RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780709|ref|YP_003065122.1| cell division protein
[Candidatus Liberibacter asiaticus str. psy62]
(321 letters)
>gnl|CDD|30898 COG0552, FtsY, Signal recognition particle GTPase [Intracellular
trafficking and secretion].
Length = 340
Score = 312 bits (801), Expect = 7e-86
Identities = 136/312 (43%), Positives = 196/312 (62%), Gaps = 10/312 (3%)
Query: 4 QKVASESLSWIRKLTKGFASTSLKLKEGITDIISSRR---LDDGVREELEDLLIRSDIGV 60
+ E W +L +G + T +GI + + LD+ + EELE+LLI +D+GV
Sbjct: 24 EDEEEEKEGWFERLKQGLSKTKKNFGKGIKGLFLKKIKEKLDEDLLEELEELLIEADVGV 83
Query: 61 AVAQKIVEELLTKRYAKDVS------VQRVLYDVSELIHKMLMPLSKPFNWDFSHRPHVI 114
A++I+EEL KR K V+ L + I + + + P +P VI
Sbjct: 84 ETAEEIIEEL-RKREGKKKKIKDEETVKEALREALIEILRPVDKVDLPLEIPKEKKPFVI 142
Query: 115 LVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSADFVCSEI 174
L VGVNGVGKTT I KL+K + G V+LAAGDTFR+AAI+QL++W +R + +
Sbjct: 143 LFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGDTFRAAAIEQLEVWGERLGVPVISGKE 202
Query: 175 GSDAAALAYEAFKQAQAKKVDVLIIDTAGRLHNNSILMAGIGKMIRVLKRLDPHAPHSVL 234
G+D AA+A++A + A+A+ +DV++IDTAGRLHN LM + K++RV+K+ DP APH +L
Sbjct: 203 GADPAAVAFDAIQAAKARGIDVVLIDTAGRLHNKKNLMDELKKIVRVIKKDDPDAPHEIL 262
Query: 235 QVLDATTGQNALRQVEMFHAVAGTTGLIMTKMDGTARGGGLIPIVVTHKIPVYFLGVGEG 294
VLDATTGQNAL Q ++F+ G G+I+TK+DGTA+GG ++ I IP+ F+GVGEG
Sbjct: 263 LVLDATTGQNALSQAKIFNEAVGLDGIILTKLDGTAKGGIILSIAYELGIPIKFIGVGEG 322
Query: 295 INDLEPFVAKDF 306
+DL PF A+ F
Sbjct: 323 YDDLRPFDAEWF 334
>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 = 248 bits (635), Expect = 2e-66
Identities = 97/202 (48%), Positives = 133/202 (65%), Gaps = 6/202 (2%)
Query: 111 PHVILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSADFV 170
P+VIL+VG+ G GKTT I KL+ + G KV+L A DTFR+AAI+QLK A+R
Sbjct: 1 PNVILLVGLQGSGKTTTIAKLAAYLKKQGKKVLLVAADTFRAAAIEQLKQLAERLGVPVF 60
Query: 171 CSEIGSDAAALAYEAFKQAQAKKVDVLIIDTAGRLHNNSILMAGIGKMIRVLKRLDPHAP 230
S GSD AA+A++A ++A+A+ DV+++DTAGRL N+ LM + K+ RV+ P
Sbjct: 61 GSGTGSDPAAVAFDAVEKAKAENYDVVLVDTAGRLQNDKNLMDELKKIKRVIA------P 114
Query: 231 HSVLQVLDATTGQNALRQVEMFHAVAGTTGLIMTKMDGTARGGGLIPIVVTHKIPVYFLG 290
VL VLDATTGQNAL Q + F+ G TG+I+TK+DG A+GG + I P+ F+G
Sbjct: 115 DEVLLVLDATTGQNALNQAKAFNEAVGITGVILTKLDGDAKGGAALSIAAETGKPIKFIG 174
Query: 291 VGEGINDLEPFVAKDFSAVITG 312
VGE I+DLEPF + F + + G
Sbjct: 175 VGEKIDDLEPFDPERFVSRLLG 196
>gnl|CDD|30887 COG0541, Ffh, Signal recognition particle GTPase [Intracellular
trafficking and secretion].
Length = 451
Score = 206 bits (526), Expect = 7e-54
Identities = 102/304 (33%), Positives = 162/304 (53%), Gaps = 22/304 (7%)
Query: 21 FASTSLKLKEGITDIISSRRLD-DGVREELEDL---LIRSDIGVAVAQKIVEELLTKRYA 76
F S S +L + + R+ V+E L ++ L+ +D+ + V + ++ + +
Sbjct: 2 FESLSDRLSNALKKLRGKGRITEKDVKEALREIRRALLEADVNLKVVKDFIKRIKERALG 61
Query: 77 KDVS--------VQRVLYDVSELIHKMLMPLSKPFNWDFSHRPHVILVVGVNGVGKTTVI 128
++V +++Y+ EL+ K+L + N P VIL+VG+ G GKTT
Sbjct: 62 EEVPKGLTPGQQFIKIVYE--ELV-KLLGGENSELNLA-KKPPTVILMVGLQGSGKTTTA 117
Query: 129 GKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSADFVCSEIGSDAAALAYEAFKQ 188
GKL+K + G KV+L A DT+R AAI+QLK A++ F S D +A A ++
Sbjct: 118 GKLAKYLKKKGKKVLLVAADTYRPAAIEQLKQLAEQVGVPFFGSGTEKDPVEIAKAALEK 177
Query: 189 AQAKKVDVLIIDTAGRLHNNSILMAGIGKMIRVLKRLDPHAPHSVLQVLDATTGQNALRQ 248
A+ + DV+I+DTAGRLH + LM + ++ V+ P L V+DA GQ+A+
Sbjct: 178 AKEEGYDVVIVDTAGRLHIDEELMDELKEIKEVIN------PDETLLVVDAMIGQDAVNT 231
Query: 249 VEMFHAVAGTTGLIMTKMDGTARGGGLIPIVVTHKIPVYFLGVGEGINDLEPFVAKDFSA 308
+ F+ G TG+I+TK+DG ARGG + P+ F+G GE I+DLEPF F++
Sbjct: 232 AKAFNEALGITGVILTKLDGDARGGAALSARAITGKPIKFIGTGEKIDDLEPFHPDRFAS 291
Query: 309 VITG 312
I G
Sbjct: 292 RILG 295
>gnl|CDD|35999 KOG0780, KOG0780, KOG0780, Signal recognition particle, subunit
Srp54 [Intracellular trafficking, secretion, and
vesicular transport].
Length = 483
Score = 200 bits (509), Expect = 5e-52
Identities = 96/309 (31%), Positives = 149/309 (48%), Gaps = 25/309 (8%)
Query: 15 RKLTKGFASTSLKLKEGITDIISSRRLDDGVREELEDLLIRSDIGVAVAQKIVEEL---- 70
R++T F+ S I L+ ++E + L+ SD+ + +++ E +
Sbjct: 8 RRITSAFSRMSN------ATSIDETALNTMLKE-ICRALLESDVNPRLVKELRENIRKII 60
Query: 71 ----LTKRYAKDVSVQRVLYDVSELIHKMLMPLSKPFNWDFSHRPHVILVVGVNGVGKTT 126
L K +Q+ ++D EL+ K+L P +P VI+ VG+ G GKTT
Sbjct: 61 NLEKLASGVNKRRIIQKAVFD--ELV-KLLDPGKSALQPKKG-KPSVIMFVGLQGSGKTT 116
Query: 127 VIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSADFVCSEIGSDAAALAYEAF 186
KL+ G KV L DTFR+ A DQLK A + F S +D +A E
Sbjct: 117 TCTKLAYYYKKKGYKVALVCADTFRAGAFDQLKQNATKARVPFYGSYTEADPVKIASEGV 176
Query: 187 KQAQAKKVDVLIIDTAGRLHNNSILMAGIGKMIRVLKRLDPHAPHSVLQVLDATTGQNAL 246
+ + + DV+I+DT+GR + L +M +V K + P ++ V+DA+ GQ A
Sbjct: 177 DRFKKENFDVIIVDTSGRHKQEASLFE---EMKQVSKAIK---PDEIIFVMDASIGQAAE 230
Query: 247 RQVEMFHAVAGTTGLIMTKMDGTARGGGLIPIVVTHKIPVYFLGVGEGINDLEPFVAKDF 306
Q F +I+TK+DG A+GGG + V K P+ F+G GE ++DLEPF K F
Sbjct: 231 AQARAFKETVDVGAVILTKLDGHAKGGGALSAVAATKSPIIFIGTGEHMDDLEPFDPKPF 290
Query: 307 SAVITGCLD 315
+ + G D
Sbjct: 291 VSRLLGMGD 299
>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 = 189 bits (483), Expect = 6e-49
Identities = 74/179 (41%), Positives = 107/179 (59%), Gaps = 6/179 (3%)
Query: 112 HVILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSADFVC 171
VIL+VG+ GVGKTT KL+ + G KV+L A DT+R AAI+QL++ ++
Sbjct: 1 TVILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAADTYRPAAIEQLRVLGEQVGVPVFE 60
Query: 172 SEIGSDAAALAYEAFKQAQAKKVDVLIIDTAGRLHNNSILMAGIGKMIRVLKRLDPHAPH 231
G D ++A A + A+ + DV+I+DTAGRL + LM + K+ RV+K P
Sbjct: 61 EGEGKDPVSIAKRAIEHAREENFDVVIVDTAGRLQIDENLMEELKKIKRVVK------PD 114
Query: 232 SVLQVLDATTGQNALRQVEMFHAVAGTTGLIMTKMDGTARGGGLIPIVVTHKIPVYFLG 290
VL V+DA TGQ+A+ Q + F+ G TG+I+TK+DG ARGG + I P+ F+G
Sbjct: 115 EVLLVVDAMTGQDAVNQAKAFNEALGITGVILTKLDGDARGGAALSIRAVTGKPIKFIG 173
>gnl|CDD|36000 KOG0781, KOG0781, KOG0781, Signal recognition particle receptor,
alpha subunit [Intracellular trafficking, secretion, and
vesicular transport].
Length = 587
Score = 130 bits (329), Expect = 4e-31
Identities = 94/314 (29%), Positives = 155/314 (49%), Gaps = 32/314 (10%)
Query: 18 TKGFASTSLKLKEGITDIISSRRLDDG-VREELEDLLIRSDIGVAVAQKIVEELLTKRYA 76
TK + L +G+ S D V +++ + LI ++ +A+K+ E +
Sbjct: 273 TKKTVGGAFGLFKGLVGSKSLSEEDLNPVLDKMTEHLITKNVAAEIAEKLCESVAASLEG 332
Query: 77 KDV-SVQRVLYDVSELIHKMLMPLSKP-FNWDFSH---------RPHVILVVGVNGVGKT 125
K V S V V E + L+ + P + D RP+VI VGVNGVGK+
Sbjct: 333 KKVGSFSTVESTVKEALRDALVQILTPQRSVDLLRDIMSARRRKRPYVISFVGVNGVGKS 392
Query: 126 TVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWADR------TSADFVCSEIGSDAA 179
T + K++ + +V++AA DTFRS A++QL+ +R T + G DAA
Sbjct: 393 TNLAKIAYWLLQNKFRVLIAACDTFRSGAVEQLRTHVERLSALHGTMVELFEKGYGKDAA 452
Query: 180 ALAYEAFKQAQAKKVDVLIIDTAGRLHNNSILMAGIGKMIRVLKRLDPHAPHSVLQVLDA 239
+A EA ++A+ + DV++IDTAGR+HNN+ LM + K+I+V K P +L V +A
Sbjct: 453 GVAKEAIQEARNQGFDVVLIDTAGRMHNNAPLMTSLAKLIKVNK------PDLILFVGEA 506
Query: 240 TTGQNALRQVEMFHAVAG-------TTGLIMTKMDGTA-RGGGLIPIVVTHKIPVYFLGV 291
G +++ Q++ F+ G+++TK D + G + +V P+ F+GV
Sbjct: 507 LVGNDSVDQLKKFNRALADHSTPRLIDGILLTKFDTVDDKVGAAVSMVYITGKPILFVGV 566
Query: 292 GEGINDLEPFVAKD 305
G+ +DL K
Sbjct: 567 GQTYSDLRKLNVKA 580
>gnl|CDD|31609 COG1419, FlhF, Flagellar GTP-binding protein [Cell motility and
secretion].
Length = 407
Score = 93.1 bits (231), Expect = 1e-19
Identities = 53/189 (28%), Positives = 90/189 (47%), Gaps = 18/189 (9%)
Query: 113 VILVVGVNGVGKTTVIGKLSK--KMSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSADFV 170
VI +VG GVGKTT + KL+ M KV + DT+R A++QLK +AD
Sbjct: 205 VIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLE 264
Query: 171 CSEIGSDAAALAYEAFKQA--QAKKVDVLIIDTAGRLHNNSILMAGIGKMIRVLKRLDPH 228
+ + +A + DV+++DTAGR + + + ++I V ++
Sbjct: 265 --------VVYSPKELAEAIEALRDCDVILVDTAGRSQYDKEKIEELKELIDVSHSIE-- 314
Query: 229 APHSVLQVLDATTGQNALRQVEMFHAVAGTTGLIMTKMDGTARGGGLIPIVVTHKIPVYF 288
V VL ATT L+++ ++ GLI TK+D T G L ++ ++PV +
Sbjct: 315 ----VYLVLSATTKYEDLKEIIKQFSLFPIDGLIFTKLDETTSLGNLFSLMYETRLPVSY 370
Query: 289 LGVGEGIND 297
+ G+ + +
Sbjct: 371 VTNGQRVPE 379
>gnl|CDD|145830 pfam02881, SRP54_N, SRP54-type protein, helical bundle domain.
Length = 77
Score = 53.4 bits (129), Expect = 9e-08
Identities = 23/75 (30%), Positives = 39/75 (52%), Gaps = 4/75 (5%)
Query: 17 LTKGFASTSLKLKEGITDIISSRRLDDGVREELEDLLIRSDIGVAVAQKIVEELLTKRYA 76
L +G + T KL I D+ + D + EELE+ L+ +D+GV +KI+E L
Sbjct: 1 LKEGLSKTRSKLGGKIKDLFLGEKKIDELLEELEEALLEADVGVETTEKIIERLKELVGR 60
Query: 77 KDVS----VQRVLYD 87
K +S +++ L +
Sbjct: 61 KGLSDPEEIKKALKE 75
>gnl|CDD|31889 COG1703, ArgK, Putative periplasmic protein kinase ArgK and related
GTPases of G3E family [Amino acid transport and
metabolism].
Length = 323
Score = 43.4 bits (102), Expect = 8e-05
Identities = 31/106 (29%), Positives = 49/106 (46%), Gaps = 10/106 (9%)
Query: 108 SHRPHVILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGD---TFRSAAIDQLKIWADR 164
+ HVI + GV G GK+T+I L +++ + G +V + A D F +I +I R
Sbjct: 48 TGNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSILGDRIRMQR 107
Query: 165 TSAD---FVCS----EIGSDAAALAYEAFKQAQAKKVDVLIIDTAG 203
+ D F+ S + EA K A DV+I++T G
Sbjct: 108 LAVDPGVFIRSSPSRGTLGGLSRATREAIKLLDAAGYDVIIVETVG 153
>gnl|CDD|112137 pfam03308, ArgK, ArgK protein. The ArgK protein acts as an ATPase
enzyme and as a kinase, and phosphorylates periplasmic
binding proteins involved in the LAO (lysine, arginine,
ornithine)/AO transport systems.
Length = 267
Score = 39.3 bits (92), Expect = 0.001
Identities = 30/104 (28%), Positives = 45/104 (43%), Gaps = 10/104 (9%)
Query: 110 RPHVILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGD---TFRSAAIDQLKIWADRTS 166
R H + + GV G GK+T+I L ++ G +V + A D F +I + R +
Sbjct: 28 RAHRVGITGVPGAGKSTLIEALGMELRRRGHRVAVLAVDPSSPFTGGSILGDRTRMQRLA 87
Query: 167 AD---FVCSEIGSDA----AALAYEAFKQAQAKKVDVLIIDTAG 203
D F+ S A + EA A DV+II+T G
Sbjct: 88 VDPGAFIRSSPSRGALGGLSRATREAILLLDAAGFDVIIIETVG 131
>gnl|CDD|30875 COG0529, CysC, Adenylylsulfate kinase and related kinases
[Inorganic ion transport and metabolism].
Length = 197
Score = 37.1 bits (86), Expect = 0.007
Identities = 15/43 (34%), Positives = 22/43 (51%)
Query: 109 HRPHVILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFR 151
+ VI G++G GK+T+ L +K+ G V L GD R
Sbjct: 21 QKGAVIWFTGLSGSGKSTIANALEEKLFAKGYHVYLLDGDNVR 63
>gnl|CDD|48378 cd03114, ArgK-like, The function of this protein family is unkown.
The protein sequences are similar to the ArgK protein in
E. coli. ArgK protein is a membrane ATPase which is
required for transporting arginine, ornithine and lysine
into the cells by the arginine and ornithine (AO system)
and lysine, arginine and ornithine (LAO) transport
systems..
Length = 148
Score = 35.6 bits (82), Expect = 0.019
Identities = 29/101 (28%), Positives = 45/101 (44%), Gaps = 10/101 (9%)
Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGD---TFRSAAIDQLKIWADRTSAD- 168
VI + GV G GK+T+I L + G +V + A D F AI +I +R ++D
Sbjct: 1 VIGITGVPGAGKSTLIDALITALRARGKRVAVLAIDPSSPFSGGAILGDRIRMERHASDP 60
Query: 169 --FVCS----EIGSDAAALAYEAFKQAQAKKVDVLIIDTAG 203
F+ S + E + A DV+I++T G
Sbjct: 61 GVFIRSLATRGFLGGLSRATPEVIRVLDAAGFDVIIVETVG 101
>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 = 35.5 bits (81), Expect = 0.021
Identities = 14/33 (42%), Positives = 21/33 (63%)
Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLA 145
VI+V G GVGKTT+ L+ ++ G +V+L
Sbjct: 1 VIVVTGKGGVGKTTLAANLAAALAKRGKRVLLI 33
>gnl|CDD|30586 COG0237, CoaE, Dephospho-CoA kinase [Coenzyme metabolism].
Length = 201
Score = 34.1 bits (78), Expect = 0.046
Identities = 20/84 (23%), Positives = 36/84 (42%), Gaps = 8/84 (9%)
Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIW---ADRTSADF 169
+I + G G GK+TV +K +++ G V + A D R + A+R +
Sbjct: 4 IIGLTGGIGSGKSTV----AKILAELGFPV-IDADDVAREVVEPGGEALQEIAERFGLEI 58
Query: 170 VCSEIGSDAAALAYEAFKQAQAKK 193
+ + G D L + F +A+
Sbjct: 59 LDEDGGLDRRKLREKVFNDPEARL 82
>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 = 34.1 bits (78), Expect = 0.046
Identities = 14/36 (38%), Positives = 22/36 (61%)
Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGD 148
VI G GVGKTT+ + ++++ G KV+L + D
Sbjct: 1 VIFFTGKGGVGKTTIAAATAVRLAEEGKKVLLVSTD 36
>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 = 34.2 bits (79), Expect = 0.051
Identities = 13/42 (30%), Positives = 22/42 (52%)
Query: 110 RPHVILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFR 151
R + G++G GK+T+ L +K+ G+ V + GD R
Sbjct: 1 RGCTVWFTGLSGSGKSTIANALERKLFAQGISVYVLDGDNVR 42
>gnl|CDD|30352 COG0003, ArsA, Predicted ATPase involved in chromosome partitioning
[Cell division and chromosome partitioning].
Length = 322
Score = 33.8 bits (77), Expect = 0.072
Identities = 13/39 (33%), Positives = 23/39 (58%)
Query: 111 PHVILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDT 149
++ G GVGKTT+ + K++++G KV+L + D
Sbjct: 2 TRIVFFTGKGGVGKTTIAAATAVKLAESGKKVLLVSTDP 40
>gnl|CDD|39857 KOG4658, KOG4658, KOG4658, Apoptotic ATPase [Signal transduction
mechanisms].
Length = 889
Score = 33.0 bits (75), Expect = 0.10
Identities = 28/134 (20%), Positives = 48/134 (35%), Gaps = 21/134 (15%)
Query: 9 ESLSWIRKLT--KGFASTSLKLKEGITDIISSRRLDDGVREELEDLLIRSDIGVAVAQKI 66
+ S R+ GF S ++ +R+ +RE +E L + V
Sbjct: 92 STRSVERQRLCLCGFCSKNVSDSYKY-----GKRVSKVLRE-VESLGSKGVFEVVGESLD 145
Query: 67 VEELLTKRYAKDVSVQRV-LYDVSELIHKMLMPLSKPFNWDFSHRPHVILVVGVNGVGKT 125
E + R S V L + E + LM ++ + G+ GVGKT
Sbjct: 146 PREKVETRP--IQSESDVGLETMLEKLWNRLM----------EDDVGIVGIYGMGGVGKT 193
Query: 126 TVIGKLSKKMSDAG 139
T+ ++ K + G
Sbjct: 194 TLARQIFNKFDEVG 207
>gnl|CDD|29987 cd01121, Sms, Sms (bacterial radA) DNA repair protein. This protein
is not related to archael radA any more than is to other
RecA-like NTPases. Sms has a role in recombination and
recombinational repair and is responsible for the
stabilization or processing of branched DNA molecules..
Length = 372
Score = 33.3 bits (76), Expect = 0.10
Identities = 23/93 (24%), Positives = 49/93 (52%), Gaps = 14/93 (15%)
Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSAD---- 168
VIL+ G G+GK+T++ +++ +++ G KV+ +G+ + +Q+K+ ADR
Sbjct: 84 VILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGE----ESPEQIKLRADRLGISTENL 139
Query: 169 FVCSEIGSDAAALAYEAFKQAQAKKVDVLIIDT 201
++ +E + + K D++IID+
Sbjct: 140 YLLAETNLEDIL------ASIEELKPDLVIIDS 166
>gnl|CDD|37019 KOG1808, KOG1808, KOG1808, AAA ATPase containing von Willebrand
factor type A (vWA) domain [General function prediction
only].
Length = 1856
Score = 32.7 bits (74), Expect = 0.13
Identities = 24/128 (18%), Positives = 42/128 (32%), Gaps = 13/128 (10%)
Query: 105 WDFSHRPHVILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWADR 164
H ++LV G GVGKT+V+ L+ + L V+ + + S + K D
Sbjct: 60 VCVQHNEPLLLV-GETGVGKTSVVQYLA-VLLGFKLTVVNVSQQSDSSDLLGGYKPVNDY 117
Query: 165 TSADF-----------VCSEIGSDAAALAYEAFKQAQAKKVDVLIIDTAGRLHNNSILMA 213
S + A + K + L+I+ + N M
Sbjct: 118 LSLPLSKPFEKIFNLTFLLKKNQKFIKNASRCLSSGRHKDLISLMIEICSKAELNPNPMK 177
Query: 214 GIGKMIRV 221
+R+
Sbjct: 178 RAELEMRL 185
>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 = 32.7 bits (75), Expect = 0.13
Identities = 14/40 (35%), Positives = 22/40 (55%)
Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRS 152
VI + G++G GK+T+ L +K+ G V + GD R
Sbjct: 1 VIWLTGLSGSGKSTIARALEEKLFQRGRPVYVLDGDNVRH 40
>gnl|CDD|145402 pfam02223, Thymidylate_kin, Thymidylate kinase.
Length = 186
Score = 32.6 bits (75), Expect = 0.13
Identities = 11/27 (40%), Positives = 19/27 (70%)
Query: 118 GVNGVGKTTVIGKLSKKMSDAGLKVML 144
G++G GKTT L +++ + G+KV+L
Sbjct: 3 GLDGAGKTTQAELLKERLKEQGIKVVL 29
>gnl|CDD|73214 cd00550, ArsA_ATPase, Oxyanion-translocating ATPase (ArsA). This
ATPase is involved in transport of arsenite, antimonite
or other oxyanions across biological membranes in all
three kingdoms of life. ArsA contains a highly
conserved AAA motif present in the AAA+ ATPase
superfamily associated with a variety of cellular
activities. To form a functional ATP-driven pump, ArsA
interacts with the permease ArsB, which is a
channel-forming integral membrane protein. One of the
most interesting features of ArsA is the allosteric
activation by its transport substrates. A divalent
cation, typically Mg2+, is required for its enzymatic
activity..
Length = 254
Score = 32.5 bits (74), Expect = 0.14
Identities = 13/36 (36%), Positives = 21/36 (58%)
Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGD 148
I G GVGKTT+ + ++++ G KV+L + D
Sbjct: 2 YIFFGGKGGVGKTTISAATAVRLAEQGKKVLLVSTD 37
>gnl|CDD|30834 COG0488, Uup, ATPase components of ABC transporters with duplicated
ATPase domains [General function prediction only].
Length = 530
Score = 32.5 bits (74), Expect = 0.15
Identities = 37/158 (23%), Positives = 62/158 (39%), Gaps = 26/158 (16%)
Query: 4 QKVASESLSWIRKLTKGFASTSLKLKEGIT--DIISSRRLDDGVREELEDLLIRSDIGVA 61
QK ++ WIR+ AS + K K I + + +R ++ EE + L R
Sbjct: 257 QKELAKEQEWIRRGKAA-ASKAKKAKSRIKRLEKLEARLAEERPVEEGKPLAFRFPPPGK 315
Query: 62 VAQKIVEEL--LTKRYAKDVSVQRVLYDVSELIHKMLMPLSKPFNWDFSHRPHVILVVGV 119
K+V E ++K Y L K ++ R I +VG
Sbjct: 316 RLGKLVLEFENVSKGYDGG------------------RLLLKDLSFRID-RGDRIAIVGP 356
Query: 120 NGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQ 157
NG GK+T++ L+ ++ L + G+T + DQ
Sbjct: 357 NGAGKSTLLKLLAGEL--GPLSGTVKVGETVKIGYFDQ 392
>gnl|CDD|31805 COG1618, COG1618, Predicted nucleotide kinase [Nucleotide transport
and metabolism].
Length = 179
Score = 32.5 bits (74), Expect = 0.17
Identities = 29/120 (24%), Positives = 44/120 (36%), Gaps = 29/120 (24%)
Query: 111 PHVILVVGVNGVGKTTVIGKLSKKMSDAGLKVM--------------------LAAGDTF 150
I + G GVGKTT++ K+++K+ + G KV LA G+
Sbjct: 5 AMKIFITGRPGVGKTTLVLKIAEKLREKGYKVGGFITPEVREGGKRIGFKIVDLATGEEG 64
Query: 151 RSAAIDQLKIWADRTSADF-VCSEIGSDAAALAYEAFKQAQAKKVDVLIIDTAGRLHNNS 209
A + + + + EI A A E DV+IID G + S
Sbjct: 65 ILARVGFSRPRVGKYGVNVEGLEEIAIPALRRALEE--------ADVIIIDEIGPMELKS 116
>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 = 31.8 bits (72), Expect = 0.23
Identities = 18/58 (31%), Positives = 31/58 (53%), Gaps = 2/58 (3%)
Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAA--GDTFRSAAIDQLKIWADRTSAD 168
I+ G++G GKTT+I L++++ G +V+L G T AI +L + + D
Sbjct: 2 FIVFEGIDGAGKTTLIELLAERLEARGYEVVLTREPGGTPIGEAIRELLLDPEDEKMD 59
>gnl|CDD|146036 pfam03205, MobB, Molybdopterin guanine dinucleotide synthesis
protein B. This protein contains a P-loop.
Length = 122
Score = 32.0 bits (73), Expect = 0.23
Identities = 13/30 (43%), Positives = 18/30 (60%)
Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKV 142
++LVVG GKTT+I KL + G +V
Sbjct: 2 IVLVVGPKDSGKTTLIRKLLNYLKRRGYRV 31
>gnl|CDD|146080 pfam03266, DUF265, Protein of unknown function, DUF265.
Length = 168
Score = 31.8 bits (73), Expect = 0.23
Identities = 12/30 (40%), Positives = 19/30 (63%)
Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKV 142
I + G GVGKTT++ K+ + + G+KV
Sbjct: 1 RIFITGPPGVGKTTLVKKVIELLKSEGVKV 30
>gnl|CDD|38564 KOG3354, KOG3354, KOG3354, Gluconate kinase [Carbohydrate transport
and metabolism].
Length = 191
Score = 31.9 bits (72), Expect = 0.24
Identities = 15/44 (34%), Positives = 24/44 (54%), Gaps = 5/44 (11%)
Query: 111 PHVILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAA 154
+VI+V+GV+G GK+T+ LS++ L + GD A
Sbjct: 12 KYVIVVMGVSGSGKSTIGKALSEE-----LGLKFIDGDDLHPPA 50
>gnl|CDD|31299 COG1102, Cmk, Cytidylate kinase [Nucleotide transport and
metabolism].
Length = 179
Score = 31.8 bits (72), Expect = 0.24
Identities = 18/42 (42%), Positives = 27/42 (64%), Gaps = 4/42 (9%)
Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAA 154
VI + G+ G GKTTV +L++ + GLK+ ++AG FR A
Sbjct: 2 VITISGLPGSGKTTVARELAEHL---GLKL-VSAGTIFREMA 39
>gnl|CDD|111283 pfam02374, ArsA_ATPase, Anion-transporting ATPase. This Pfam
family represents a conserved domain, which is sometimes
repeated, in an anion-transporting ATPase. The ATPase is
involved in the removal of arsenate, antimonite, and
arsenate from the cell.
Length = 304
Score = 31.6 bits (72), Expect = 0.29
Identities = 15/36 (41%), Positives = 21/36 (58%)
Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGD 148
I G GVGKTTV + ++S+ G KV+L + D
Sbjct: 3 WIFFGGKGGVGKTTVSCATAVRLSEQGKKVLLVSTD 38
>gnl|CDD|38232 KOG3022, KOG3022, KOG3022, Predicted ATPase, nucleotide-binding
[Cell cycle control, cell division, chromosome
partitioning].
Length = 300
Score = 31.4 bits (71), Expect = 0.31
Identities = 17/39 (43%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 111 PHVILVV-GVNGVGKTTVIGKLSKKMSDAGLKVMLAAGD 148
H+ILV+ G GVGK+TV L+ ++ G KV L D
Sbjct: 47 KHIILVLSGKGGVGKSTVTVNLALALASEGKKVGLLDAD 85
>gnl|CDD|35293 KOG0070, KOG0070, KOG0070, GTP-binding ADP-ribosylation factor Arf1
[Intracellular trafficking, secretion, and vesicular
transport].
Length = 181
Score = 31.4 bits (71), Expect = 0.35
Identities = 15/37 (40%), Positives = 23/37 (62%)
Query: 95 MLMPLSKPFNWDFSHRPHVILVVGVNGVGKTTVIGKL 131
M + SK F+ F + IL+VG++ GKTT++ KL
Sbjct: 1 MGLIFSKLFSGLFGKKEMRILMVGLDAAGKTTILYKL 37
>gnl|CDD|30194 cd02021, GntK, Gluconate kinase (GntK) catalyzes the phosphoryl
transfer from ATP to gluconate. The resulting product
gluconate-6-phoshate is an important precursor of
gluconate metabolism. GntK acts as a dimmer composed of
two identical subunits..
Length = 150
Score = 31.0 bits (70), Expect = 0.44
Identities = 14/42 (33%), Positives = 22/42 (52%), Gaps = 5/42 (11%)
Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAA 154
+I+V+GV+G GK+TV L+++ L GD A
Sbjct: 1 IIVVMGVSGSGKSTVGKALAER-----LGAPFIDGDDLHPPA 37
>gnl|CDD|32202 COG2019, AdkA, Archaeal adenylate kinase [Nucleotide transport and
metabolism].
Length = 189
Score = 30.7 bits (69), Expect = 0.51
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 111 PHVILVVGVNGVGKTTVIGKLSKKMSD 137
V+++ GV GVGKTTV+ K++
Sbjct: 4 RKVVVITGVPGVGKTTVLKIALKELVK 30
>gnl|CDD|30474 COG0125, Tmk, Thymidylate kinase [Nucleotide transport and
metabolism].
Length = 208
Score = 30.6 bits (69), Expect = 0.52
Identities = 12/31 (38%), Positives = 22/31 (70%)
Query: 114 ILVVGVNGVGKTTVIGKLSKKMSDAGLKVML 144
I++ G++G GKTT L +++ + G+KV+L
Sbjct: 6 IVIEGIDGAGKTTQAELLKERLEERGIKVVL 36
>gnl|CDD|37016 KOG1805, KOG1805, KOG1805, DNA replication helicase [Replication,
recombination and repair].
Length = 1100
Score = 30.7 bits (69), Expect = 0.55
Identities = 17/49 (34%), Positives = 27/49 (55%), Gaps = 3/49 (6%)
Query: 112 HVILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKI 160
L++G+ G GKTT I L K + G KV+L + + +A+D + I
Sbjct: 686 DYALILGMPGTGKTTTISLLIKILVALGKKVLLTS---YTHSAVDNILI 731
>gnl|CDD|133282 cd01882, BMS1, Bms1. Bms1 is an essential, evolutionarily
conserved, nucleolar protein. Its depletion interferes
with processing of the 35S pre-rRNA at sites A0, A1, and
A2, and the formation of 40S subunits. Bms1, the
putative endonuclease Rc11, and the essential U3 small
nucleolar RNA form a stable subcomplex that is believed
to control an early step in the formation of the 40S
subumit. The C-terminal domain of Bms1 contains a
GTPase-activating protein (GAP) that functions
intramolecularly. It is believed that Rc11 activates
Bms1 by acting as a guanine-nucleotide exchange factor
(GEF) to promote GDP/GTP exchange, and that activated
(GTP-bound) Bms1 delivers Rc11 to the preribosomes.
Length = 225
Score = 30.7 bits (70), Expect = 0.57
Identities = 14/26 (53%), Positives = 17/26 (65%)
Query: 111 PHVILVVGVNGVGKTTVIGKLSKKMS 136
P V+ VVG GVGKTT+I L K +
Sbjct: 39 PLVVAVVGPPGVGKTTLIKSLVKNYT 64
>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 = 30.6 bits (69), Expect = 0.60
Identities = 18/104 (17%), Positives = 29/104 (27%), Gaps = 17/104 (16%)
Query: 104 NWDFSHRPHVILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWAD 163
P +L+ G G GKTT+ ++ ++ G + +
Sbjct: 12 EALELPPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHF 71
Query: 164 RTSADFVCSEIGSDAAALAYEAFKQAQAKKVDVLIIDTAGRLHN 207
L F+ A+ K VL ID L
Sbjct: 72 -----------------LVRLLFELAEKAKPGVLFIDEIDSLSR 98
>gnl|CDD|30727 COG0378, HypB, Ni2+-binding GTPase involved in regulation of
expression and maturation of urease and hydrogenase
[Posttranslational modification, protein turnover,
chaperones / Transcription].
Length = 202
Score = 30.5 bits (69), Expect = 0.61
Identities = 37/164 (22%), Positives = 62/164 (37%), Gaps = 34/164 (20%)
Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQL-KIWADRT---SAD 168
I V G G GKT +I K + + D K+ + GD + D+L K+ +
Sbjct: 15 RIGVGGPPGSGKTALIEKTLRALKD-EYKIAVITGDIYTKEDADRLRKLPGEPIIGVETG 73
Query: 169 FVCSEIGSDAAALAYEAFKQ--AQAKKVDVLIIDTAGRLHNNSILMAGIGKMIRVLKRLD 226
C A++ EA ++ +D+L I++ G L
Sbjct: 74 KGCHL----DASMNLEAIEELVLDFPDLDLLFIESVGNLVC----------------PFS 113
Query: 227 PH-APHSVLQVLDATTGQNALRQV--EMFHAVAGTTGLIMTKMD 267
P H + V+D T G++ R+ +F A L++ K D
Sbjct: 114 PDLGDHLRVVVIDVTEGEDIPRKGGPGIFKADL----LVINKTD 153
>gnl|CDD|30835 COG0489, Mrp, ATPases involved in chromosome partitioning [Cell
division and chromosome partitioning].
Length = 265
Score = 30.4 bits (68), Expect = 0.74
Identities = 15/39 (38%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 111 PHVILVV-GVNGVGKTTVIGKLSKKMSDAGLKVMLAAGD 148
+VI V G GVGK+TV L+ ++ G +V+L D
Sbjct: 57 KNVIAVTSGKGGVGKSTVAVNLAAALAQLGKRVLLLDAD 95
>gnl|CDD|144975 pfam01580, FtsK_SpoIIIE, FtsK/SpoIIIE family. FtsK has extensive
sequence similarity to wide variety of proteins from
prokaryotes and plasmids, termed the FtsK/SpoIIIE
family. This domain contains a putative ATP binding
P-loop motif. It is found in the FtsK cell division
protein from E. coli and the stage III sporulation
protein E SpoIIIE which has roles in regulation of
prespore specific gene expression in B. subtilis. A
mutation in FtsK causes a temperature sensitive block in
cell division and it is involved in peptidoglycan
synthesis or modification. The SpoIIIE protein is
implicated in intercellular chromosomal DNA transfer.
Length = 202
Score = 30.0 bits (68), Expect = 0.81
Identities = 27/136 (19%), Positives = 49/136 (36%), Gaps = 26/136 (19%)
Query: 101 KPFNWDFSHRPHVILVVGVNGVGKT----TVIGKLSKKMSDAGLKVMLAAGDTFRSAAID 156
P D PH+ L+ G G GK+ T+I L+ + S +++ L + +
Sbjct: 29 NPVVADLVKMPHL-LIAGATGSGKSTFLNTLILSLAARHSPEEVRLYLID---PKGGELA 84
Query: 157 QLKIWADRTSADFVCSEIGSDAAALA---------YEAFKQAQAKKVDV-------LIID 200
L+ SA V ++ +AL Y KQ + ++ I+
Sbjct: 85 ALEDLPHLLSA--VATDPEDALSALRALVAEMERRYALLKQLGVRSIEEYNGEIAEDILG 142
Query: 201 TAGRLHNNSILMAGIG 216
AG L ++ +
Sbjct: 143 GAGWLEELPPIVVIVD 158
>gnl|CDD|31673 COG1484, DnaC, DNA replication protein [DNA replication,
recombination, and repair].
Length = 254
Score = 30.0 bits (67), Expect = 1.00
Identities = 21/87 (24%), Positives = 38/87 (43%), Gaps = 20/87 (22%)
Query: 114 ILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSADFVCSE 173
++++G GVGKT + + ++ AG+ V+ T+ D + S+
Sbjct: 108 LVLLGPPGVGKTHLAIAIGNELLKAGISVLFI-------------------TAPDLL-SK 147
Query: 174 IGSDAAALAYEAFKQAQAKKVDVLIID 200
+ + E + KKVD+LIID
Sbjct: 148 LKAAFDEGRLEEKLLRELKKVDLLIID 174
>gnl|CDD|32257 COG2074, COG2074, 2-phosphoglycerate kinase [Carbohydrate transport
and metabolism].
Length = 299
Score = 29.9 bits (67), Expect = 1.0
Identities = 23/91 (25%), Positives = 46/91 (50%), Gaps = 7/91 (7%)
Query: 53 LIRSDIGVAVAQKI---VEELLTKRYAKDVSVQRVLYDVSELIHKMLMPLSKPFN-WDF- 107
L + + +A I ++E L K + V+ + +L+ K ++K + W
Sbjct: 24 LTAAGVDPDLAYSIAIEIQEELKKEGIRLVTKDEIREVYQKLLEKGDPEVAKRYLLWRRI 83
Query: 108 --SHRPHVILVVGVNGVGKTTVIGKLSKKMS 136
RP +IL+ G +GVGK+T+ G+L++++
Sbjct: 84 RKMKRPLIILIGGASGVGKSTIAGELARRLG 114
>gnl|CDD|34868 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 29.7 bits (66), Expect = 1.0
Identities = 20/90 (22%), Positives = 32/90 (35%), Gaps = 19/90 (21%)
Query: 49 LEDLLIRSDIGVAVAQKI---VEELLTKRYAKDVSVQRVLYDVSELIHKMLMPLSKPFNW 105
+ +L DIG K + L +A +L + W
Sbjct: 415 VLNLKHEIDIGRCALTKTEIPIISLSGNSFAFTSCSLWLLEQLL---------------W 459
Query: 106 DFSHRPHVILVVGVNGVGKTTVIGKLSKKM 135
+ + +LV G G GKTT+I L+ K+
Sbjct: 460 NIQNNEPTLLV-GETGTGKTTMIQYLALKL 488
Score = 27.0 bits (59), Expect = 7.2
Identities = 13/37 (35%), Positives = 23/37 (62%), Gaps = 2/37 (5%)
Query: 109 HRPHVILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLA 145
+P IL+ G GVGKT++I L++K +++ L+
Sbjct: 1543 GKP--ILLEGSPGVGKTSLITALARKTGKKLIRINLS 1577
>gnl|CDD|31564 COG1373, COG1373, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 398
Score = 29.6 bits (66), Expect = 1.0
Identities = 12/25 (48%), Positives = 17/25 (68%)
Query: 110 RPHVILVVGVNGVGKTTVIGKLSKK 134
RP +IL++G VGKTT++ L K
Sbjct: 36 RPFIILILGPRQVGKTTLLKLLIKG 60
>gnl|CDD|37566 KOG2355, KOG2355, KOG2355, Predicted ABC-type transport, ATPase
component/CCR4 associated factor [General function
prediction only, Transcription].
Length = 291
Score = 29.6 bits (66), Expect = 1.1
Identities = 26/88 (29%), Positives = 37/88 (42%), Gaps = 8/88 (9%)
Query: 68 EELLTKRYAKDVSVQRVLYDVSELIHKMLMPLSKPFNWDFSHRPHVILVVGVNGVGKTTV 127
E +A +VS + Y VS+ P+ FN D L+VG NG GKTT+
Sbjct: 5 EAEAVSDFAIEVSGLQFKYKVSD-------PIFFDFNLDLPAGSRC-LLVGANGAGKTTL 56
Query: 128 IGKLSKKMSDAGLKVMLAAGDTFRSAAI 155
+ LS K G V + F ++
Sbjct: 57 LKILSGKHMVGGGVVQVLGRSAFHDTSL 84
>gnl|CDD|31265 COG1066, Sms, Predicted ATP-dependent serine protease
[Posttranslational modification, protein turnover,
chaperones].
Length = 456
Score = 29.8 bits (67), Expect = 1.1
Identities = 25/103 (24%), Positives = 55/103 (53%), Gaps = 17/103 (16%)
Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSADFVCS 172
VIL+ G G+GK+T++ +++ +++ G KV+ +G+ ++ Q+K+ ADR
Sbjct: 95 VILIGGDPGIGKSTLLLQVAARLAKRG-KVLYVSGEE----SLQQIKLRADRL------- 142
Query: 173 EIGSDAAALAYEA-----FKQAQAKKVDVLIIDTAGRLHNNSI 210
+ ++ L E + + +K D+++ID+ L++ I
Sbjct: 143 GLPTNNLYLLAETNLEDIIAELEQEKPDLVVIDSIQTLYSEEI 185
>gnl|CDD|147760 pfam05783, DLIC, Dynein light intermediate chain (DLIC). This
family consists of several eukaryotic dynein light
intermediate chain proteins. The light intermediate
chains (LICs) of cytoplasmic dynein consist of multiple
isoforms, which undergo post-translational modification
to produce a large number of species. DLIC1 is known to
be involved in assembly, organisation, and function of
centrosomes and mitotic spindles when bound to
pericentrin. DLIC2 is a subunit of cytoplasmic dynein 2
that may play a role in maintaining Golgi organisation
by binding cytoplasmic dynein 2 to its Golgi-associated
cargo.
Length = 490
Score = 29.4 bits (66), Expect = 1.3
Identities = 11/18 (61%), Positives = 15/18 (83%)
Query: 114 ILVVGVNGVGKTTVIGKL 131
+LV+G +G GKTT+I KL
Sbjct: 48 VLVLGEDGSGKTTLIAKL 65
>gnl|CDD|32539 COG2403, COG2403, Predicted GTPase [General function prediction
only].
Length = 449
Score = 29.5 bits (66), Expect = 1.3
Identities = 23/127 (18%), Positives = 47/127 (37%), Gaps = 27/127 (21%)
Query: 31 GITDIISSRRLDDGVREELEDLLIRSDIGVAVAQKIVEELLTKRYAKDVSVQRVLYDVSE 90
G T+ I L+ + GV + + + L K ++ V V+ S+
Sbjct: 44 GGTERIYPPSLEGVLYPL----------GVPILPEKDYDDLEK-IIREKDVDIVVLAYSD 92
Query: 91 LIHKMLMPLS-------------KPFNW-DFSHRPHVILVVGV-NGVGKTTVIGKLSKKM 135
+ ++ + ++ P +P VI V GVGK+ V +++ +
Sbjct: 93 VSYEHVFRIASRVLSAGADFKELGPKETMLKLEKP-VIAVTATRTGVGKSAVSRYVARLL 151
Query: 136 SDAGLKV 142
+ G +V
Sbjct: 152 RERGYRV 158
>gnl|CDD|31663 COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA
replication, recombination, and repair /
Posttranslational modification, protein turnover,
chaperones].
Length = 366
Score = 29.6 bits (66), Expect = 1.4
Identities = 9/35 (25%), Positives = 18/35 (51%)
Query: 108 SHRPHVILVVGVNGVGKTTVIGKLSKKMSDAGLKV 142
RP I++ G G GKT + + +++ ++ V
Sbjct: 39 GERPSNIIIYGPTGTGKTATVKFVMEELEESSANV 73
>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 = 29.4 bits (66), Expect = 1.4
Identities = 13/36 (36%), Positives = 19/36 (52%)
Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGD 148
+++ G GVGKTT L ++ G KV+L D
Sbjct: 2 IVVTSGKGGVGKTTTTANLGTALAQLGYKVVLIDAD 37
>gnl|CDD|30633 COG0285, FolC, Folylpolyglutamate synthase [Coenzyme metabolism].
Length = 427
Score = 29.1 bits (65), Expect = 1.5
Identities = 36/148 (24%), Positives = 62/148 (41%), Gaps = 36/148 (24%)
Query: 90 ELIHKMLMPLSKPFNWDFSHRPHVILVVGVNGVGKTTVIGKLSKKMSDAGLKV------- 142
E I ++L L P P VI V G N GK + L + +AG KV
Sbjct: 28 ERISRLLERLGNPQK-----SPPVIHVAGTN--GKGSTCAFLESILREAGYKVGVYTSPH 80
Query: 143 MLAAGDTFR-----------SAAIDQLKIWADRTSADFVCS--EIGSDAAALAYEAFKQA 189
+L+ + R +AA ++++ A + + E+ + A+A+ F +A
Sbjct: 81 LLSFNERIRINGEPISDEELAAAFERVEE-AAGSLDLISLTYFEVLT---AMAFLYFAEA 136
Query: 190 QAKKVDVLIIDT--AGRLHNNSILMAGI 215
KVDV I++ GRL +++ +
Sbjct: 137 ---KVDVAILEVGLGGRLDATNVIEPDV 161
>gnl|CDD|34224 COG4586, COG4586, ABC-type uncharacterized transport system, ATPase
component [General function prediction only].
Length = 325
Score = 29.1 bits (65), Expect = 1.5
Identities = 12/39 (30%), Positives = 20/39 (51%)
Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFR 151
++ +G NG GK+T + L+ + KV + D FR
Sbjct: 52 IVGFLGANGAGKSTTLKMLTGLLLPTSGKVRVNGKDPFR 90
>gnl|CDD|37181 KOG1970, KOG1970, KOG1970, Checkpoint RAD17-RFC complex,
RAD17/RAD24 component [Energy production and conversion,
Replication, recombination and repair].
Length = 634
Score = 29.3 bits (65), Expect = 1.6
Identities = 23/127 (18%), Positives = 53/127 (41%), Gaps = 13/127 (10%)
Query: 12 SWIRKLTKGFASTSLKLKEGITDIISSRRLDDGVREELEDLLIRSDIGVAVAQKIVEELL 71
S +K + S +L + + D E+ E + + ++ EL
Sbjct: 14 SLKKKASNIRKSEKPRLSSK-SSTTKPSSIPDIHEEDFEAFDDEESVHLNNEKEDEFELW 72
Query: 72 TKRY----AKDVSV-QRVLYDVSELIHKMLMPLSKPFNWDFSHRPHVILVVGVNGVGKTT 126
++Y ++++V ++ + +V + + ++ K R ++L+ G +G GK+T
Sbjct: 73 VEKYKPRTLEELAVHKKKISEVKQWLKQVAEFTPK-----LGSR--ILLLTGPSGCGKST 125
Query: 127 VIGKLSK 133
+ LSK
Sbjct: 126 TVKVLSK 132
>gnl|CDD|30189 cd01428, ADK, Adenylate kinase (ADK) catalyzes the reversible
phosphoryl transfer from adenosine triphosphates (ATP)
to adenosine monophosphates (AMP) and to yield adenosine
diphosphates (ADP). This enzyme is required for the
biosynthesis of ADP and is essential for homeostasis of
adenosine phosphates..
Length = 194
Score = 29.0 bits (65), Expect = 1.7
Identities = 15/41 (36%), Positives = 21/41 (51%), Gaps = 4/41 (9%)
Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSA 153
IL++G G GK T +L+KK GL ++ GD R
Sbjct: 1 RILLLGPPGSGKGTQAERLAKKY---GL-PHISTGDLLREE 37
>gnl|CDD|48369 cd02040, NifH, NifH gene encodes component II (iron protein) of
nitrogenase. Nitrogenase is responsible for the
biological nitrogen fixation, i.e. reduction of
molecular nitrogen to ammonia. NifH consists of two
oxygen-sensitive metallosulfur proteins: the
mollybdenum-iron (alternatively, vanadium-iron or
iron-iron) protein (commonly referred to as component
1), and the iron protein (commonly referred to as
component 2). The iron protein is a homodimer, with an
Fe4S4 cluster bound between the subunits and two
ATP-binding domains. It supplies energy by ATP
hydrolysis, and transfers electrons from reduced
ferredoxin or flavodoxin to component 1 for the
reduction of molecular nitrogen to ammonia..
Length = 270
Score = 29.0 bits (65), Expect = 1.7
Identities = 13/35 (37%), Positives = 20/35 (57%)
Query: 114 ILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGD 148
I + G G+GK+T LS +++ G KVM+ D
Sbjct: 4 IAIYGKGGIGKSTTTQNLSAALAEMGKKVMIVGCD 38
>gnl|CDD|29996 cd01130, VirB11-like_ATPase, Type IV secretory pathway component
VirB11, and related ATPases. The homohexamer, VirB11 is
one of eleven Vir proteins, which are required for
T-pilus biogenesis and virulence in the transfer of
T-DNA from the Ti (tumor-inducing) plasmid of bacterial
to plant cells. The pilus is a fibrous cell surface
organelle, which mediates adhesion between bacteria
during conjugative transfer or between bacteria and host
eukaryotic cells during infection. VirB11- related
ATPases include the archaeal flagella biosynthesis
protein and the pilus assembly proteins CpaF/TadA and
TrbB. This alignment contains the C-terminal domain,
which is the ATPase..
Length = 186
Score = 29.1 bits (65), Expect = 1.8
Identities = 12/40 (30%), Positives = 16/40 (40%)
Query: 93 HKMLMPLSKPFNWDFSHRPHVILVVGVNGVGKTTVIGKLS 132
PL + W IL+ G G GKTT++ L
Sbjct: 7 QGTFSPLQAAYLWLAVEARKNILISGGTGSGKTTLLNALL 46
>gnl|CDD|35294 KOG0071, KOG0071, KOG0071, GTP-binding ADP-ribosylation factor Arf6
(dArf3) [Intracellular trafficking, secretion, and
vesicular transport].
Length = 180
Score = 28.8 bits (64), Expect = 1.8
Identities = 14/43 (32%), Positives = 24/43 (55%)
Query: 95 MLMPLSKPFNWDFSHRPHVILVVGVNGVGKTTVIGKLSKKMSD 137
M +SK + F ++ IL++G++ GKTT++ KL S
Sbjct: 1 MGNYMSKLLSKIFGNKEMRILMLGLDAAGKTTILYKLKLGQSV 43
>gnl|CDD|48371 cd02117, NifH_like, This family contains the NifH (iron protein) of
nitrogenase, L subunit (BchL/ChlL) of the
protochlorophyllide reductase and the BchX subunit of
the Chlorophyllide reductase. Members of this family use
energey from ATP hydrolysis and transfer electrons
through a Fe4-S4 cluster to other subunit for reduction
of substrate..
Length = 212
Score = 29.0 bits (65), Expect = 1.8
Identities = 12/36 (33%), Positives = 19/36 (52%)
Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGD 148
I + G G+GK+T LS +++ G KV+ D
Sbjct: 2 QIAIYGKGGIGKSTTSQNLSAALAEMGKKVLQVGCD 37
>gnl|CDD|111395 pfam02492, cobW, CobW/HypB/UreG, nucleotide-binding domain. This
domain is found in HypB, a hydrogenase expression /
formation protein, and UreG a urease accessory protein.
Both these proteins contain a P-loop nucleotide binding
motif. HypB has GTPase activity and is a guanine
nucleotide binding protein. It is not known whether UreG
binds GTP or some other nucleotide. Both enzymes are
involved in nickel binding. HypB can store nickel and is
required for nickel dependent hydrogenase expression.
UreG is required for functional incorporation of the
urease nickel metallocenter. GTP hydrolysis may required
by these proteins for nickel incorporation into other
nickel proteins. This family of domains also contains
P47K, a Pseudomonas chlororaphis protein needed for
nitrile hydratase expression, and the cobW gene product,
which may be involved in cobalamin biosynthesis in
Pseudomonas denitrificans.
Length = 174
Score = 28.7 bits (65), Expect = 1.9
Identities = 28/101 (27%), Positives = 46/101 (45%), Gaps = 12/101 (11%)
Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSADFV-- 170
V ++ G G GKTT++ L + + GLK+ + D F ID + T A+ V
Sbjct: 2 VTVLTGFLGSGKTTLLEHLLRDNRE-GLKIAVIVND-FGETGIDAELL--RETGAEIVEL 57
Query: 171 -----CSEIGSDAAALAYEAFKQAQAKKVDVLIIDTAGRLH 206
C I D ++ EA + + ++D+L I+T G
Sbjct: 58 NNGCICCTIRED-LSMVLEALLELKLPRLDLLFIETTGLAC 97
>gnl|CDD|35296 KOG0073, KOG0073, KOG0073, GTP-binding ADP-ribosylation factor-like
protein ARL2 [Intracellular trafficking, secretion, and
vesicular transport, Cytoskeleton].
Length = 185
Score = 28.7 bits (64), Expect = 2.1
Identities = 14/50 (28%), Positives = 25/50 (50%), Gaps = 5/50 (10%)
Query: 114 ILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAID--QLKIW 161
IL++G++ GKTT++ KL + +D + G ++ L IW
Sbjct: 19 ILILGLDNSGKTTIVKKLLGEDTD---TISPTLGFQIKTLEYKGYTLNIW 65
>gnl|CDD|133362 cd04162, Arl9_Arfrp2_like, Arl9/Arfrp2-like subfamily. Arl9
(Arf-like 9) was first identified as part of the Human
Cancer Genome Project. It maps to chromosome 4q12 and
is sometimes referred to as Arfrp2 (Arf-related protein
2). This is a novel subfamily identified in human
cancers that is uncharacterized to date.
Length = 164
Score = 28.6 bits (64), Expect = 2.2
Identities = 11/23 (47%), Positives = 18/23 (78%)
Query: 114 ILVVGVNGVGKTTVIGKLSKKMS 136
ILV+G++G GKT+++ LS + S
Sbjct: 2 ILVLGLDGAGKTSLLHSLSSERS 24
>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 = 28.7 bits (64), Expect = 2.2
Identities = 15/32 (46%), Positives = 20/32 (62%)
Query: 111 PHVILVVGVNGVGKTTVIGKLSKKMSDAGLKV 142
VI VG +G GKTT++ KL +S GL+V
Sbjct: 1 MKVIGFVGYSGSGKTTLLEKLIPALSARGLRV 32
>gnl|CDD|30909 COG0563, Adk, Adenylate kinase and related kinases [Nucleotide
transport and metabolism].
Length = 178
Score = 28.7 bits (64), Expect = 2.3
Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 4/40 (10%)
Query: 114 ILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSA 153
IL++G G GK+T+ KL+KK+ L GD R+A
Sbjct: 3 ILILGPPGAGKSTLAKKLAKKLG----LPHLDTGDILRAA 38
>gnl|CDD|147726 pfam05729, NACHT, NACHT domain. This NTPase domain is found in
apoptosis proteins as well as those involved in MHC
transcription activation. This family is closely related
to pfam00931.
Length = 165
Score = 28.8 bits (65), Expect = 2.3
Identities = 19/100 (19%), Positives = 35/100 (35%), Gaps = 25/100 (25%)
Query: 112 HVILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDT----------FRSAAIDQLKIW 161
+++ G G GKTT++ KL +L A + +
Sbjct: 1 RTVILQGEAGSGKTTLLQKL----------ALLWAQGKLPQDFDFVFFLPCRELSRSG-- 48
Query: 162 ADRTSADFVCSE-IGSDAAALAYEAFKQAQAKKVDVLIID 200
+ + AD + S+ A A ++V +LI+D
Sbjct: 49 -EASLADLLFSQWPEPAAPVSEVWAVILELPERV-LLILD 86
>gnl|CDD|31949 COG1763, MobB, Molybdopterin-guanine dinucleotide biosynthesis
protein [Coenzyme metabolism].
Length = 161
Score = 28.4 bits (63), Expect = 2.6
Identities = 12/30 (40%), Positives = 19/30 (63%)
Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKV 142
++ +VG GKTT+I KL +K+ G +V
Sbjct: 4 ILGIVGYKNSGKTTLIEKLVRKLKARGYRV 33
>gnl|CDD|73301 cd02038, FleN-like, FleN is a member of the Fer4_NifH superfamily.
It shares the common function as an ATPase, with the
ATP-binding domain at the N-terminus. In Pseudomonas
aeruginosa, FleN gene is involved in regulating the
number of flagella and chemotactic motility by
influencing FleQ activity..
Length = 139
Score = 28.6 bits (64), Expect = 2.7
Identities = 11/31 (35%), Positives = 17/31 (54%)
Query: 118 GVNGVGKTTVIGKLSKKMSDAGLKVMLAAGD 148
G GVGKT + L+ ++ G +V+L D
Sbjct: 7 GKGGVGKTNISANLALALAKLGKRVLLLDAD 37
>gnl|CDD|99895 cd05834, HDGF_related, The PWWP domain is an essential part of the
Hepatoma Derived Growth Factor (HDGF) family of
proteins, and is necessary for DNA binding by HDGF. This
family of endogenous nuclear-targeted mitogens includes
HRP (HDGF-related proteins 1, 2, 3, 4, or HPR1, HPR2,
HPR3, HPR4, respectively) and lens epithelium-derived
growth factor, LEDGF. Members of the HDGF family have
been linked to human diseases, and HDGF is a prognostic
factor in several types of cancer. The PWWP domain,
named for a conserved Pro-Trp-Trp-Pro motif, is a small
domain consisting of 100-150 amino acids. The PWWP
domain is found in numerous proteins that are involved
in cell division, growth and differentiation. Most
PWWP-domain proteins seem to be nuclear, often
DNA-binding, proteins that function as transcription
factors regulating a variety of developmental
processes..
Length = 83
Score = 28.4 bits (64), Expect = 2.7
Identities = 10/24 (41%), Positives = 11/24 (45%), Gaps = 4/24 (16%)
Query: 283 KIPVYFLGVGE----GINDLEPFV 302
K PVYF G E DL P+
Sbjct: 35 KYPVYFFGTHETAFLKPEDLFPYT 58
>gnl|CDD|34201 COG4559, COG4559, ABC-type hemin transport system, ATPase component
[Inorganic ion transport and metabolism].
Length = 259
Score = 28.3 bits (63), Expect = 2.8
Identities = 14/40 (35%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 106 DFSHRP-HVILVVGVNGVGKTTVIGKLSKKMSDAGLKVML 144
RP V+ ++G NG GK+T++ LS ++S +V L
Sbjct: 21 SLDLRPGEVLAILGPNGAGKSTLLKALSGELSPDSGEVTL 60
>gnl|CDD|33697 COG3910, COG3910, Predicted ATPase [General function prediction
only].
Length = 233
Score = 28.3 bits (63), Expect = 2.9
Identities = 9/39 (23%), Positives = 18/39 (46%)
Query: 97 MPLSKPFNWDFSHRPHVILVVGVNGVGKTTVIGKLSKKM 135
+P + R + + G NG GK+T++ ++ M
Sbjct: 23 LPAFRHLEERLEFRAPITFITGENGSGKSTLLEAIAAGM 61
>gnl|CDD|144171 pfam00478, IMPDH, IMP dehydrogenase / GMP reductase domain. This
family is involved in biosynthesis of guanosine
nucleotide. Members of this family contain a TIM barrel
structure. In the inosine monophosphate dehydrogenases 2
CBS domains pfam00571 are inserted in the TIM barrel.
This family is a member of the common phosphate binding
site TIM barrel family.
Length = 467
Score = 28.4 bits (64), Expect = 2.9
Identities = 12/37 (32%), Positives = 21/37 (56%), Gaps = 6/37 (16%)
Query: 194 VDVLIIDTAGRLHNNSILMAGIGKMIRVLKRLDPHAP 230
VDV++ID+A H +S + +MI+ +K+ P
Sbjct: 236 VDVIVIDSA---HGHSE---YVLEMIKWIKKKYPDLD 266
>gnl|CDD|35430 KOG0209, KOG0209, KOG0209, P-type ATPase [Inorganic ion transport
and metabolism].
Length = 1160
Score = 28.4 bits (63), Expect = 3.0
Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 2/56 (3%)
Query: 184 EAFKQAQAKKVDVLIIDTAGRLHNNSILMAGIGKMIRVLKRLDP--HAPHSVLQVL 237
E F+ A KVDV D G L + +++ G+ + L P AP+ + VL
Sbjct: 469 EPFRIPFAGKVDVCCFDKTGTLTEDDLVVEGVAGLSADEGALTPASKAPNETVLVL 524
>gnl|CDD|33438 COG3640, CooC, CO dehydrogenase maturation factor [Cell division
and chromosome partitioning].
Length = 255
Score = 28.3 bits (63), Expect = 3.1
Identities = 12/33 (36%), Positives = 17/33 (51%)
Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLA 145
I + G GVGKTT+ L K++ G +L
Sbjct: 2 KIAITGKGGVGKTTIAALLLKRLLSKGGYNVLV 34
>gnl|CDD|145920 pfam03029, ATP_bind_1, Conserved hypothetical ATP binding protein.
Members of this family are found in a range of archaea
and eukaryotes and have hypothesized ATP binding
activity.
Length = 234
Score = 28.1 bits (63), Expect = 3.1
Identities = 13/27 (48%), Positives = 16/27 (59%)
Query: 116 VVGVNGVGKTTVIGKLSKKMSDAGLKV 142
VVG G GKTT +G LS+ + G V
Sbjct: 1 VVGGAGSGKTTFVGALSEILPLRGRSV 27
>gnl|CDD|143799 pfam00006, ATP-synt_ab, ATP synthase alpha/beta family,
nucleotide-binding domain. This family includes the ATP
synthase alpha and beta subunits, the ATP synthase
associated with flagella and the termination factor Rho.
Length = 213
Score = 28.2 bits (64), Expect = 3.1
Identities = 13/48 (27%), Positives = 26/48 (54%), Gaps = 2/48 (4%)
Query: 114 ILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAA--IDQLK 159
I + G +G GKT ++G +++ ++V + G+ R A I++L
Sbjct: 18 IGIFGGSGTGKTVLLGMIARNAKADVVEVYVLIGERGREVAEFIEELL 65
>gnl|CDD|31539 COG1348, NifH, Nitrogenase subunit NifH (ATPase) [Inorganic ion
transport and metabolism].
Length = 278
Score = 28.3 bits (63), Expect = 3.2
Identities = 11/35 (31%), Positives = 20/35 (57%)
Query: 114 ILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGD 148
I + G G+GK+T L+ +++ G KV++ D
Sbjct: 4 IAIYGKGGIGKSTTSQNLAAALAELGKKVLIVGCD 38
>gnl|CDD|147573 pfam05461, ApoL, Apolipoprotein L. Apo L belongs to the high
density lipoprotein family that plays a central role in
cholesterol transport. The cholesterol content of
membranes is important in cellular processes such as
modulating gene transcription and signal transduction
both in the adult brain and during neurodevelopment.
There are six apo L genes located in close proximity to
each other on chromosome 22q12 in humans. 22q12 is a
confirmed high-susceptibility locus for schizophrenia
and close to the region associated with velocardiofacial
syndrome that includes symptoms of schizophrenia.
Length = 313
Score = 28.1 bits (63), Expect = 3.2
Identities = 34/153 (22%), Positives = 53/153 (34%), Gaps = 24/153 (15%)
Query: 121 GVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAI-DQLKIWADRTSADFVCSEIGSDAA 179
G+ S +S GL + AA T S +I + + + A S + +
Sbjct: 116 GLALAPFTAGGSLVLSATGLGLGAAAAVTSISTSIVENVSNSSAEAKA----SRLVPTSM 171
Query: 180 ALAYEAFKQAQAKKVDVLIIDTAGRLHNNSI-LMAGIGKMIRVLK------RLDPHAPHS 232
+ K+ I L N + + GIGK IR ++ RL A
Sbjct: 172 D-ELKVLKECLKF-----IAPNVLTLVENVLRALKGIGKNIRAIRLARANPRLGAAAKRL 225
Query: 233 VLQVLDATTGQNALRQVEMFHAVAGTTGLIMTK 265
+ TTG+ + + G T L MTK
Sbjct: 226 M------TTGRISAQSAVQVQRAFGGTALAMTK 252
>gnl|CDD|31297 COG1100, COG1100, GTPase SAR1 and related small G proteins [General
function prediction only].
Length = 219
Score = 28.0 bits (61), Expect = 3.2
Identities = 13/47 (27%), Positives = 22/47 (46%)
Query: 114 ILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKI 160
I+V+G GVGKTT++ +L G + D ++ + I
Sbjct: 8 IVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNI 54
>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 = 28.2 bits (62), Expect = 3.3
Identities = 28/139 (20%), Positives = 55/139 (39%), Gaps = 9/139 (6%)
Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSADF--V 170
+ILV G G GKTT+ +L+ ++ G KV+ + ++L + + + D +
Sbjct: 1 LILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIEELTERLIGESLKGALDNLII 60
Query: 171 CSEIGSDAAALAYEAF--KQAQAKKVDVLIIDTAGRLHNNSILMAG-----IGKMIRVLK 223
D AA + + + D++I+D RL + + + +R L
Sbjct: 61 VFATADDPAAARLLSKAERLRERGGDDLIILDELTRLVRALREIREGYPGELDEELRELL 120
Query: 224 RLDPHAPHSVLQVLDATTG 242
+V+ L +G
Sbjct: 121 ERARKGGVTVIFTLQVPSG 139
>gnl|CDD|34695 COG5092, NMT1, N-myristoyl transferase [Lipid metabolism].
Length = 451
Score = 28.1 bits (62), Expect = 3.4
Identities = 16/66 (24%), Positives = 25/66 (37%), Gaps = 2/66 (3%)
Query: 33 TDIISSRRLDDGVREELEDLLIRSDIGVAVAQKIVEELLTKRYAKDVSVQRVLYDVSELI 92
T I +L DG+ E E +I D+ + V LL + Y +D+ E +
Sbjct: 63 TISIEQPKLPDGLLFEFEWCVI--DVANKKQLEDVFVLLEENYVEDIYAGHRFRYSVEFL 120
Query: 93 HKMLMP 98
L
Sbjct: 121 QWALDG 126
>gnl|CDD|36745 KOG1532, KOG1532, KOG1532, GTPase XAB1, interacts with DNA repair
protein XPA [Replication, recombination and repair].
Length = 366
Score = 28.0 bits (62), Expect = 3.5
Identities = 13/31 (41%), Positives = 19/31 (61%)
Query: 107 FSHRPHVILVVGVNGVGKTTVIGKLSKKMSD 137
RP +ILVVG+ G GKTT + +L+ +
Sbjct: 15 AIQRPVIILVVGMAGSGKTTFMQRLNSHLHA 45
>gnl|CDD|36180 KOG0962, KOG0962, KOG0962, DNA repair protein RAD50, ABC-type
ATPase/SMC superfamily [Replication, recombination and
repair].
Length = 1294
Score = 28.0 bits (62), Expect = 3.6
Identities = 10/16 (62%), Positives = 13/16 (81%)
Query: 113 VILVVGVNGVGKTTVI 128
+ L+VG NG GKTT+I
Sbjct: 29 LTLIVGANGTGKTTII 44
Score = 26.8 bits (59), Expect = 7.8
Identities = 13/60 (21%), Positives = 26/60 (43%)
Query: 14 IRKLTKGFASTSLKLKEGITDIISSRRLDDGVREELEDLLIRSDIGVAVAQKIVEELLTK 73
I +L++ K+KE + I + + + E E+L + +AQK ++ K
Sbjct: 887 IEELSEEITRLDSKVKELLERIQPLKVELEEAQSEKEELKNERNTSEKLAQKKRNDINEK 946
>gnl|CDD|34256 COG4637, COG4637, Predicted ATPase [General function prediction
only].
Length = 373
Score = 28.0 bits (62), Expect = 3.6
Identities = 7/22 (31%), Positives = 11/22 (50%)
Query: 111 PHVILVVGVNGVGKTTVIGKLS 132
V +++G NG GK+ L
Sbjct: 22 RRVNVIIGANGAGKSNFYDALR 43
>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 = 27.9 bits (63), Expect = 4.1
Identities = 10/18 (55%), Positives = 16/18 (88%)
Query: 114 ILVVGVNGVGKTTVIGKL 131
IL++G++G GKTT++ KL
Sbjct: 2 ILILGLDGAGKTTILYKL 19
>gnl|CDD|143797 pfam00004, AAA, ATPase family associated with various cellular
activities (AAA). AAA family proteins often perform
chaperone-like functions that assist in the assembly,
operation, or disassembly of protein complexes.
Length = 131
Score = 27.6 bits (62), Expect = 4.3
Identities = 19/87 (21%), Positives = 34/87 (39%), Gaps = 23/87 (26%)
Query: 114 ILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSADFVCSE 173
+L+ G G GKTT+ ++K++ G + +G ++ V
Sbjct: 1 LLLYGPPGTGKTTLAKAVAKEL---GAPFIEISG-------------------SELVSKY 38
Query: 174 IGSDAAALAYEAFKQAQAKKVDVLIID 200
+G L E F+ A+ V+ ID
Sbjct: 39 VGESEKRLR-ELFEAAKKLAPCVIFID 64
>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 = 27.9 bits (62), Expect = 4.4
Identities = 12/36 (33%), Positives = 20/36 (55%)
Query: 113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGD 148
I + G GVGKTT+ L++ +++ G V+ D
Sbjct: 1 KIAITGKGGVGKTTIAALLARYLAEKGKPVLAIDAD 36
>gnl|CDD|32119 COG1936, COG1936, Predicted nucleotide kinase (related to CMP and
AMP kinases) [Nucleotide transport and metabolism].
Length = 180
Score = 27.5 bits (61), Expect = 4.5
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 114 ILVVGVNGVGKTTVIGKLSK 133
I + G GVGKTTV L +
Sbjct: 3 IAITGTPGVGKTTVCKLLRE 22
>gnl|CDD|107330 cd06335, PBP1_ABC_ligand_binding_like_2, Type I periplasmic
ligand-binding domain of uncharacterized ABC (ATPase
Binding Cassette)-type active transport systems that are
predicted to be involved in transport of amino acids,
peptides, or inorganic ions. This subgroup includes the
type I periplasmic ligand-binding domain of
uncharacterized ABC (ATPase Binding Cassette)-type
active transport systems that are predicted to be
involved in transport of amino acids, peptides, or
inorganic ions. Members of this group are
sequence-similar to members of the family of ABC-type
hydrophobic amino acid transporters, such as
leucine-isoleucine-valine-binding protein (LIVBP);
however their ligand specificity has not been determined
experimentally.
Length = 347
Score = 27.6 bits (62), Expect = 4.8
Identities = 26/116 (22%), Positives = 45/116 (38%), Gaps = 23/116 (19%)
Query: 106 DFSHRPHVILVVG-VNGVGKTTVIGKLSKKMSDAGLKVML---AAGDTFRSAAIDQLKIW 161
+ + V+ V+G ++ T V + + + ++ A R+ A +
Sbjct: 61 ELAADEKVVAVLGGLH----TPVALANLEFIQQNKIPLIGPWAAGTPITRNGAPPN---Y 113
Query: 162 ADRTSADFVCSEIGSD---AAALAYEAFKQAQAKKVDVLIIDTA-GRLHNNSILMA 213
R SAD D A L EA K+ KKV +L+ +T GR + + A
Sbjct: 114 IFRVSAD--------DSIQAPFLVDEAVKRGGFKKVALLLDNTGWGRSNRKDLTAA 161
>gnl|CDD|57927 cd01856, YlqF, YlqF. Proteins of the YlqF family contain all
sequence motifs typical of the vast class of
P-loop-containing GTPases, but show a circular
permutation, with a G4-G1-G3 pattern of motifs as
opposed to the regular G1-G3-G4 pattern seen in most
GTPases. The YlqF subfamily is represented in a
phylogenetically diverse array of bacteria (including
gram-positive bacteria, proteobacteria, Synechocystis,
Borrelia, and Thermotoga) and in all eukaryotes..
Length = 171
Score = 27.5 bits (61), Expect = 5.0
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 110 RPHVILVVGVNGVGKTTVIGKLSKK 134
R +VVG+ VGK+T+I +L K
Sbjct: 114 RGIRAMVVGIPNVGKSTLINRLRGK 138
>gnl|CDD|34791 COG5192, BMS1, GTP-binding protein required for 40S ribosome
biogenesis [Translation, ribosomal structure and
biogenesis].
Length = 1077
Score = 27.4 bits (60), Expect = 5.1
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 111 PHVILVVGVNGVGKTTVIGKLSKKMS 136
P ++ VVG G GK+T+I L ++ +
Sbjct: 69 PFIVAVVGPPGTGKSTLIRSLVRRFT 94
>gnl|CDD|31438 COG1245, COG1245, Predicted ATPase, RNase L inhibitor (RLI) homolog
[General function prediction only].
Length = 591
Score = 27.5 bits (61), Expect = 5.4
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 109 HRPHVILVVGVNGVGKTTVIGKLS 132
+ VI ++G NG+GKTT + L+
Sbjct: 365 YDGEVIGILGPNGIGKTTFVKLLA 388
>gnl|CDD|31710 COG1521, COG1521, Putative transcriptional regulator, homolog of
Bvg accessory factor [Transcription].
Length = 251
Score = 27.2 bits (60), Expect = 5.6
Identities = 20/101 (19%), Positives = 37/101 (36%), Gaps = 14/101 (13%)
Query: 172 SEIGSDAAALAYEAFKQAQAKKVDVLIID----------TAGRLHNNSILMAGIGKMIRV 221
E+G+D A A A+ + V+++D G + ++ GI
Sbjct: 103 EELGADRIANAVAAYHKY---GKAVVVVDFGTATTIDLVDEGGRYLGGAILPGITLSFEA 159
Query: 222 LKRLDPHAPHSVLQVLDATTGQNALRQVEMFHAVAGTTGLI 262
L P + ++ G+N + ++ V G GLI
Sbjct: 160 LFARAAKLPRVEIARPESVPGKNTVEAIQS-GVVYGYVGLI 199
>gnl|CDD|57926 cd01855, YqeH, YqeH. YqeH is an essential GTP-binding protein.
Depletion of YqeH induces an excess initiation of DNA
replication, suggesting that it negatively controls
initiation of chromosome replication. The YqeH subfamily
is common in eukaryotes and sporadically present in
bacteria with probable acquisition by plants from
chloroplasts. Proteins of the YqeH family contain all
sequence motifs typical of the vast class of
P-loop-containing GTPases, but show a circular
permutation, with a G4-G1-G3 pattern of motifs as
opposed to the regular G1-G3-G4 pattern seen in most
GTPases..
Length = 190
Score = 27.5 bits (61), Expect = 5.7
Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 9/51 (17%)
Query: 86 YDVSELIHKMLMPLSKPFNWDFSHRPHVILVVGVNGVGKTTVIGKLSKKMS 136
+ V ELI+ + K + + VVG VGK+T+I L KK +
Sbjct: 111 WGVEELINAIKKLAKKGGD---------VYVVGATNVGKSTLINALLKKDN 152
>gnl|CDD|32410 COG2229, COG2229, Predicted GTPase [General function prediction
only].
Length = 187
Score = 27.2 bits (60), Expect = 5.7
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 114 ILVVGVNGVGKTTVIGKLSKKMS 136
I+V+G G GKTT + LS K
Sbjct: 13 IVVIGPVGAGKTTFVRALSDKPL 35
>gnl|CDD|36760 KOG1547, KOG1547, KOG1547, Septin CDC10 and related P-loop GTPases
[Cell cycle control, cell division, chromosome
partitioning, Signal transduction mechanisms,
Cytoskeleton].
Length = 336
Score = 27.2 bits (60), Expect = 5.9
Identities = 18/53 (33%), Positives = 27/53 (50%), Gaps = 10/53 (18%)
Query: 88 VSELIHKMLMPLSKPFNWDFSHRPHVILVVGVNGVGKTTVIGKLSK-KMSDAG 139
+ E + K M FN I+VVG +G+GK+T+I L K +SD+
Sbjct: 32 IIEQMRKKTMKTGFDFN---------IMVVGQSGLGKSTLINTLFKSHVSDSS 75
>gnl|CDD|73174 COG0470, HolB, ATPase involved in DNA replication [DNA replication,
recombination, and repair].
Length = 325
Score = 26.8 bits (58), Expect = 7.2
Identities = 26/111 (23%), Positives = 41/111 (36%), Gaps = 11/111 (9%)
Query: 103 FNWDFSHRPHVILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIW- 161
+ PH +L G GVGKTT L+K++ +L G I
Sbjct: 16 QALESGRLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPD 75
Query: 162 ------ADRTSADFVCSEIGSDAAALAYEAFKQAQAKKVDVLIIDTAGRLH 206
+D D + ++ + A E+ + K V+IID A +L
Sbjct: 76 FLELNPSDLRKIDIIVEQVR-ELAEFLSESPLEGGYK---VVIIDEADKLT 122
>gnl|CDD|133307 cd04107, Rab32_Rab38, Rab38/Rab32 subfamily. Rab32 and Rab38 are
members of the Rab family of small GTPases. Human Rab32
was first identified in platelets but it is expressed in
a variety of cell types, where it functions as an
A-kinase anchoring protein (AKAP). Rab38 has been shown
to be melanocyte-specific. GTPase activating proteins
(GAPs) interact with GTP-bound Rab and accelerate the
hydrolysis of GTP to GDP. Guanine nucleotide exchange
factors (GEFs) interact with GDP-bound Rabs to promote
the formation of the GTP-bound state. Rabs are further
regulated by guanine nucleotide dissociation inhibitors
(GDIs), which facilitate Rab recycling by masking
C-terminal lipid binding and promoting cytosolic
localization. Most Rab GTPases contain a lipid
modification site at the C-terminus, with sequence
motifs CC, CXC, or CCX. Lipid binding is essential for
membrane attachment, a key feature of most Rab proteins.
Length = 201
Score = 26.9 bits (60), Expect = 7.2
Identities = 9/15 (60%), Positives = 13/15 (86%)
Query: 114 ILVVGVNGVGKTTVI 128
+LV+G GVGKT++I
Sbjct: 3 VLVIGDLGVGKTSII 17
>gnl|CDD|39620 KOG4419, KOG4419, KOG4419, 5' nucleotidase [Nucleotide transport
and metabolism].
Length = 602
Score = 26.8 bits (59), Expect = 7.4
Identities = 20/49 (40%), Positives = 25/49 (51%), Gaps = 7/49 (14%)
Query: 163 DRTSADFVCSEIGSDAAALAYEAFKQAQAKKVDVLIIDTAGRLHNNSIL 211
R ADF D AA A + A K VDVL++DT G LH+ + L
Sbjct: 62 ARYDADF------GDFAAFALRMKELADRKGVDVLLVDT-GDLHDGTGL 103
>gnl|CDD|72999 cd03240, ABC_Rad50, The catalytic domains of Rad50 are similar to
the ATP-binding cassette of ABC transporters, but are
not associated with membrane-spanning domains. The
conserved ATP-binding motifs common to Rad50 and the ABC
transporter family include the Walker A and Walker B
motifs, the Q loop, a histidine residue in the switch
region, a D-loop, and a conserved LSGG sequence. This
conserved sequence, LSGG, is the most specific and
characteristic motif of this family and is thus known as
the ABC signature sequence..
Length = 204
Score = 27.1 bits (60), Expect = 7.5
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 110 RPHVILVVGVNGVGKTTVI 128
+ L+VG NG GKTT+I
Sbjct: 21 FSPLTLIVGQNGAGKTTII 39
>gnl|CDD|99798 cd06201, SiR_like2, Cytochrome p450- like alpha subunits of E. coli
sulfite reductase (SiR) multimerize with beta subunits
to catalyze the NADPH dependent reduction of sulfite to
sulfide. Beta subunits have an Fe4S4 cluster and a
siroheme, while the alpha subunits (cysJ gene) are of
the cytochrome p450 (CyPor) family having FAD and FMN as
prosthetic groups and utilizing NADPH. Cypor (including
cyt -450 reductase, nitric oxide synthase, and
methionine synthase reductase) are ferredoxin reductase
(FNR)-like proteins with an additional N-terminal FMN
domain and a connecting sub-domain inserted within the
flavin binding portion of the FNR-like domain. The
connecting domain orients the N-terminal FMN domain with
the C-terminal FNR domain. NADPH cytochrome p450
reductase (CYPOR) serves as an electron donor in several
oxygenase systems and is a component of nitric oxide
synthases and methionine synthase reductases. CYPOR
transfers two electrons from NADPH to the heme of
cytochrome p450 via FAD and FMN. Ferredoxin-NADP+
(oxido)reductase is an FAD-containing enzyme that
catalyzes the reversible electron transfer between
NADP(H) and electron carrier proteins such as ferredoxin
and flavodoxin. Isoforms of these flavoproteins (i.e.
having a non-covalently bound FAD as a prosthetic group)
are present in chloroplasts, mitochondria, and bacteria
in which they participate in a wide variety of redox
metabolic pathways. The C-terminal domain contains most
of the NADP(H) binding residues and the N-terminal
domain interacts non-covalently with the isoalloxazine
rings of the flavin molecule which lies largely in a
large gap betweed the two domains. Ferredoxin-NADP+
reductase first accepts one electron from reduced
ferredoxin to form a flavin semiquinone intermediate.
The enzyme then accepts a second electron to form FADH2
which then transfers two electrons and a proton to NADP+
to form NADPH..
Length = 289
Score = 26.9 bits (60), Expect = 7.8
Identities = 13/42 (30%), Positives = 20/42 (47%), Gaps = 6/42 (14%)
Query: 38 SRRLDDGVREELEDLLIRSDIGVAVAQKIVEELLTKRYAKDV 79
SR + GV LE++L + + + L RYA+DV
Sbjct: 253 SRAMAQGVAAVLEEILAPQPLSLDELK------LQGRYAEDV 288
>gnl|CDD|133355 cd04155, Arl3, Arl3 subfamily. Arl3 (Arf-like 3) is an Arf family
protein that differs from most Arf family members in the
N-terminal extension. In is inactive, GDP-bound form,
the N-terminal extension forms an elongated loop that is
hydrophobically anchored into the membrane surface;
however, it has been proposed that this region might
form a helix in the GTP-bound form. The delta subunit
of the rod-specific cyclic GMP phosphodiesterase type 6
(PDEdelta) is an Arl3 effector. Arl3 binds microtubules
in a regulated manner to alter specific aspects of
cytokinesis via interactions with retinitis pigmentosa 2
(RP2). It has been proposed that RP2 functions in
concert with Arl3 to link the cell membrane and the
cytoskeleton in photoreceptors as part of the cell
signaling or vesicular transport machinery. In mice,
the absence of Arl3 is associated with abnormal
epithelial cell proliferation and cyst formation.
Length = 173
Score = 26.9 bits (60), Expect = 8.0
Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 11/53 (20%)
Query: 114 ILVVGVNGVGKTTVIGKLSKK-----MSDAGLKVMLAAGDTFRSAAIDQLKIW 161
IL++G++ GKTT++ +L+ + G + D F+ L +W
Sbjct: 17 ILILGLDNAGKTTILKQLASEDISHITPTQGFNIKTVQSDGFK------LNVW 63
>gnl|CDD|35286 KOG0063, KOG0063, KOG0063, RNAse L inhibitor, ABC superfamily [RNA
processing and modification].
Length = 592
Score = 26.8 bits (59), Expect = 8.5
Identities = 12/27 (44%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 110 RP-HVILVVGVNGVGKTTVIGKLSKKM 135
RP V+ +VG NG+GK+T + L+ K
Sbjct: 98 RPGQVLGLVGTNGIGKSTALKILAGKQ 124
>gnl|CDD|114364 pfam05636, DUF795, Protein of unknown function (DUF795). This
family consists of several bacterial proteins of unknown
function.
Length = 389
Score = 26.6 bits (59), Expect = 8.7
Identities = 22/85 (25%), Positives = 37/85 (43%), Gaps = 15/85 (17%)
Query: 44 GVREELEDLLIRSDIGVAVAQKI---VEELLTKRYAKDVSVQRVLYDVSELIHKMLMPLS 100
V E LE+ + ++ + AQ VE + TKRY K +QR+L + L+ +
Sbjct: 264 DVEEGLENRIKKA---IKKAQNFDDLVELVKTKRYTK-ARIQRILTHI-------LLNIK 312
Query: 101 KPFNWDFSHRPHVILVVGVNGVGKT 125
K + P I ++G G+
Sbjct: 313 KNDTEEKD-LPPYIRILGFTKKGQK 336
>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 = 26.8 bits (59), Expect = 8.8
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 121 GVGKTTVIGKLSKKMSDAGLKVMLAAGD 148
GVGKTT L+ ++ G +V+L D
Sbjct: 10 GVGKTTTAVNLAAALARRGKRVLLIDLD 37
>gnl|CDD|31114 COG0771, MurD, UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell
envelope biogenesis, outer membrane].
Length = 448
Score = 26.8 bits (59), Expect = 9.0
Identities = 11/41 (26%), Positives = 19/41 (46%), Gaps = 2/41 (4%)
Query: 105 WDFSHRPHVILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLA 145
+ S ++ + G N GKTT ++ + AGL +L
Sbjct: 104 YRLSGEAPIVAITGTN--GKTTTTSLIAHLLKAAGLDALLG 142
>gnl|CDD|133357 cd04157, Arl6, Arl6 subfamily. Arl6 (Arf-like 6) forms a subfamily
of the Arf family of small GTPases. Arl6 expression is
limited to the brain and kidney in adult mice, but it is
expressed in the neural plate and somites during
embryogenesis, suggesting a possible role for Arl6 in
early development. Arl6 is also believed to have a role
in cilia or flagella function. Several proteins have
been identified that bind Arl6, including Arl6
interacting protein (Arl6ip), and SEC61beta, a subunit
of the heterotrimeric conducting channel SEC61p. Based
on Arl6 binding to these effectors, Arl6 is also
proposed to play a role in protein transport, membrane
trafficking, or cell signaling during hematopoietic
maturation. At least three specific homozygous Arl6
mutations in humans have been found to cause
Bardet-Biedl syndrome, a disorder characterized by
obesity, retinopathy, polydactyly, renal and cardiac
malformations, learning disabilities, and
hypogenitalism. Older literature suggests that Arl6 is
a part of the Arl4/Arl7 subfamily, but analyses based on
more recent sequence data place Arl6 in its own
subfamily.
Length = 162
Score = 26.6 bits (59), Expect = 9.2
Identities = 11/18 (61%), Positives = 15/18 (83%)
Query: 114 ILVVGVNGVGKTTVIGKL 131
ILVVG++ GKTT+I +L
Sbjct: 2 ILVVGLDNSGKTTIINQL 19
>gnl|CDD|72980 cd03221, ABCF_EF-3, ABCF_EF-3 Elongation factor 3 (EF-3) is a
cytosolic protein required by fungal ribosomes for in
vitro protein synthesis and for in vivo growth. EF-3
stimulates the binding of the EF-1: GTP: aa-tRNA ternary
complex to the ribosomal A site by facilitated release
of the deacylated tRNA from the E site. The reaction
requires ATP hydrolysis. EF-3 contains two ATP
nucleotide binding sequence (NBS) motifs. NBSI is
sufficient for the intrinsic ATPase activity. NBSII is
essential for the ribosome-stimulated functions..
Length = 144
Score = 26.6 bits (59), Expect = 9.2
Identities = 16/62 (25%), Positives = 30/62 (48%), Gaps = 5/62 (8%)
Query: 98 PLSKPFNWDFSHRPHVILVVGVNGVGKTTVIGKLSKKMS-DAGLKVMLAAGDTFRSAAID 156
L K + + + LV G NG GK+T++ ++ ++ D G ++ G T + +
Sbjct: 14 LLLKDISLTINPGDRIGLV-GRNGAGKSTLLKLIAGELEPDEG---IVTWGSTVKIGYFE 69
Query: 157 QL 158
QL
Sbjct: 70 QL 71
>gnl|CDD|133259 cd01850, CDC_Septin, CDC/Septin. Septins are a conserved family of
GTP-binding proteins associated with diverse processes
in dividing and non-dividing cells. They were first
discovered in the budding yeast S. cerevisiae as a set
of genes (CDC3, CDC10, CDC11 and CDC12) required for
normal bud morphology. Septins are also present in
metazoan cells, where they are required for cytokinesis
in some systems, and implicated in a variety of other
processes involving organization of the cell cortex and
exocytosis. In humans, 12 septin genes generate dozens
of polypeptides, many of which comprise heterooligomeric
complexes. Since septin mutants are commonly defective
in cytokinesis and formation of the neck formation of
the neck filaments/septin rings, septins have been
considered to be the primary constituents of the neck
filaments. Septins belong to the GTPase superfamily for
their conserved GTPase motifs and enzymatic activities.
Length = 276
Score = 26.7 bits (60), Expect = 9.3
Identities = 9/15 (60%), Positives = 13/15 (86%)
Query: 114 ILVVGVNGVGKTTVI 128
I+VVG +G+GK+T I
Sbjct: 7 IMVVGESGLGKSTFI 21
>gnl|CDD|39108 KOG3905, KOG3905, KOG3905, Dynein light intermediate chain [Cell
motility].
Length = 473
Score = 26.5 bits (58), Expect = 9.8
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 114 ILVVGVNGVGKTTVIGKLSK 133
+LV+G NG GKT++I KL
Sbjct: 55 VLVLGDNGSGKTSLISKLQG 74
>gnl|CDD|29995 cd01129, PulE-GspE, PulE/GspE The type II secretory pathway is the
main terminal branch of the general secretory pathway
(GSP). It is responsible for the export the majority of
Gram-negative bacterial exoenzymes and toxins. PulE is a
cytoplasmic protein of the GSP, which contains an ATP
binding site and a tetracysteine motif. This subgroup
also includes PillB and HofB..
Length = 264
Score = 26.7 bits (59), Expect = 9.8
Identities = 27/111 (24%), Positives = 44/111 (39%), Gaps = 8/111 (7%)
Query: 34 DIISSRRLDDGVREELEDLLIRSDIGVAVAQKIVEELLTKRYAKDVSVQRVLYDVSELIH 93
DI R+ DG R L+ D+ V+ I E + R + D+ +L
Sbjct: 9 DIAERRKPQDG-RIRLKLKGREIDLRVSTLPTIYGESVVLRILDKKNQI---LDLEKLG- 63
Query: 94 KMLMPLSKPFNWDFSHRPH-VILVVGVNGVGKTTVIGKLSKKMSDAGLKVM 143
L P + +PH +ILV G G GKTT + +++ ++
Sbjct: 64 --LKPENLEIFRKLLEKPHGIILVTGPTGSGKTTTLYSALSELNTPEKNII 112
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
0.320 0.136 0.383
Gapped
Lambda K H
0.267 0.0626 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,683,853
Number of extensions: 194815
Number of successful extensions: 1049
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1035
Number of HSP's successfully gapped: 175
Length of query: 321
Length of database: 6,263,737
Length adjustment: 94
Effective length of query: 227
Effective length of database: 4,232,491
Effective search space: 960775457
Effective search space used: 960775457
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 (21.8 bits)
S2: 57 (26.0 bits)