. PilT is a nucleotide
binding protein responsible for the retraction of type
IV pili, likely by pili disassembly. This retraction
provides the force required for travel of bacteria in
low water environments by a mechanism known as twitching
motility..
Length = 198
Score = 28.7 bits (64), Expect = 3.6
Identities = 11/32 (34%), Positives = 19/32 (59%)
Query: 102 VIMLVGLQGSGKTTTTAKIAYHLKTLKKKKIL 133
++++ G GSGK+TT A + ++ K IL
Sbjct: 3 LVLVTGPTGSGKSTTLAAMIDYINKNKTHHIL 34
>gnl|CDD|31663 COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA
replication, recombination, and repair /
Posttranslational modification, protein turnover,
chaperones].
Length = 366
Score = 28.8 bits (64), Expect = 3.6
Identities = 10/37 (27%), Positives = 15/37 (40%)
Query: 95 LNAPSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKK 131
L P I++ G G+GKT T + L+
Sbjct: 37 LRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANV 73
>gnl|CDD|30201 cd02028, UMPK_like, Uridine monophosphate kinase_like (UMPK_like)
is a family of proteins highly similar to the uridine
monophosphate kinase (UMPK, EC 2.7.1.48), also known as
uridine kinase or uridine-cytidine kinase (UCK)..
Length = 179
Score = 28.3 bits (63), Expect = 4.0
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 102 VIMLVGLQGSGKTTTTAKIAYHLKTL 127
V+ + G GSGKTT K++ L+
Sbjct: 1 VVGIAGPSGSGKTTFAKKLSNQLRVN 26
>gnl|CDD|30835 COG0489, Mrp, ATPases involved in chromosome partitioning [Cell
division and chromosome partitioning].
Length = 265
Score = 28.5 bits (63), Expect = 4.1
Identities = 39/192 (20%), Positives = 65/192 (33%), Gaps = 44/192 (22%)
Query: 102 VIMLV-GLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLR----------- 149
VI + G G GK+T +A L K++L+ D+ P+ L
Sbjct: 59 VIAVTSGKGGVGKSTVAVNLAAAL-AQLGKRVLLLDADLRGPSIPRMLGLENLPGLTELL 117
Query: 150 ---YLGEQIQVDTLEVI--------PEQSPEKIAIRATQ----SARDGGYDAVILDTAGR 194
L IQ D ++V+ P + +A G YD VI+DT
Sbjct: 118 AGEALEPVIQHDGIKVLSILPLGPVPVIPRGLLGSKAMLQLLEDVLWGEYDYVIIDTPPG 177
Query: 195 NHIND-SLMQEISEIKSLTNPHEILLVA--DALTGQDAVHLARNFDKI-VDLTGIILTRM 250
D +++Q I P +++V +D +K + + G++
Sbjct: 178 TGDADATVLQRI--------PDGVVIVTTPGKTALEDVKKAIDMLEKAGIPVLGVVENMS 229
Query: 251 DG----DGRGGA 258
G GG
Sbjct: 230 YFICPRCGEGGG 241
>gnl|CDD|31564 COG1373, COG1373, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 398
Score = 28.5 bits (63), Expect = 4.6
Identities = 30/133 (22%), Positives = 54/133 (40%), Gaps = 14/133 (10%)
Query: 92 ELDLNAPSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDV--HRPAAQEQLR 149
+ P +I+++G + GKTT + +K L ++ I + D+ R + LR
Sbjct: 29 LIKKLDLRPFIILILGPRQVGKTTL---LKLLIKGLLEEIIYINFDDLRLDRIELLDLLR 85
Query: 150 YLGEQIQVDTLEVIPE--QSPEKIAIRATQSARDGGYDAVILDTAGRNHINDSLMQEISE 207
E + + + + Q+ RA + D G V++ G + S EISE
Sbjct: 86 AYIELKEREKSYIFLDEIQNVPDW-ERALKYLYDRGNLDVLI--TGSSSSLLSK--EISE 140
Query: 208 IKSLTNPHEILLV 220
SL + L +
Sbjct: 141 --SLAGRGKDLEL 151
>gnl|CDD|38335 KOG3125, KOG3125, KOG3125, Thymidine kinase [Nucleotide transport
and metabolism].
Length = 234
Score = 28.4 bits (63), Expect = 4.7
Identities = 32/193 (16%), Positives = 62/193 (32%), Gaps = 27/193 (13%)
Query: 98 PSPLVIM-------LVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLRY 150
SPL M ++G SGKTT + ++ +L+ R + + +
Sbjct: 18 NSPLCPMTRGTIHVILGPMFSGKTTELLRRIRREIIAGRRVLLIKYAKDTRYESSSIVTH 77
Query: 151 LGEQIQVDTLEVIPEQSPEKIAIRATQSARDGGYDAVILDTAGRNHINDSLMQEISEIKS 210
G ++ L S + A +G D + +D A +
Sbjct: 78 DGIEMPCWALPDASFLS------EFGKDALNGDVDVIGIDEA------QFFGDLYEFCRE 125
Query: 211 LTNPHEILLVADALTGQDAVHLARNFDKIVDLTGIILTRMDGDGR-----GGAALSMRTV 265
+ + H ++ L G + F I+DL + + A ++R
Sbjct: 126 VADVHGKTVIVAGLDGD---FKRKPFGAILDLVPLADSVTKLTAVCEECGADARFTLRKT 182
Query: 266 TGKPIKAIGTGEK 278
K ++ IG +
Sbjct: 183 NDKEVEVIGGADV 195
>gnl|CDD|30188 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 = 28.2 bits (63), Expect = 4.9
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 103 IMLVGLQGSGKTTTTAKIAYHLK 125
I+L+G+ G+GKTT +A L
Sbjct: 2 IVLIGMMGAGKTTVGRLLAKALG 24
>gnl|CDD|35828 KOG0608, KOG0608, KOG0608, Warts/lats-like serine threonine kinases
[Cell cycle control, cell division, chromosome
partitioning].
Length = 1034
Score = 28.2 bits (62), Expect = 4.9
Identities = 30/123 (24%), Positives = 58/123 (47%), Gaps = 15/123 (12%)
Query: 36 RTFLEADVSLEVVQSFSKRVQEKAKGEKILRSIQPGQMVIKIVHDELVEVLG-KES--IE 92
+ F+E V V++S+ +R + K + EK + I+ +++ ++L KES I
Sbjct: 566 KFFMEQHVE-NVLKSYQQREKRKKQLEKEMVKAGLPD----IMQNQMRKMLQQKESNYIR 620
Query: 93 L---DLNAPSPLVIMLVGLQGSGKTTTTAKI----AYHLKTLKKKKILMASLDVHRPAAQ 145
L ++ + I +G+ G+ K+ Y +KTL+K +LM + H A +
Sbjct: 621 LKRAKMDKSMFVKIKTIGVGAFGEVCLVRKVDTRALYAMKTLRKADVLMRNQVAHVKAER 680
Query: 146 EQL 148
+ L
Sbjct: 681 DIL 683
>gnl|CDD|38801 KOG3595, KOG3595, KOG3595, Dyneins, heavy chain [Cytoskeleton].
Length = 1395
Score = 28.0 bits (62), Expect = 5.4
Identities = 25/125 (20%), Positives = 47/125 (37%), Gaps = 14/125 (11%)
Query: 1 MFDNLQERLGSIFQNITGKGSLSETDISNTLREIRRTFLEADVSLEVVQSFSKRVQEKAK 60
LQE L +F+ + + L D + +I L V+ ++ K
Sbjct: 380 FDKKLQEVLLKLFEADSLQMPLLYGDFRSESHKIYEEVLS-------VELLRGVLEAYLK 432
Query: 61 GEKILRSIQPGQMVIKIVHDELVEVLGKESIELDLNAPSPLVIMLVGLQGSGKTTTTAKI 120
I + + ++ + +E + + I+ L P +LVG+ GSGK + T
Sbjct: 433 QFNIEE----IRPMHLVLFRDAIEHVLR--IDRILRQPRGHA-LLVGVGGSGKQSLTRLA 485
Query: 121 AYHLK 125
A+
Sbjct: 486 AFING 490
>gnl|CDD|39108 KOG3905, KOG3905, KOG3905, Dynein light intermediate chain [Cell
motility].
Length = 473
Score = 28.1 bits (62), Expect = 5.5
Identities = 20/67 (29%), Positives = 32/67 (47%), Gaps = 2/67 (2%)
Query: 84 EVLGKESIELDLNAPSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKIL-MASLDVHRP 142
E+L + S PS ++++G GSGKT+ +K+ +T+KK L L VH
Sbjct: 36 EILSEVSTRTRSKLPSGKNVLVLGDNGSGKTSLISKLQ-GSETVKKGSGLEYLYLHVHDE 94
Query: 143 AAQEQLR 149
+ R
Sbjct: 95 DRDDLTR 101
>gnl|CDD|30815 COG0467, RAD55, RecA-superfamily ATPases implicated in signal
transduction [Signal transduction mechanisms].
Length = 260
Score = 28.1 bits (62), Expect = 5.5
Identities = 14/90 (15%), Positives = 30/90 (33%), Gaps = 4/90 (4%)
Query: 102 VIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLRYLG---EQIQVD 158
V+++ G G+GKT + Y + + +L S + E R G E
Sbjct: 25 VVLITGPPGTGKTIFALQFLYEGAR-EGEPVLYVSTEESPEELLENARSFGWDLEVYIEK 83
Query: 159 TLEVIPEQSPEKIAIRATQSARDGGYDAVI 188
I + + + + + ++
Sbjct: 84 GKLAILDAFLSEKGLVSIVVGDPLDLEELL 113
>gnl|CDD|33657 COG3867, COG3867, Arabinogalactan endo-1,4-beta-galactosidase
[Carbohydrate transport and metabolism].
Length = 403
Score = 28.1 bits (62), Expect = 5.5
Identities = 15/54 (27%), Positives = 20/54 (37%), Gaps = 2/54 (3%)
Query: 231 HLARNFDK--IVDLTGIILTRMDGDGRGGAALSMRTVTGKPIKAIGTGEKINDL 282
+A + K +V T T DGDG S G PI G + D+
Sbjct: 269 DIASRYHKDVMVVETAYTYTLEDGDGHENTFPSSEQTGGYPITVQGQATFVRDV 322
>gnl|CDD|35277 KOG0054, KOG0054, KOG0054, Multidrug resistance-associated
protein/mitoxantrone resistance protein, ABC superfamily
[Secondary metabolites biosynthesis, transport and
catabolism].
Length = 1381
Score = 27.9 bits (62), Expect = 6.2
Identities = 18/85 (21%), Positives = 34/85 (40%), Gaps = 8/85 (9%)
Query: 36 RTFLEADVSLEVVQSFSKRVQEKAKGEKILRSIQPGQMVIKIVHDELVEVLGKESIE--- 92
++A VSL+ ++ F +E + G+ I+I ES E
Sbjct: 481 SQLVQAKVSLKRLKEF-LLSEELDPDSVERSPDEAGENAIEI--KNGSFSWDSESPEPTL 537
Query: 93 --LDLNAPSPLVIMLVGLQGSGKTT 115
++ ++ +VG GSGK++
Sbjct: 538 KDINFEIKKGQLVAVVGPVGSGKSS 562
>gnl|CDD|99868 cd06115, AthCS_per_like, Arabidopsis thaliana (Ath) peroxisomal
(Per) CS_like. CS catalyzes the condensation of acetyl
coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate
and coenzyme A (CoA), the first step in the citric acid
cycle (TCA or Krebs cycle). The overall CS reaction is
thought to proceed through three partial reactions and
involves both closed and open conformational forms of
the enzyme: a) the carbanion or equivalent is generated
from AcCoA by base abstraction of a proton, b) the
nucleophilic attack of this carbanion on OAA to generate
citryl-CoA, and c) the hydrolysis of citryl-CoA to
produce citrate and CoA. This group contains three
Arabidopsis peroxisomal CS proteins, CYS1, -2, and -3
which are involved in the glyoxylate cycle. AthCYS1, in
addition to a peroxisomal targeting sequence, has a
predicted secretory signal peptide; it may be targeted
to both the secretory pathway and the peroxisomes and is
thought to be located in the extracellular matrix.
AthCSY1 is expressed only in siliques and specifically
in developing seeds. AthCSY2 and 3 are active during
seed germination and seedling development and are
thought to participate in the beta-oxidation of fatty
acids..
Length = 410
Score = 27.8 bits (62), Expect = 6.2
Identities = 13/56 (23%), Positives = 31/56 (55%), Gaps = 5/56 (8%)
Query: 39 LEADVSLEVVQSFSKRVQEKAK-----GEKILRSIQPGQMVIKIVHDELVEVLGKE 89
L ++E + +F + V+ + + G ++ ++ P +IK + DE+ E++GK+
Sbjct: 265 LAEIGTVENIPAFIEGVKNRKRKLSGFGHRVYKNYDPRAKIIKKLADEVFEIVGKD 320
>gnl|CDD|30200 cd02027, APSK, Adenosine 5'-phosphosulfate kinase (APSK) catalyzes
the phosphorylation of adenosine 5'-phosphosulfate to
form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The
end-product PAPS is a biologically "activated" sulfate
form important for the assimilation of inorganic
sulfate..
Length = 149
Score = 27.7 bits (62), Expect = 6.6
Identities = 16/38 (42%), Positives = 21/38 (55%), Gaps = 5/38 (13%)
Query: 102 VIMLVGLQGSGKTTTTAKIAYHL-KTLKKKKILMASLD 138
VI L GL GSGK+T IA L + L ++ + LD
Sbjct: 1 VIWLTGLSGSGKST----IARALEEKLFQRGRPVYVLD 34
>gnl|CDD|31393 COG1200, RecG, RecG-like helicase [DNA replication, recombination,
and repair / Transcription].
Length = 677
Score = 27.9 bits (62), Expect = 6.7
Identities = 15/45 (33%), Positives = 19/45 (42%)
Query: 91 IELDLNAPSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMA 135
I DL +P P+ +L G GSGKT + LMA
Sbjct: 274 ILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEAGYQAALMA 318
>gnl|CDD|31343 COG1149, COG1149, MinD superfamily P-loop ATPase containing an
inserted ferredoxin domain [Energy production and
conversion].
Length = 284
Score = 27.6 bits (61), Expect = 6.9
Identities = 16/41 (39%), Positives = 22/41 (53%), Gaps = 2/41 (4%)
Query: 102 VIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRP 142
V + G G+GKTT A +A L K K+++A DV P
Sbjct: 4 VAVASGKGGTGKTTVAANLAVLLG--DKYKLVLADCDVEAP 42
>gnl|CDD|38564 KOG3354, KOG3354, KOG3354, Gluconate kinase [Carbohydrate transport
and metabolism].
Length = 191
Score = 27.7 bits (61), Expect = 7.5
Identities = 16/54 (29%), Positives = 27/54 (50%), Gaps = 5/54 (9%)
Query: 96 NAPSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLR 149
P VI+++G+ GSGK+T ++ L K + D+H PA E++
Sbjct: 8 MGPFKYVIVVMGVSGSGKSTIGKALSEEL----GLKFIDGD-DLHPPANVEKMT 56
>gnl|CDD|31299 COG1102, Cmk, Cytidylate kinase [Nucleotide transport and
metabolism].
Length = 179
Score = 27.5 bits (61), Expect = 7.6
Identities = 13/24 (54%), Positives = 17/24 (70%)
Query: 101 LVIMLVGLQGSGKTTTTAKIAYHL 124
+VI + GL GSGKTT ++A HL
Sbjct: 1 MVITISGLPGSGKTTVARELAEHL 24
>gnl|CDD|30597 COG0248, GppA, Exopolyphosphatase [Nucleotide transport and
metabolism / Inorganic ion transport and metabolism].
Length = 492
Score = 27.6 bits (61), Expect = 7.6
Identities = 23/121 (19%), Positives = 46/121 (38%), Gaps = 14/121 (11%)
Query: 320 AKKIAKGKFDLEDLAEQFRQTQKIGGIGS------ILRMLPGMPSLKQNIMP-SSFDDKT 372
A+ + + LE++A+++R G +G+ + ++ S ++ +
Sbjct: 182 ARDAVREE--LEEIAKEYRIAGWAGLVGTSGTIRALAKLHMAQGSYPLRVLHGYEITAEE 239
Query: 373 INHHIAIIASMTKEERANPSIIKHSRKKRIAAGSGTNAAKINKLLKLHRQVAEMMHSTQG 432
+ + + MT EER + R I AG+ A L + M+ S G
Sbjct: 240 LEKLLERLIRMTSEERLKLEGLSKDRADVILAGAAILEAVFEAL-----SIERMIVSDGG 294
Query: 433 L 433
L
Sbjct: 295 L 295
>gnl|CDD|72983 cd03224, ABC_TM1139_LivF_branched, LivF (TM1139) is part of the
LIV-I bacterial ABC-type two-component transport system
that imports neutral, branched-chain amino acids. The
E. coli branched-chain amino acid transporter comprises
a heterodimer of ABC transporters (LivF and LivG), a
heterodimer of six-helix TM domains (LivM and LivH), and
one of two alternative soluble periplasmic substrate
binding proteins (LivK or LivJ). 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..
Length = 222
Score = 27.7 bits (62), Expect = 7.7
Identities = 15/57 (26%), Positives = 23/57 (40%), Gaps = 1/57 (1%)
Query: 93 LDLNAPSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLR 149
+ L P ++ L+G G+GKTT I L + I D+ E+ R
Sbjct: 19 VSLTVPEGEIVALLGRNGAGKTTLLKTIMGLLPP-RSGSIRFDGRDITGLPPHERAR 74
>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 = 27.5 bits (61), Expect = 7.8
Identities = 12/33 (36%), Positives = 15/33 (45%)
Query: 98 PSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKK 130
P P ++L G G+GKTT IA L
Sbjct: 17 PPPKNLLLYGPPGTGKTTLARAIANELFRPGAP 49
>gnl|CDD|35293 KOG0070, KOG0070, KOG0070, GTP-binding ADP-ribosylation factor Arf1
[Intracellular trafficking, secretion, and vesicular
transport].
Length = 181
Score = 27.5 bits (61), Expect = 8.0
Identities = 12/24 (50%), Positives = 15/24 (62%), Gaps = 4/24 (16%)
Query: 103 IMLVGLQGSGKTTTTAKIAYHLKT 126
I++VGL +GKTT I Y LK
Sbjct: 20 ILMVGLDAAGKTT----ILYKLKL 39
>gnl|CDD|144246 pfam00580, UvrD-helicase, UvrD/REP helicase. The Rep family
helicases are composed of four structural domains. The
Rep family function as dimers. REP helicases catalyse
ATP dependent unwinding of double stranded DNA to single
stranded DNA. Bacillus subtilis addA and Escherichia
coli exodeoxyribonuclease V beta have large insertions
near to the carboxy-terminus relative to other members
of the family.
Length = 494
Score = 27.7 bits (62), Expect = 8.0
Identities = 8/18 (44%), Positives = 11/18 (61%), Gaps = 1/18 (5%)
Query: 110 GSGKTTT-TAKIAYHLKT 126
G+GKT T +IAY +
Sbjct: 23 GTGKTRVLTERIAYLILE 40
>gnl|CDD|33915 COG4175, ProV, ABC-type proline/glycine betaine transport system,
ATPase component [Amino acid transport and metabolism].
Length = 386
Score = 27.6 bits (61), Expect = 8.1
Identities = 14/31 (45%), Positives = 17/31 (54%), Gaps = 2/31 (6%)
Query: 85 VLGKESIELDLNAPSPLVIMLVGLQGSGKTT 115
V+G LD+ VIM GL GSGK+T
Sbjct: 41 VVGVNDASLDVEEGEIFVIM--GLSGSGKST 69
>gnl|CDD|145224 pfam01935, DUF87, Domain of unknown function DUF87. The function
of this prokaryotic domain is unknown. It contains
several conserved aspartates and histidines that could
be metal ligands.
Length = 218
Score = 27.3 bits (61), Expect = 8.2
Identities = 11/31 (35%), Positives = 15/31 (48%), Gaps = 2/31 (6%)
Query: 110 GSGKTTTTAKIAYHLKTLKKKKILMASLDVH 140
GSGK+ T A + L K +L+ D H
Sbjct: 33 GSGKSNTVAVLLEELLEKKGATVLI--FDPH 61
>gnl|CDD|73054 cd03295, ABC_OpuCA_Osmoprotection, OpuCA is a the ATP binding
component of a bacterial solute transporter that serves
a protective role to cells growing in a hyperosmolar
environment. ABC (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 = 242
Score = 27.5 bits (61), Expect = 8.3
Identities = 20/65 (30%), Positives = 29/65 (44%), Gaps = 1/65 (1%)
Query: 92 ELDLNAPSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLRYL 151
L+L ++L+G GSGKTTT K+ L +I + D+ E R +
Sbjct: 19 NLNLEIAKGEFLVLIGPSGSGKTTTM-KMINRLIEPTSGEIFIDGEDIREQDPVELRRKI 77
Query: 152 GEQIQ 156
G IQ
Sbjct: 78 GYVIQ 82
>gnl|CDD|31396 COG1203, COG1203, Predicted helicases [General function prediction
only].
Length = 733
Score = 27.4 bits (60), Expect = 8.4
Identities = 25/130 (19%), Positives = 44/130 (33%), Gaps = 8/130 (6%)
Query: 6 QERLGSIFQNITGKGSLSETDISNTLREIRRTFLEADVSLEVVQSFSKRVQEKAKGEKIL 65
L S + LS++ R R + D+ QE + +L
Sbjct: 122 LSSLISEKSFLADWEGLSDSLF----RFFFRLLEKMDIKDTR-NFTELAKQEARLLKPLL 176
Query: 66 RSIQPGQMVIKIV--HDELVEVLGKESIELDLNAPSP-LVIMLVGLQGSGKTTTTAKIAY 122
+ + K + L ++++EL L L+++L G GKT + +A
Sbjct: 177 LLLSAIARINKFKSFIEHEGYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILAL 236
Query: 123 HLKTLKKKKI 132
L K K
Sbjct: 237 ALLDEKIKLK 246
>gnl|CDD|31949 COG1763, MobB, Molybdopterin-guanine dinucleotide biosynthesis
protein [Coenzyme metabolism].
Length = 161
Score = 27.2 bits (60), Expect = 8.7
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 99 SPLVIMLVGLQGSGKTTTTAKIAYHLK 125
++ +VG + SGKTT K+ LK
Sbjct: 1 MMKILGIVGYKNSGKTTLIEKLVRKLK 27
>gnl|CDD|38349 KOG3139, KOG3139, KOG3139, N-acetyltransferase [General function
prediction only].
Length = 165
Score = 27.2 bits (60), Expect = 9.9
Identities = 16/68 (23%), Positives = 25/68 (36%), Gaps = 13/68 (19%)
Query: 132 ILMASLDVHRPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAI----RATQSARDGGYDAV 187
++ LD HR + + L V E + I +A + R GY V
Sbjct: 71 AIVCKLDTHRNTLRGYIAMLA---------VDSEYRGQGIGKALVRKAIDAMRSRGYSEV 121
Query: 188 ILDTAGRN 195
+L+T N
Sbjct: 122 VLETEVTN 129
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.316 0.134 0.361
Gapped
Lambda K H
0.267 0.0775 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 5,132,969
Number of extensions: 270094
Number of successful extensions: 1250
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1222
Number of HSP's successfully gapped: 151
Length of query: 461
Length of database: 6,263,737
Length adjustment: 97
Effective length of query: 364
Effective length of database: 4,167,664
Effective search space: 1517029696
Effective search space used: 1517029696
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: 59 (26.4 bits)