RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 015825
(399 letters)
>gnl|CDD|215414 PLN02772, PLN02772, guanylate kinase.
Length = 398
Score = 696 bits (1798), Expect = 0.0
Identities = 299/403 (74%), Positives = 343/403 (85%), Gaps = 10/403 (2%)
Query: 1 MGEAPAFIVDNLQNGNGFSNGFSLKSRDCETTTVIGDKTYVIAGSDE----SIGVKIYDR 56
MGEAPAF VD+L+NG ++NGF +K ++ ET+ IGDKTYVI G+ E SIGV+I D+
Sbjct: 1 MGEAPAFFVDHLENG--YTNGFGVKPKNRETSVTIGDKTYVIGGNHEGNTLSIGVQILDK 58
Query: 57 STGNWLIPAVRGIEPRPCKGHSAVLLNEDRILVIKKGSSSDDCLWFLEVDTPYVREQKKV 116
T NW+ P V G P+PCKG+SAV+LN+DRILVIKKGS+ DD +WFLEVDTP+VREQKK+
Sbjct: 59 ITNNWVSPIVLGTGPKPCKGYSAVVLNKDRILVIKKGSAPDDSIWFLEVDTPFVREQKKL 118
Query: 117 VGAEVVAWSKGVIGNVEKPVVITGPSGVGKGTLISMLMKEFPSMFGFSVSHTTRAPRAME 176
+G EVVAWSKGV GN EKP+VI+GPSGVGKGTLISMLMKEFPSMFGFSVSHTTRAPR ME
Sbjct: 119 LGTEVVAWSKGVRGNAEKPIVISGPSGVGKGTLISMLMKEFPSMFGFSVSHTTRAPREME 178
Query: 177 KDGVHYHFTERSVMEKAIKDGKFLEFASVHGNLYGTSVEAVEAVADAGKRCILDIDVQGA 236
KDGVHYHFTERSVMEK IKDGKFLEFASVHGNLYGTS+EAVE V D+GKRCILDIDVQGA
Sbjct: 179 KDGVHYHFTERSVMEKEIKDGKFLEFASVHGNLYGTSIEAVEVVTDSGKRCILDIDVQGA 238
Query: 237 RSVRASPLDAIFIFICPPSMEELEERLRARGTETEDQILKRLRNAKEEIKQGKSSGIFDH 296
RSVRAS L+AIFIFICPPSMEELE+RLRARGTETE+QI KRLRNA+ E++QGKSSGIFDH
Sbjct: 239 RSVRASSLEAIFIFICPPSMEELEKRLRARGTETEEQIQKRLRNAEAELEQGKSSGIFDH 298
Query: 297 ILYNDKLEECYENLKKHLGLDGSIATNHQTSPKGIDLPADHSVSKVANKVIIKCGAAEG- 355
ILYND LEECY+NLKK LGLDG A N +P+GI+LP +HSVSK+ +K+II+ G
Sbjct: 299 ILYNDNLEECYKNLKKLLGLDGLAAVNGVEAPEGINLPKEHSVSKMDDKIIIQ---ETGE 355
Query: 356 KASKNLMVLDVSSLKGGAPGRTRGLQVYTVDSFSDGLNGVNKL 398
K S L+VLD+SSL GGAPGRTRGL V V SFSD LNG+N+
Sbjct: 356 KTSNKLIVLDLSSLNGGAPGRTRGLDVDAVKSFSDFLNGINQS 398
>gnl|CDD|213788 TIGR03263, guanyl_kin, guanylate kinase. Members of this family
are the enzyme guanylate kinase, also called GMP kinase.
This enzyme transfers a phosphate from ATP to GMP,
yielding ADP and GDP [Purines, pyrimidines, nucleosides,
and nucleotides, Nucleotide and nucleoside
interconversions].
Length = 179
Score = 256 bits (657), Expect = 3e-85
Identities = 91/179 (50%), Positives = 116/179 (64%), Gaps = 4/179 (2%)
Query: 134 KPVVITGPSGVGKGTLISMLMKEFPSMFGFSVSHTTRAPRAMEKDGVHYHFTERSVMEKA 193
+VI+GPSG GK TL+ L++E P+ FS+S TTR PR E DGV Y F + E+
Sbjct: 1 LLIVISGPSGAGKSTLVKALLEEDPN-LKFSISATTRKPRPGEVDGVDYFFVSKEEFEEM 59
Query: 194 IKDGKFLEFASVHGNLYGTSVEAVEAVADAGKRCILDIDVQGARSVRASPLDAIFIFICP 253
IK G+FLE+A VHGN YGT VE AGK +L+IDVQGAR V+ DA+ IFI P
Sbjct: 60 IKAGEFLEWAEVHGNYYGTPKSPVEEALAAGKDVLLEIDVQGARQVKKKFPDAVSIFILP 119
Query: 254 PSMEELEERLRARGTETEDQILKRLRNAKEEIKQGKSSGIFDHILYNDKLEECYENLKK 312
PS+EELE RLR RGT++E+ I +RL AK+EI FD+++ ND LE+ E LK
Sbjct: 120 PSLEELERRLRKRGTDSEEVIERRLAKAKKEIAHADE---FDYVIVNDDLEKAVEELKS 175
>gnl|CDD|234719 PRK00300, gmk, guanylate kinase; Provisional.
Length = 205
Score = 250 bits (641), Expect = 3e-82
Identities = 85/177 (48%), Positives = 114/177 (64%), Gaps = 4/177 (2%)
Query: 136 VVITGPSGVGKGTLISMLMKEFPSMFGFSVSHTTRAPRAMEKDGVHYHFTERSVMEKAIK 195
+V++GPSG GK TL+ L++ P++ SVS TTRAPR E DGV Y F + E+ I+
Sbjct: 8 IVLSGPSGAGKSTLVKALLERDPNLQ-LSVSATTRAPRPGEVDGVDYFFVSKEEFEEMIE 66
Query: 196 DGKFLEFASVHGNLYGTSVEAVEAVADAGKRCILDIDVQGARSVRASPLDAIFIFICPPS 255
+G+FLE+A V GN YGT VE AGK +L+ID QGAR V+ DA+ IFI PPS
Sbjct: 67 NGEFLEWAEVFGNYYGTPRSPVEEALAAGKDVLLEIDWQGARQVKKKMPDAVSIFILPPS 126
Query: 256 MEELEERLRARGTETEDQILKRLRNAKEEIKQGKSSGIFDHILYNDKLEECYENLKK 312
+EELE RLR RGT++E+ I +RL A+EEI +D+++ ND L+ E LK
Sbjct: 127 LEELERRLRGRGTDSEEVIARRLAKAREEIAHASE---YDYVIVNDDLDTALEELKA 180
>gnl|CDD|223272 COG0194, Gmk, Guanylate kinase [Nucleotide transport and
metabolism].
Length = 191
Score = 231 bits (592), Expect = 3e-75
Identities = 90/189 (47%), Positives = 116/189 (61%), Gaps = 10/189 (5%)
Query: 134 KPVVITGPSGVGKGTLISMLMKEFPSMFGFSVSHTTRAPRAMEKDGVHYHFTERSVMEKA 193
+V++GPSGVGK TL+ L+++ FSVS TTR PR E DGV Y F E+
Sbjct: 5 LLIVLSGPSGVGKSTLVKALLEDDK--LRFSVSATTRKPRPGEVDGVDYFFVTEEEFEEL 62
Query: 194 IKDGKFLEFASVHGNLYGTSVEAVEAVADAGKRCILDIDVQGARSVRASPLDAIFIFICP 253
I+ +FLE+A HGN YGTS E VE GK ILDIDVQGA V+ +A+ IFI P
Sbjct: 63 IERDEFLEWAEYHGNYYGTSREPVEQALAEGKDVILDIDVQGALQVKKKMPNAVSIFILP 122
Query: 254 PSMEELEERLRARGTETEDQILKRLRNAKEEIKQGKSSGIFDHILYNDKLEECYENLK-- 311
PS+EELE RL+ RGT++E+ I +RL NAK+EI FD+++ ND LE+ E LK
Sbjct: 123 PSLEELERRLKGRGTDSEEVIARRLENAKKEISHADE---FDYVIVNDDLEKALEELKSI 179
Query: 312 ---KHLGLD 317
+ L D
Sbjct: 180 ILAERLRRD 188
>gnl|CDD|214504 smart00072, GuKc, Guanylate kinase homologues. Active enzymes
catalyze ATP-dependent phosphorylation of GMP to GDP.
Structure resembles that of adenylate kinase. So-called
membrane-associated guanylate kinase homologues (MAGUKs)
do not possess guanylate kinase activities; instead at
least some possess protein-binding functions.
Length = 174
Score = 221 bits (566), Expect = 1e-71
Identities = 89/176 (50%), Positives = 115/176 (65%), Gaps = 3/176 (1%)
Query: 142 SGVGKGTLISMLMKEFPSMFGFSVSHTTRAPRAMEKDGVHYHFTERSVMEKAIKDGKFLE 201
SGVGKGTL++ L++E P F VSHTTR PR E +GV YHF + E IK G FLE
Sbjct: 1 SGVGKGTLLAELIQEIPDAFERVVSHTTRPPRPGEVNGVDYHFVSKEEFEDDIKSGLFLE 60
Query: 202 FASVHGNLYGTSVEAVEAVADAGKRCILDIDVQGARSVRASPLDAIFIFICPPSMEELEE 261
+ GN YGTS E + VA+ GK C+LDID QG + +R + L I IFI PPS EELE
Sbjct: 61 WGEYEGNYYGTSKETIRQVAEKGKHCLLDIDPQGVKQLRKAQLYPIVIFIAPPSSEELER 120
Query: 262 RLRARGTETEDQILKRLRNAKEEIKQGKSSGIFDHILYNDKLEECYENLKKHLGLD 317
RLR RGTET ++I KRL A++E ++ +FD+++ ND LE+ YE LK+ L +
Sbjct: 121 RLRQRGTETSERIQKRLAAAQKEAQE---YHLFDYVIVNDDLEDAYEELKEILEAE 173
>gnl|CDD|201353 pfam00625, Guanylate_kin, Guanylate kinase.
Length = 183
Score = 212 bits (542), Expect = 6e-68
Identities = 86/178 (48%), Positives = 123/178 (69%), Gaps = 3/178 (1%)
Query: 134 KPVVITGPSGVGKGTLISMLMKEFPSMFGFSVSHTTRAPRAMEKDGVHYHFTERSVMEKA 193
+P+V++GPSGVGK + L+ E+P FG+SVSHTTR PR E DG YHF + ME
Sbjct: 3 RPIVLSGPSGVGKSHIKKALLDEYPEKFGYSVSHTTRPPRPGEVDGKDYHFVSKEEMEND 62
Query: 194 IKDGKFLEFASVHGNLYGTSVEAVEAVADAGKRCILDIDVQGARSVRASPLDAIFIFICP 253
I +FLE+A +GN YGTS EA+E +A++GK CILD+D+QG + +R + L I +FI P
Sbjct: 63 ISANEFLEYAEFNGNYYGTSKEAIEQIAESGKICILDVDIQGVKQLRKAELSPISVFIKP 122
Query: 254 PSMEELEERLRARGTETEDQILKRLRNAKEEIKQGKSSGIFDHILYNDKLEECYENLK 311
PS++ L+ RL+ RGTE E++I KR+ A++E + +FD+I+ ND L+E Y+ LK
Sbjct: 123 PSLKVLQRRLKRRGTEQEEKINKRMEAAEQEFQH---YALFDYIIVNDDLDEAYKKLK 177
>gnl|CDD|238026 cd00071, GMPK, Guanosine monophosphate kinase (GMPK, EC 2.7.4.8),
also known as guanylate kinase (GKase), catalyzes the
reversible phosphoryl transfer from adenosine
triphosphate (ATP) to guanosine monophosphate (GMP) to
yield adenosine diphosphate (ADP) and guanosine
diphosphate (GDP). It plays an essential role in the
biosynthesis of guanosine triphosphate (GTP). This
enzyme is also important for the activation of some
antiviral and anticancer agents, such as acyclovir,
ganciclovir, carbovir, and thiopurines.
Length = 137
Score = 205 bits (525), Expect = 6e-66
Identities = 78/177 (44%), Positives = 97/177 (54%), Gaps = 40/177 (22%)
Query: 135 PVVITGPSGVGKGTLISMLMKEFPSMFGFSVSHTTRAPRAMEKDGVHYHFTERSVMEKAI 194
+V++GPSGVGK TL+ L++EF FGFSVSHTTR PR E DGV YHF + E+ I
Sbjct: 1 LIVLSGPSGVGKSTLLKRLLEEFDPNFGFSVSHTTRKPRPGEVDGVDYHFVSKEEFERLI 60
Query: 195 KDGKFLEFASVHGNLYGTSVEAVEAVADAGKRCILDIDVQGARSVRASPLDAIFIFICPP 254
++G+FLE+A HGN YGTS AVE GK IL+IDVQGAR V+ S DA+ IFI PP
Sbjct: 61 ENGEFLEWAEFHGNYYGTSKAAVEEALAEGKIVILEIDVQGARQVKKSYPDAVSIFILPP 120
Query: 255 SMEELEERLRARGTETEDQILKRLRNAKEEIKQGKSSGIFDHILYNDKLEECYENLK 311
D+++ ND LE+ YE LK
Sbjct: 121 ----------------------------------------DYVIVNDDLEKAYEELK 137
>gnl|CDD|173199 PRK14737, gmk, guanylate kinase; Provisional.
Length = 186
Score = 158 bits (400), Expect = 8e-47
Identities = 75/183 (40%), Positives = 106/183 (57%), Gaps = 5/183 (2%)
Query: 131 NVEKPVVITGPSGVGKGTLISMLMKEFPSMFGFSVSHTTRAPRAMEKDGVHYHFTERSVM 190
K +I+ +G GK T+I L++E P FS+S TTRAPR +++G Y F
Sbjct: 2 ASPKLFIISSVAGGGKSTIIQALLEEHPDFL-FSISCTTRAPRPGDEEGKTYFFLTIEEF 60
Query: 191 EKAIKDGKFLEFASVHGNLYGTSVEAVEAVADAGKRCILDIDVQGARSVRAS-PLDAIFI 249
+K I DG+FLE+A VH N YGT +E G+ I+DIDVQGA+ ++ P + I
Sbjct: 61 KKGIADGEFLEWAEVHDNYYGTPKAFIEDAFKEGRSAIMDIDVQGAKIIKEKFPERIVTI 120
Query: 250 FICPPSMEELEERLRARGTETEDQILKRLRNAKEEIKQGKSSGIFDHILYNDKLEECYEN 309
FI PPS EE EERL RGT++E+ I KR+ N E+ + FD+ + ND LE+ +
Sbjct: 121 FIEPPSEEEWEERLIHRGTDSEESIEKRIENGIIELDEANE---FDYKIINDDLEDAIAD 177
Query: 310 LKK 312
L+
Sbjct: 178 LEA 180
>gnl|CDD|237809 PRK14738, gmk, guanylate kinase; Provisional.
Length = 206
Score = 153 bits (388), Expect = 9e-45
Identities = 72/177 (40%), Positives = 103/177 (58%), Gaps = 8/177 (4%)
Query: 133 EKP--VVITGPSGVGKGTLISMLMKEFPSMFGFSVSHTTRAPRAMEKDGVHYHFTERSVM 190
KP VVI+GPSGVGK ++ M+E F F V+ TTR R E DGV YHF
Sbjct: 11 AKPLLVVISGPSGVGKDAVL-ARMRERKLPFHFVVTATTRPKRPGEIDGVDYHFVTPEEF 69
Query: 191 EKAIKDGKFLEFASVHGNLYGTSVEAVEAVADAGKRCILDIDVQGARSVRASPLDAIFIF 250
+ I + LE+A V+GN YG V +G+ I+ +DVQGA S++ +A+FIF
Sbjct: 70 REMISQNELLEWAEVYGNYYGVPKAPVRQALASGRDVIVKVDVQGAASIKRLVPEAVFIF 129
Query: 251 ICPPSMEELEERLRARGTETEDQILKRLRNAKEEIKQGKSSGIFDHILYN--DKLEE 305
+ PPSM+EL RL R TE+ +++ +RL A E++Q FD+++ N D+L+E
Sbjct: 130 LAPPSMDELTRRLELRRTESPEELERRLATAPLELEQLPE---FDYVVVNPEDRLDE 183
>gnl|CDD|226232 COG3709, COG3709, Uncharacterized component of phosphonate
metabolism [Inorganic ion transport and metabolism].
Length = 192
Score = 49.3 bits (118), Expect = 5e-07
Identities = 46/155 (29%), Positives = 61/155 (39%), Gaps = 20/155 (12%)
Query: 136 VVITGPSGVGKGTLISMLMKEFPSMFGFSVSH--TTRAPRAMEKDGVHYHFTERSVMEKA 193
+ + GPSG GK TL+ TR A +D H +E +A
Sbjct: 8 IAVVGPSGAGKDTLLDAARARLAGRPRLHFVRRVITRPADAGGED--HDALSEAEFNTRA 65
Query: 194 IKDGKFLEFASVHGNLYGTSVEAVEAVADAGKRCILDIDVQGARSV------RASPLDAI 247
G F HG YG E +A AG + V G+R+V R L +
Sbjct: 66 -GQGAFALSWQAHGLSYGIPAEIDLWLA-AG----DVVLVNGSRAVLPQARRRYPQLLVV 119
Query: 248 FIFICPPSMEELEERLRARGTETEDQILKRL-RNA 281
I S E L +RL RG E+ ++IL RL R A
Sbjct: 120 CITA---SPEVLAQRLAERGRESREEILARLARAA 151
>gnl|CDD|236648 PRK10078, PRK10078, ribose 1,5-bisphosphokinase; Provisional.
Length = 186
Score = 47.8 bits (114), Expect = 1e-06
Identities = 40/149 (26%), Positives = 62/149 (41%), Gaps = 12/149 (8%)
Query: 140 GPSGVGKGTLISMLMKEFPSMFGFSVSHTTRAPRAMEKDGVHYHFTERSVMEKAIKDGKF 199
GPSG GK +L++ L + + + + TR A ++ H +E+ +A F
Sbjct: 9 GPSGSGKDSLLAALRQREQTQLLVAHRYITRPASAGSEN--HIALSEQEFFTRA-GQNLF 65
Query: 200 LEFASVHGNLYGTSVEAVEAVADAGKRCILDIDVQGARS----VRASPLDAIFIFICPPS 255
+G YG +E ++ AG D+ V G+R+ RA A+ S
Sbjct: 66 ALSWHANGLYYGVGIE-IDLWLHAG----FDVLVNGSRAHLPQARARYQSALLPVCLQVS 120
Query: 256 MEELEERLRARGTETEDQILKRLRNAKEE 284
E L +RL RG E +I RL A
Sbjct: 121 PEILRQRLENRGRENASEINARLARAARY 149
>gnl|CDD|233821 TIGR02322, phosphon_PhnN, phosphonate metabolism
protein/1,5-bisphosphokinase (PRPP-forming) PhnN.
Members of this family resemble PhnN of phosphonate
utilization operons, where different such operons confer
the ability to use somewhat different profiles of C-P
bond-containing compounds (see PMID:15231805), including
phosphites as well as phosphonates. PhnN in E. coli
shows considerable homology to guanylate kinases (EC
2.7.4.8), and has actually been shown to act as a ribose
1,5-bisphosphokinase (PRPP forming). This suggests an
analogous kinase reaction for phosphonate metabolism,
converting 5-phosphoalpha-1-(methylphosphono)ribose to
methylphosphono-PRPP [Central intermediary metabolism,
Phosphorus compounds].
Length = 179
Score = 44.3 bits (105), Expect = 2e-05
Identities = 41/155 (26%), Positives = 61/155 (39%), Gaps = 20/155 (12%)
Query: 136 VVITGPSGVGKGTLISMLMKEFPSMFGFSVSH--TTRAPRAMEKDGVHYHFTERSVMEKA 193
+ + GPSG GK TL+ TR A ++ + E +
Sbjct: 4 IYVVGPSGAGKDTLLDYARARLAGDPRVHFVRRVITRPASAGGENHIALSTEE---FDHR 60
Query: 194 IKDGKFLEFASVHGNLYGTSVEAVEAVADAGKRCILDIDVQGARSV------RASPLDAI 247
G F HG YG E + + AG + V G+R+V R L +
Sbjct: 61 EDGGAFALSWQAHGLSYGIPAEIDQWLE-AGD----VVVVNGSRAVLPEARQRYPNLLVV 115
Query: 248 FIFICPPSMEELEERLRARGTETEDQILKRL-RNA 281
I S + L +RL ARG E+ ++I +RL R+A
Sbjct: 116 NITA---SPDVLAQRLAARGRESREEIEERLARSA 147
>gnl|CDD|222000 pfam13238, AAA_18, AAA domain.
Length = 128
Score = 37.0 bits (86), Expect = 0.004
Identities = 34/153 (22%), Positives = 52/153 (33%), Gaps = 26/153 (16%)
Query: 136 VVITGPSGVGKGTLISMLMKEFPSMFGFSVSHTTRAPRAMEKDGVHYHFTERSVMEKAIK 195
++ITG G GK TL KE G + + + + E +++
Sbjct: 1 ILITGTPGSGKTTLA----KELAERLGDVLRDLAKE-NGLVLELDEEITDESKRLDEDKL 55
Query: 196 DGKFLEFASVHGNLYGTSVEAVEAVADAGKRCILDIDVQGARSVRASPLDAIFIFI-CPP 254
+ E + G+ I ID A D +F+ + P
Sbjct: 56 AKLLDKL------------EKIIEELAEGENVI--IDGHLAELELERFKDLVFVVLRADP 101
Query: 255 SMEELEERLRARGTETEDQILKRLRNAKEEIKQ 287
EEL ERL+ RG E K N + EI +
Sbjct: 102 --EELLERLKKRGYSEE----KISENDEAEILK 128
>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular
activities. AAA - ATPases associated with a variety of
cellular activities. This profile/alignment only detects
a fraction of this vast family. The poorly conserved
N-terminal helix is missing from the alignment.
Length = 148
Score = 35.0 bits (80), Expect = 0.020
Identities = 21/135 (15%), Positives = 38/135 (28%), Gaps = 2/135 (1%)
Query: 134 KPVVITGPSGVGKGTLISMLMKEFPSMFGFSVSHTTRAPRAMEKDGVHYHFTERSVMEKA 193
+ ++I GP G GK TL L +E G + D + +
Sbjct: 3 EVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGS 62
Query: 194 IKDGKFLEFASVHGNLYGTSV--EAVEAVADAGKRCILDIDVQGARSVRASPLDAIFIFI 251
+ L A + E + + +L ++ + S + I
Sbjct: 63 GELRLRLALALARKLKPDVLILDEITSLLDAEQEALLLLLEELRLLLLLKSEKNLTVILT 122
Query: 252 CPPSMEELEERLRAR 266
+ LR R
Sbjct: 123 TNDEKDLGPALLRRR 137
>gnl|CDD|183702 PRK12723, PRK12723, flagellar biosynthesis regulator FlhF;
Provisional.
Length = 388
Score = 36.4 bits (84), Expect = 0.021
Identities = 38/168 (22%), Positives = 74/168 (44%), Gaps = 31/168 (18%)
Query: 109 YVREQKKVVG--AEVVAWSKGVIGNVEKPVVI-TGPSGVGKGTLISMLMKEFPSMFGFSV 165
Y + + V+ A+ + S +I N++K V I GP+GVGK T I+ L +++G +
Sbjct: 147 YDKVRDSVIIYIAKTIKCSGSIIDNLKKRVFILVGPTGVGKTTTIAKL----AAIYGINS 202
Query: 166 SHTTRAPRAMEKDGVHYHFTERSVMEKAIKDGKFLEFASVHGNLYGTSVEAVEAVADAGK 225
+ + + D +Y + ++ +G++ G V+A+E+ D +
Sbjct: 203 DDKSLNIKIITID--NYRIGAKKQIQ-------------TYGDIMGIPVKAIESFKDLKE 247
Query: 226 RCIL--DIDVQGARSVRASPLDAIFIFICPPSMEELEERLRARGTETE 271
D D+ ++ SP D + + E++E L A G + E
Sbjct: 248 EITQSKDFDLVLVDTIGKSPKDFM-------KLAEMKELLNACGRDAE 288
>gnl|CDD|238979 cd02021, GntK, Gluconate kinase (GntK) catalyzes the phosphoryl
transfer from ATP to gluconate. The resulting product
gluconate-6-phoshate is an important precursor of
gluconate metabolism. GntK acts as a dimmer composed of
two identical subunits.
Length = 150
Score = 34.9 bits (81), Expect = 0.023
Identities = 32/137 (23%), Positives = 48/137 (35%), Gaps = 26/137 (18%)
Query: 136 VVITGPSGVGKGTLISMLMKEFPSMFGFSVSHTTRAPRAMEKDGVHYHFTERSVMEKAIK 195
+V+ G SG GK T+ L + + F ++ D +H + M I
Sbjct: 2 IVVMGVSGSGKSTVGKALAERLGAPF-------------IDGDDLH-PPANIAKMAAGIP 47
Query: 196 ---DGKFLEFASVHGNLYGTSVEAVEAV---ADAGKRCILDIDVQGARSVRASPLDAIFI 249
+ ++ ++ L A E V A KR DI GA + R +
Sbjct: 48 LNDEDRWPWLQALTDALLAKLASAGEGVVVACSALKRIYRDILRGGAANPR------VRF 101
Query: 250 FICPPSMEELEERLRAR 266
E L ERL AR
Sbjct: 102 VHLDGPREVLAERLAAR 118
>gnl|CDD|221970 pfam13191, AAA_16, AAA ATPase domain. This family of domains
contain a P-loop motif that is characteristic of the AAA
superfamily.
Length = 154
Score = 34.9 bits (80), Expect = 0.028
Identities = 13/39 (33%), Positives = 19/39 (48%)
Query: 136 VVITGPSGVGKGTLISMLMKEFPSMFGFSVSHTTRAPRA 174
V++TGPSG GK +L+ L++ G P A
Sbjct: 27 VLLTGPSGTGKTSLLRELLEGLLVAAGKCDQAERNPPYA 65
>gnl|CDD|221983 pfam13207, AAA_17, AAA domain.
Length = 114
Score = 34.2 bits (78), Expect = 0.031
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 136 VVITGPSGVGKGTLISMLMKEF 157
++ITGP G GK TL L ++
Sbjct: 2 ILITGPPGSGKSTLAKKLAEKL 23
>gnl|CDD|227793 COG5506, COG5506, Uncharacterized conserved protein [Function
unknown].
Length = 144
Score = 34.4 bits (79), Expect = 0.031
Identities = 20/84 (23%), Positives = 38/84 (45%), Gaps = 1/84 (1%)
Query: 259 LEERLRARGTETEDQILKRLRNAKEEIKQGKSSGIFDHILYNDKLEECYENLKKHLGLDG 318
ER+ T+ + K+ + + E Q K+ + + + + Y L K
Sbjct: 30 FRERVVLALTKAQVLTQKKYKEFELENLQNKAEPLLLNGTLEFQSQRFYIKLAKETDSPF 89
Query: 319 SIATN-HQTSPKGIDLPADHSVSK 341
+I + H T+P G+ L +DH+V+K
Sbjct: 90 TIVSELHITTPFGLVLASDHAVNK 113
>gnl|CDD|225438 COG2884, FtsE, Predicted ATPase involved in cell division [Cell
division and chromosome partitioning].
Length = 223
Score = 35.3 bits (82), Expect = 0.038
Identities = 14/41 (34%), Positives = 21/41 (51%), Gaps = 6/41 (14%)
Query: 136 VVITGPSGVGKGTLISMLMK-EFPS-----MFGFSVSHTTR 170
V +TGPSG GK TL+ ++ E P+ + G +S
Sbjct: 31 VFLTGPSGAGKSTLLKLIYGEERPTRGKILVNGHDLSRLKG 71
>gnl|CDD|222307 pfam13671, AAA_33, AAA domain. This family of domains contain only
a P-loop motif, that is characteristic of the AAA
superfamily. Many of the proteins in this family are
just short fragments so there is no Walker B motif.
Length = 143
Score = 34.2 bits (79), Expect = 0.040
Identities = 28/148 (18%), Positives = 42/148 (28%), Gaps = 33/148 (22%)
Query: 136 VVIT-GPSGVGKGTLISMLMKEFPSMFGFSVSHTTRAPRAMEKDGVHYHFTERSVMEKAI 194
+++ G G GK T L++E A + D T R +
Sbjct: 1 LILMVGLPGSGKSTFARRLLRELG------------AVV-LSSD------TLRKRLRGDG 41
Query: 195 KDGKFLEFASVHGNLYGTSVEAVEAVADAGKRCILDIDVQGARSVRA-SPLDAIF----- 248
+A G +Y +E AG+ I+D S + L +
Sbjct: 42 PPDIS-YYARASGRVYQRLLELAREALRAGRPVIVD---ATNLSREERARLIDLARRYGA 97
Query: 249 ---IFICPPSMEELEERLRARGTETEDQ 273
I E L ER R D
Sbjct: 98 PVRIVYLEAPEEVLRERNAQRERSGGDP 125
>gnl|CDD|116541 pfam07931, CPT, Chloramphenicol phosphotransferase-like protein.
The members of this family are all similar to
chloramphenicol 3-O phosphotransferase (CPT) expressed
by Streptomyces venezuelae. Chloramphenicol (Cm) is a
metabolite produced by this bacterium that can inhibit
ribosomal peptidyl transferase activity and therefore
protein production. By transferring a phosphate group to
the C-3 hydroxyl group of Cm, CPT inactivates this
potentially lethal metabolite.
Length = 174
Score = 33.9 bits (78), Expect = 0.063
Identities = 31/99 (31%), Positives = 41/99 (41%), Gaps = 19/99 (19%)
Query: 184 FTERSVMEKAIKDGKFLEFASVHGN-------LYGTSVEAVEAVADAGKRCILDIDV--Q 234
F E + K G LE+++V EAV A+A AG I+D DV
Sbjct: 37 FVEA-MPPKRQDSGDGLEWSTVGPVIGPEFPLFEAAFYEAVAAMARAGNNVIVD-DVILS 94
Query: 235 GARSVRA-----SPLDAIFIFI-CPPSMEELEERLRARG 267
G S LD +F+ + CP +E LE R RG
Sbjct: 95 GEWLQDCLQRLLSGLDVLFVGVRCP--LEVLERREIERG 131
>gnl|CDD|237040 PRK12289, PRK12289, GTPase RsgA; Reviewed.
Length = 352
Score = 34.6 bits (80), Expect = 0.079
Identities = 19/45 (42%), Positives = 24/45 (53%), Gaps = 8/45 (17%)
Query: 133 EKPVVITGPSGVGKGTLISMLMKEFPSMFGFSVS-------HTTR 170
K V+ GPSGVGK +LI+ L+ + G VS HTTR
Sbjct: 172 NKITVVAGPSGVGKSSLINRLIPDVELRVG-KVSGKLGRGRHTTR 215
>gnl|CDD|233193 TIGR00929, VirB4_CagE, type IV secretion/conjugal transfer ATPase,
VirB4 family. Type IV secretion systems are found in
Gram-negative pathogens. They export proteins, DNA, or
complexes in different systems and are related to
plasmid conjugation systems. This model represents
related ATPases that include VirB4 in Agrobacterium
tumefaciens (DNA export) CagE in Helicobacter pylori
(protein export) and plasmid TraB (conjugation).
Length = 785
Score = 34.6 bits (80), Expect = 0.10
Identities = 18/65 (27%), Positives = 27/65 (41%), Gaps = 14/65 (21%)
Query: 138 ITGPSGVGKGTLISMLMKEFPSMFGFSVSHTTRAPRAMEKDGVHYHFTERSVMEKAIKDG 197
I GP+G GK TL++ L+ + M + A +KD F +A G
Sbjct: 439 IFGPTGSGKTTLLNFLLAQ---MQKYGGMTIF----AFDKDRGMEIFI------RAF-GG 484
Query: 198 KFLEF 202
+LE
Sbjct: 485 AYLEI 489
>gnl|CDD|206747 cd01854, YjeQ_EngC, Ribosomal interacting GTPase YjeQ/EngC, a
circularly permuted subfamily of the Ras GTPases. YjeQ
(YloQ in Bacillus subtilis) is a ribosomal small
subunit-dependent GTPase; hence also known as RsgA. YjeQ
is a late-stage ribosomal biogenesis factor involved in
the 30S subunit maturation, and it represents a protein
family whose members are broadly conserved in bacteria
and have been shown to be essential to the growth of E.
coli and B. subtilis. Proteins of the YjeQ 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. All YjeQ family proteins display a unique
domain architecture, which includes an N-terminal
OB-fold RNA-binding domain, the central permuted GTPase
domain, and a zinc knuckle-like C-terminal cysteine
domain.
Length = 211
Score = 33.5 bits (78), Expect = 0.11
Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 8/43 (18%)
Query: 136 VVITGPSGVGKGTLISMLMKEFPSMFGFSVS-------HTTRA 171
V+ G SGVGK TL++ L+ E + +S HTT
Sbjct: 88 SVLVGQSGVGKSTLLNALLPEL-VLATGEISEKLGRGRHTTTH 129
>gnl|CDD|206669 cd01882, BMS1, Bms1, an essential GTPase, promotes assembly of
preribosomal RNA processing complexes. 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 = 231
Score = 33.5 bits (77), Expect = 0.12
Identities = 14/30 (46%), Positives = 17/30 (56%), Gaps = 2/30 (6%)
Query: 130 GNVEKP--VVITGPSGVGKGTLISMLMKEF 157
P VV+ GP GVGK TLI L+K +
Sbjct: 34 PEEPPPLVVVVVGPPGVGKSTLIRSLIKRY 63
>gnl|CDD|213195 cd03228, ABCC_MRP_Like, ATP-binding cassette domain of multidrug
resistance protein-like transporters. The MRP
(Multidrug Resistance Protein)-like transporters are
involved in drug, peptide, and lipid export. They belong
to the subfamily C of the ATP-binding cassette (ABC)
superfamily of transport proteins. The ABCC subfamily
contains transporters with a diverse functional spectrum
that includes ion transport, cell surface receptor, and
toxin secretion activities. The MRP-like family, similar
to all ABC proteins, have a common four-domain core
structure constituted by two membrane-spanning domains,
each composed of six transmembrane (TM) helices, and two
nucleotide-binding domains (NBD). 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 = 171
Score = 32.7 bits (76), Expect = 0.18
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 136 VVITGPSGVGKGTLISMLMKEFP 158
V I GPSG GK TL+ +L++ +
Sbjct: 31 VAIVGPSGSGKSTLLKLLLRLYD 53
>gnl|CDD|213217 cd03250, ABCC_MRP_domain1, ATP-binding cassette domain 1 of
multidrug resistance-associated protein, subfamily C.
This subfamily is also known as MRP (multidrug
resistance-associated protein). Some of the MRP members
have five additional transmembrane segments in their
N-terminus, but the function of these additional
membrane-spanning domains is not clear. The MRP was
found in the multidrug-resisting lung cancer cell in
which p-glycoprotein was not overexpressed. MRP exports
glutathione by drug stimulation, as well as, certain
substrates in conjugated forms with anions, such as
glutathione, glucuronate, and sulfate.
Length = 204
Score = 32.8 bits (76), Expect = 0.18
Identities = 13/36 (36%), Positives = 18/36 (50%)
Query: 136 VVITGPSGVGKGTLISMLMKEFPSMFGFSVSHTTRA 171
V I GP G GK +L+S L+ E + G + A
Sbjct: 34 VAIVGPVGSGKSSLLSALLGELEKLSGSVSVPGSIA 69
>gnl|CDD|221955 pfam13173, AAA_14, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily.
Length = 127
Score = 31.8 bits (73), Expect = 0.20
Identities = 13/24 (54%), Positives = 16/24 (66%)
Query: 134 KPVVITGPSGVGKGTLISMLMKEF 157
K +VITGP VGK TL+ +KE
Sbjct: 3 KIIVITGPRQVGKTTLLLQFLKEL 26
>gnl|CDD|234033 TIGR02857, CydD, thiol reductant ABC exporter, CydD subunit. The
gene pair cydCD encodes an ABC-family transporter in
which each gene contains an N-terminal membrane-spanning
domain (pfam00664) and a C-terminal ATP-binding domain
(pfam00005). In E. coli these genes were discovered as
mutants which caused the terminal heme-copper oxidase
complex cytochrome bd to fail to assemble. Recent work
has shown that the transporter is involved in export of
redox-active thiol compounds such as cysteine and
glutathione. The linkage to assembly of the cytochrome
bd complex is further supported by the conserved operon
structure found outside the gammaproteobacteria
(cydABCD) containing both the transporter and oxidase
genes components. The genes used as the seed members for
this model are all either found in the
gammproteobacterial context or the CydABCD context. All
members of this family scoring above trusted at the time
of its creation were from genomes which encode a
cytochrome bd complex. Unfortunately, the gene symbol
nomenclature adopted based on this operon in B. subtilis
assigns cydC to the third gene in the operon where this
gene is actually homologous to the E. coli cydD gene. We
have chosen to name all homologs in this family in
accordance with the precedence of publication of the E.
coli name, CydD.
Length = 529
Score = 33.0 bits (76), Expect = 0.28
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 136 VVITGPSGVGKGTLISML 153
V + GPSG GK TL+++L
Sbjct: 351 VALVGPSGAGKSTLLNLL 368
>gnl|CDD|216186 pfam00910, RNA_helicase, RNA helicase. This family includes RNA
helicases thought to be involved in duplex unwinding
during viral RNA replication. Members of this family are
found in a variety of single stranded RNA viruses.
Length = 105
Score = 31.1 bits (71), Expect = 0.32
Identities = 15/71 (21%), Positives = 24/71 (33%), Gaps = 6/71 (8%)
Query: 136 VVITGPSGVGKGTLISMLMKEFPSMFGFSVSHTTRAPRAMEK--DGVHYHFTERSVME-- 191
+ + GP G GK TL L + G + + + DG Y +++
Sbjct: 1 IWLYGPPGCGKSTLAKYLARALLKHLGLPKKDSVYSRNPDDDFWDG--YTGQPVVIIDDF 58
Query: 192 KAIKDGKFLEF 202
DG E
Sbjct: 59 GQNPDGPSDEA 69
>gnl|CDD|213181 cd03214, ABC_Iron-Siderophores_B12_Hemin, ATP-binding component of
iron-siderophores, vitamin B12 and hemin transporters
and related proteins. 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 = 32.0 bits (74), Expect = 0.32
Identities = 18/71 (25%), Positives = 28/71 (39%), Gaps = 16/71 (22%)
Query: 136 VVITGPSGVGKGTLISMLMKEFP------SMFGFSVSHTTRA---------PRAMEKDGV 180
V I GP+G GK TL+ L + G ++ + P+A+E G+
Sbjct: 28 VGILGPNGAGKSTLLKTLAGLLKPSSGEILLDGKDLASLSPKELARKIAYVPQALELLGL 87
Query: 181 HYHFTERSVME 191
H +R E
Sbjct: 88 A-HLADRPFNE 97
>gnl|CDD|223637 COG0563, Adk, Adenylate kinase and related kinases [Nucleotide
transport and metabolism].
Length = 178
Score = 31.9 bits (73), Expect = 0.34
Identities = 21/96 (21%), Positives = 31/96 (32%), Gaps = 15/96 (15%)
Query: 136 VVITGPSGVGKGTLISMLMKEFPSMFGFSVSHTTRAPRAMEKDGVHYHFTERSVMEKAIK 195
++I GP G GK TL L K+ + H G E +
Sbjct: 3 ILILGPPGAGKSTLAKKLAKKLG------LPHLDT--------GDILRAAIAERTELGEE 48
Query: 196 DGKFLE-FASVHGNLYGTSVEAVEAVADAGKRCILD 230
K+++ V + V+ AD ILD
Sbjct: 49 IKKYIDKGELVPDEIVNGLVKERLDEADCKAGFILD 84
>gnl|CDD|217416 pfam03193, DUF258, Protein of unknown function, DUF258.
Length = 161
Score = 31.8 bits (73), Expect = 0.34
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 136 VVITGPSGVGKGTLISML 153
V+ G SGVGK TL++ L
Sbjct: 38 SVLAGQSGVGKSTLLNAL 55
>gnl|CDD|224059 COG1136, SalX, ABC-type antimicrobial peptide transport system,
ATPase component [Defense mechanisms].
Length = 226
Score = 32.1 bits (74), Expect = 0.36
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 136 VVITGPSGVGKGTLISML 153
V I GPSG GK TL+++L
Sbjct: 34 VAIVGPSGSGKSTLLNLL 51
>gnl|CDD|130344 TIGR01277, thiQ, thiamine ABC transporter, ATP-binding protein.
This model describes the energy-transducing ATPase
subunit ThiQ of the ThiBPQ thiamine (and thiamine
pyrophosphate) ABC transporter in several
Proteobacteria. This protein is found so far only in
Proteobacteria, and is found in complete genomes only if
the ThiB and ThiP subunits are also found [Transport and
binding proteins, Other].
Length = 213
Score = 32.1 bits (73), Expect = 0.37
Identities = 17/41 (41%), Positives = 22/41 (53%), Gaps = 4/41 (9%)
Query: 136 VVITGPSGVGKGTLISMLMK-EFP---SMFGFSVSHTTRAP 172
V I GPSG GK TL++++ P S+ SHT AP
Sbjct: 27 VAIMGPSGAGKSTLLNLIAGFIEPASGSIKVNDQSHTGLAP 67
>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 = 31.3 bits (71), Expect = 0.40
Identities = 16/80 (20%), Positives = 25/80 (31%), Gaps = 5/80 (6%)
Query: 119 AEVVAWSKGVI-GNVEKPVVITGPSGVGKGTLISMLMKEFP----SMFGFSVSHTTRAPR 173
E + + + K +++ GP G GK TL + E + S
Sbjct: 4 EEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLV 63
Query: 174 AMEKDGVHYHFTERSVMEKA 193
E G + EKA
Sbjct: 64 VAELFGHFLVRLLFELAEKA 83
>gnl|CDD|213259 cd03292, ABC_FtsE_transporter, ATP-binding cassette domain of the
cell division transporter. FtsE is a hydrophilic
nucleotide-binding protein that binds FtsX to form a
heterodimeric ATP-binding cassette (ABC)-type
transporter that associates with the bacterial inner
membrane. The FtsE/X transporter is thought to be
involved in cell division and is important for assembly
or stability of the septal ring.
Length = 214
Score = 32.0 bits (73), Expect = 0.41
Identities = 11/21 (52%), Positives = 15/21 (71%)
Query: 136 VVITGPSGVGKGTLISMLMKE 156
V + GPSG GK TL+ ++ KE
Sbjct: 30 VFLVGPSGAGKSTLLKLIYKE 50
>gnl|CDD|131721 TIGR02673, FtsE, cell division ATP-binding protein FtsE. This
model describes FtsE, a member of the ABC transporter
ATP-binding protein family. This protein, and its
permease partner FtsX, localize to the division site. In
a number of species, the ftsEX gene pair is located next
to FtsY, the signal recognition particle-docking protein
[Cellular processes, Cell division].
Length = 214
Score = 31.8 bits (73), Expect = 0.43
Identities = 14/38 (36%), Positives = 20/38 (52%), Gaps = 6/38 (15%)
Query: 136 VVITGPSGVGKGTLISML-MKEFPS-----MFGFSVSH 167
+ +TGPSG GK TL+ +L PS + G V+
Sbjct: 31 LFLTGPSGAGKTTLLKLLYGALTPSRGQVRIAGEDVNR 68
>gnl|CDD|227321 COG4988, CydD, ABC-type transport system involved in cytochrome bd
biosynthesis, ATPase and permease components [Energy
production and conversion / Posttranslational
modification, protein turnover, chaperones].
Length = 559
Score = 32.6 bits (75), Expect = 0.43
Identities = 8/24 (33%), Positives = 13/24 (54%)
Query: 136 VVITGPSGVGKGTLISMLMKEFPS 159
+ G SG GK TL+++L+
Sbjct: 350 TALVGASGAGKSTLLNLLLGFLAP 373
>gnl|CDD|223315 COG0237, CoaE, Dephospho-CoA kinase [Coenzyme metabolism].
Length = 201
Score = 31.5 bits (72), Expect = 0.46
Identities = 44/203 (21%), Positives = 68/203 (33%), Gaps = 45/203 (22%)
Query: 136 VVITGPSGVGKGTLISMLMKEFPSMFGFSVSHTTRAPR-AMEKDGVHY-----HFTERSV 189
+ +TG G GK T+ +L + GF V R +E G F +
Sbjct: 5 IGLTGGIGSGKSTVAKILAE-----LGFPVIDADDVAREVVEPGGEALQEIAERFGLEIL 59
Query: 190 MEKAIKDGKFLEFASVHGNLYGTSVEA---VEAVADAGKRCILDIDVQGARS-------- 238
E D + L EA +E + R + + + GARS
Sbjct: 60 DEDGGLDRRKL------REKVFNDPEARLKLEKILHPLIRAEIKVVIDGARSPYVVLEIP 113
Query: 239 --VRASPLDAIFIFI---CPPSMEELEERLRARGTETEDQILKRL---RNAKEEIKQGKS 290
A I PP + ERL R E+ RL R+ +E++
Sbjct: 114 LLFEAGGEKYFDKVIVVYAPPEIRL--ERLMKRDGLDEEDAEARLASQRDLEEKLALA-- 169
Query: 291 SGIFDHILYND-KLEECYENLKK 312
D ++ ND +E E ++K
Sbjct: 170 ----DVVIDNDGSIENLLEQIEK 188
>gnl|CDD|213260 cd03293, ABC_NrtD_SsuB_transporters, ATP-binding cassette domain of
the nitrate and sulfonate transporters. NrtD and SsuB
are the ATP-binding subunits of the bacterial ABC-type
nitrate and sulfonate transport systems, respectively.
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 = 220
Score = 31.7 bits (73), Expect = 0.49
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 136 VVITGPSGVGKGTLISML 153
V + GPSG GK TL+ ++
Sbjct: 33 VALVGPSGCGKSTLLRII 50
>gnl|CDD|213179 cd00267, ABC_ATPase, ATP-binding cassette transporter
nucleotide-binding domain. ABC transporters are a large
family of proteins involved in the transport of a wide
variety of different compounds, like sugars, ions,
peptides, and more complex organic molecules. The
nucleotide-binding domain shows the highest similarity
between all members of the family. ABC transporters are
a subset of nucleotide hydrolases that contain a
signature motif, Q-loop, and H-loop/switch region, in
addition to, the Walker A motif/P-loop and Walker B
motif commonly found in a number of ATP- and GTP-binding
and hydrolyzing proteins.
Length = 157
Score = 31.1 bits (71), Expect = 0.57
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 136 VVITGPSGVGKGTLISMLM 154
V + GP+G GK TL+ +
Sbjct: 28 VALVGPNGSGKSTLLRAIA 46
>gnl|CDD|201739 pfam01344, Kelch_1, Kelch motif. The kelch motif was initially
discovered in Kelch. In this protein there are six
copies of the motif. It has been shown that the
Drosophila ring canal kelch protein is related to
Galactose Oxidase, for which a structure has been
solved. The kelch motif forms a beta sheet. Several of
these sheets associate to form a beta propeller
structure as found in pfam00064, pfam00400 and
pfam00415.
Length = 46
Score = 28.8 bits (65), Expect = 0.60
Identities = 12/34 (35%), Positives = 15/34 (44%), Gaps = 3/34 (8%)
Query: 31 TTTVIGDKTYVIAGSDESIGVK---IYDRSTGNW 61
V+G K YVI G D + +YD T W
Sbjct: 6 GVVVLGGKIYVIGGYDGGQSLSSVEVYDPETNTW 39
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 30.3 bits (69), Expect = 0.67
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 136 VVITGPSGVGKGTLISMLMKEFP 158
V+TG SG GK TL+ L ++ P
Sbjct: 7 GVLTGESGSGKTTLLRRLARQLP 29
>gnl|CDD|217424 pfam03205, MobB, Molybdopterin guanine dinucleotide synthesis
protein B. This protein contains a P-loop.
Length = 126
Score = 30.4 bits (69), Expect = 0.70
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 136 VVITGPSGVGKGTLISMLMKE 156
V++ GP GK TLI L+
Sbjct: 3 VLVVGPKDSGKTTLIRKLLNY 23
>gnl|CDD|206646 cd00880, Era_like, E. coli Ras-like protein (Era)-like GTPase. The
Era (E. coli Ras-like protein)-like family includes
several distinct subfamilies (TrmE/ThdF, FeoB, YihA
(EngB), Era, and EngA/YfgK) that generally show sequence
conservation in the region between the Walker A and B
motifs (G1 and G3 box motifs), to the exclusion of other
GTPases. TrmE is ubiquitous in bacteria and is a
widespread mitochondrial protein in eukaryotes, but is
absent from archaea. The yeast member of TrmE family,
MSS1, is involved in mitochondrial translation;
bacterial members are often present in
translation-related operons. FeoB represents an unusual
adaptation of GTPases for high-affinity iron (II)
transport. YihA (EngB) family of GTPases is typified by
the E. coli YihA, which is an essential protein involved
in cell division control. Era is characterized by a
distinct derivative of the KH domain (the pseudo-KH
domain) which is located C-terminal to the GTPase
domain. EngA and its orthologs are composed of two
GTPase domains and, since the sequences of the two
domains are more similar to each other than to other
GTPases, it is likely that an ancient gene duplication,
rather than a fusion of evolutionarily distinct GTPases,
gave rise to this family.
Length = 161
Score = 30.7 bits (70), Expect = 0.73
Identities = 12/45 (26%), Positives = 20/45 (44%), Gaps = 3/45 (6%)
Query: 137 VITGPSGVGKGTLISMLMKEFPSMFGFSVSHTTRAP--RAMEKDG 179
I G VGK +L++ L+ + + + TTR P + E
Sbjct: 1 AIFGRPNVGKSSLLNALLGQNVGIVS-PIPGTTRDPVRKEWELLP 44
>gnl|CDD|224617 COG1703, ArgK, Putative periplasmic protein kinase ArgK and related
GTPases of G3E family [Amino acid transport and
metabolism].
Length = 323
Score = 31.5 bits (72), Expect = 0.74
Identities = 11/20 (55%), Positives = 12/20 (60%)
Query: 138 ITGPSGVGKGTLISMLMKEF 157
ITG G GK TLI L +E
Sbjct: 56 ITGVPGAGKSTLIEALGREL 75
>gnl|CDD|182716 PRK10771, thiQ, thiamine transporter ATP-binding subunit;
Provisional.
Length = 232
Score = 31.1 bits (71), Expect = 0.74
Identities = 16/41 (39%), Positives = 20/41 (48%), Gaps = 4/41 (9%)
Query: 136 VVITGPSGVGKGTLISM----LMKEFPSMFGFSVSHTTRAP 172
V I GPSG GK TL+++ L S+ HTT P
Sbjct: 28 VAILGPSGAGKSTLLNLIAGFLTPASGSLTLNGQDHTTTPP 68
>gnl|CDD|234988 PRK01889, PRK01889, GTPase RsgA; Reviewed.
Length = 356
Score = 31.4 bits (72), Expect = 0.76
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 134 KPVVITGPSGVGKGTLISMLMKE 156
K V + G SGVGK TL++ L+ E
Sbjct: 196 KTVALLGSSGVGKSTLVNALLGE 218
>gnl|CDD|206648 cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like superfamily of
small guanosine triphosphatases (GTPases). Ras-like
GTPase superfamily. The Ras-like superfamily of small
GTPases consists of several families with an extremely
high degree of structural and functional similarity. The
Ras superfamily is divided into at least four families
in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families.
This superfamily also includes proteins like the GTP
translation factors, Era-like GTPases, and G-alpha chain
of the heterotrimeric G proteins. Members of the Ras
superfamily regulate a wide variety of cellular
functions: the Ras family regulates gene expression, the
Rho family regulates cytoskeletal reorganization and
gene expression, the Rab and Sar1/Arf families regulate
vesicle trafficking, and the Ran family regulates
nucleocytoplasmic transport and microtubule
organization. The GTP translation factor family
regulates initiation, elongation, termination, and
release in translation, and the Era-like GTPase family
regulates cell division, sporulation, and DNA
replication. Members of the Ras superfamily are
identified by the GTP binding site, which is made up of
five characteristic sequence motifs, and the switch I
and switch II regions.
Length = 161
Score = 30.5 bits (69), Expect = 0.77
Identities = 15/52 (28%), Positives = 22/52 (42%), Gaps = 5/52 (9%)
Query: 137 VITGPSGVGKGTLISMLMKEFPSMFGFSVSHTTRAPRA----MEKDGVHYHF 184
V+ G GVGK +L++ L+ V TTR P ++K V
Sbjct: 1 VVVGRGGVGKSSLLNALLGGEVGEVS-DVPGTTRDPDVYVKELDKGKVKLVL 51
>gnl|CDD|213222 cd03255, ABC_MJ0796_LolCDE_FtsE, ATP-binding cassette domain of the
transporters involved in export of lipoprotein and
macrolide, and cell division protein. This family is
comprised of MJ0796 ATP-binding cassette,
macrolide-specific ABC-type efflux carrier (MacAB), and
proteins involved in cell division (FtsE), and release
of lipoproteins from the cytoplasmic membrane (LolCDE).
They are clustered together phylogenetically. MacAB is
an exporter that confers resistance to macrolides, while
the LolCDE system is not a transporter at all. An FtsE
null mutants showed filamentous growth and appeared
viable on high salt medium only, indicating a role for
FtsE in cell division and/or salt transport. The LolCDE
complex catalyzes the release of lipoproteins from the
cytoplasmic membrane prior to their targeting to the
outer membrane.
Length = 218
Score = 30.9 bits (71), Expect = 0.78
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 136 VVITGPSGVGKGTLISML 153
V I GPSG GK TL+++L
Sbjct: 33 VAIVGPSGSGKSTLLNIL 50
>gnl|CDD|220343 pfam09687, PRESAN, Plasmodium RESA N-terminal. The short,
four-helical domain first identified in the Plasmodium
export proteins PHISTa and PHISTc has been extended to
become this six-helical PRESAN domain identified in the
P. falciparum-specific RESA-type (Ring-infected
erythrocyte surface antigen) proteins in association
with the DnaJ domain. Overall, at least 67 proteins have
been detected in P. falciparum with complete copies of
the PRESAN domain. No versions of this domain were
detected in other apicomplexan genera, suggesting that
the domain was 'invented' after the divergence of the
lineage leading to the genus Plasmodium undergoing a
dramatic proliferation only in P. falciparum. A
secondary structure-prediction derived from the multiple
alignment of the PRESAN family reveals that it is
composed of an all-helical fold with six conserved
helical segments. There is some evidence it might
localise to membranes.
Length = 129
Score = 30.3 bits (69), Expect = 0.80
Identities = 10/46 (21%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 269 ETEDQILKRLRNAKEEIKQGKSSGIFDHILYNDKLEECYENLKKHL 314
TE++I K++++ E + + I+++ N ++ Y N+ + L
Sbjct: 6 LTEEEINKKIKSLGEVVSKKDMYIIWNY--VNKNEKKKYYNMIEKL 49
>gnl|CDD|236947 PRK11650, ugpC, glycerol-3-phosphate transporter ATP-binding
subunit; Provisional.
Length = 356
Score = 31.4 bits (72), Expect = 0.83
Identities = 10/17 (58%), Positives = 13/17 (76%)
Query: 136 VVITGPSGVGKGTLISM 152
+V+ GPSG GK TL+ M
Sbjct: 33 IVLVGPSGCGKSTLLRM 49
>gnl|CDD|224044 COG1119, ModF, ABC-type molybdenum transport system, ATPase
component/photorepair protein PhrA [Inorganic ion
transport and metabolism].
Length = 257
Score = 31.1 bits (71), Expect = 0.84
Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 6/47 (12%)
Query: 118 GAEVVAWSKGVIGNVEKPV------VITGPSGVGKGTLISMLMKEFP 158
V K ++G++ V I GP+G GK TL+S+L E P
Sbjct: 36 NVSVRRNGKKILGDLSWQVNPGEHWAIVGPNGAGKTTLLSLLTGEHP 82
>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family. Emg1 and Nop14 are novel
proteins whose interaction is required for the
maturation of the 18S rRNA and for 40S ribosome
production.
Length = 809
Score = 31.5 bits (72), Expect = 0.88
Identities = 28/81 (34%), Positives = 36/81 (44%), Gaps = 13/81 (16%)
Query: 247 IFIFICPPSMEELEERLRARGTETEDQILKRLRNA-----KEEIKQ--GKSSGI-FDHIL 298
F F CP S EE E L+ E + +++R+R E K+ GK GI HIL
Sbjct: 392 PFTFPCPKSHEEFLELLKGVSLEDQPTVVQRIRKCHHPKLAEGNKEKLGKFFGILLQHIL 451
Query: 299 Y--NDKLE---ECYENLKKHL 314
Y N E NL +HL
Sbjct: 452 YLANQAEPPPFELLNNLIRHL 472
>gnl|CDD|205733 pfam13555, AAA_29, P-loop containing region of AAA domain.
Length = 60
Score = 28.3 bits (64), Expect = 0.91
Identities = 10/13 (76%), Positives = 11/13 (84%)
Query: 138 ITGPSGVGKGTLI 150
+TGPSG GK TLI
Sbjct: 26 LTGPSGSGKSTLI 38
>gnl|CDD|222194 pfam13521, AAA_28, AAA domain.
Length = 162
Score = 30.2 bits (69), Expect = 0.92
Identities = 9/18 (50%), Positives = 11/18 (61%)
Query: 136 VVITGPSGVGKGTLISML 153
+VITG GK TL+ L
Sbjct: 2 IVITGGPSTGKTTLLEAL 19
>gnl|CDD|224047 COG1122, CbiO, ABC-type cobalt transport system, ATPase component
[Inorganic ion transport and metabolism].
Length = 235
Score = 30.7 bits (70), Expect = 0.94
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 136 VVITGPSGVGKGTLISML 153
V++ GP+G GK TL+ +L
Sbjct: 33 VLLIGPNGSGKSTLLKLL 50
>gnl|CDD|238713 cd01428, ADK, Adenylate kinase (ADK) catalyzes the reversible
phosphoryl transfer from adenosine triphosphates (ATP)
to adenosine monophosphates (AMP) and to yield adenosine
diphosphates (ADP). This enzyme is required for the
biosynthesis of ADP and is essential for homeostasis of
adenosine phosphates.
Length = 194
Score = 30.7 bits (70), Expect = 0.98
Identities = 44/213 (20%), Positives = 59/213 (27%), Gaps = 80/213 (37%)
Query: 136 VVITGPSGVGKGTLISMLMKEFPSMFGF---SVSHTTRAPRAMEKDGVHYHFTERSVMEK 192
+++ GP G GKGT L K++ G S R + TE K
Sbjct: 2 ILLLGPPGSGKGTQAERLAKKY----GLPHISTGDLLRE--EIASG------TELGKKAK 49
Query: 193 AIKD-GKFLEFASVHGNLYGTSVEAVEAV-------ADAGKRCILD-----------IDV 233
D GK + E V + D K ILD +D
Sbjct: 50 EYIDSGKLV------------PDEIVIKLLKERLKKPDCKKGFILDGFPRTVDQAEALDE 97
Query: 234 QGARSVRASPLDAIFIFICPPSMEELEERLRARGT------------------------- 268
+ D + P E L ER+ R
Sbjct: 98 LLDEGI---KPDKVIELDVPD--EVLIERILGRRICPVSGRVYHLGKDDVTGEPLSQRSD 152
Query: 269 ETEDQILKRLRNAKEE----IKQGKSSGIFDHI 297
+ E+ I KRL KE+ I K G I
Sbjct: 153 DNEETIKKRLEVYKEQTAPLIDYYKKKGKLVEI 185
>gnl|CDD|234253 TIGR03547, muta_rot_YjhT, mutatrotase, YjhT family. Members of
this protein family contain multiple copies of the
beta-propeller-forming Kelch repeat. All are full-length
homologs to YjhT of Escherichia coli, which has been
identified as a mutarotase for sialic acid. This protein
improves bacterial ability to obtain host sialic acid,
and thus serves as a virulence factor. Some bacteria
carry what appears to be a cyclically permuted homolog
of this protein.
Length = 346
Score = 31.1 bits (71), Expect = 1.0
Identities = 15/72 (20%), Positives = 20/72 (27%), Gaps = 11/72 (15%)
Query: 27 RDCETTTVIGDKTYVI--AGSDESIGVKI-------YDRSTGNWLIPAVRGIEPRPCKGH 77
R+ I K YV G S G YD +W + P G
Sbjct: 54 RNQAVAAAIDGKLYVFGGIGKANSEGSPQVFDDVYRYDPKKNSWQ--KLDTRSPVGLLGA 111
Query: 78 SAVLLNEDRILV 89
S L+ +
Sbjct: 112 SGFSLHNGQAYF 123
>gnl|CDD|226635 COG4161, ArtP, ABC-type arginine transport system, ATPase component
[Amino acid transport and metabolism].
Length = 242
Score = 30.6 bits (69), Expect = 1.1
Identities = 16/53 (30%), Positives = 29/53 (54%), Gaps = 10/53 (18%)
Query: 136 VVITGPSGVGKGTLISML-MKEFP---------SMFGFSVSHTTRAPRAMEKD 178
+V+ GPSG GK +L+ +L + E P + F FS + + +A R + ++
Sbjct: 31 LVLLGPSGAGKSSLLRVLNLLEMPRSGTLNIAGNHFDFSKTPSDKAIRDLRRN 83
>gnl|CDD|217429 pfam03215, Rad17, Rad17 cell cycle checkpoint protein.
Length = 490
Score = 31.2 bits (70), Expect = 1.2
Identities = 24/64 (37%), Positives = 33/64 (51%), Gaps = 10/64 (15%)
Query: 100 LWFLEVDTPYVREQ-----KKVVGAEVVAWSKGVIGNVEKPVV--ITGPSGVGKGTLISM 152
LW + P R++ KK+ AEV W K V K ++ +TGPSG GK T + +
Sbjct: 8 LWTEKY-KPRRRDELAIHKKKI--AEVDHWLKAVFLESNKQLILLLTGPSGCGKSTTVKV 64
Query: 153 LMKE 156
L KE
Sbjct: 65 LSKE 68
>gnl|CDD|226655 COG4192, COG4192, Signal transduction histidine kinase regulating
phosphoglycerate transport system [Signal transduction
mechanisms].
Length = 673
Score = 31.0 bits (70), Expect = 1.2
Identities = 19/62 (30%), Positives = 25/62 (40%), Gaps = 2/62 (3%)
Query: 268 TETEDQILKRLRNAKEEIKQGKSSGIFD--HILYNDKLEECYENLKKHLGLDGSIATNHQ 325
E QI + LR+ E ++ S+ D H Y D L + LG S T HQ
Sbjct: 204 LRLEGQIQQSLRDRVVETQKLNSTIQLDQQHTAYLDLLANADALFIQVLGQTASTVTLHQ 263
Query: 326 TS 327
S
Sbjct: 264 LS 265
>gnl|CDD|131259 TIGR02204, MsbA_rel, ABC transporter, permease/ATP-binding protein.
This protein is related to a Proteobacterial ATP
transporter that exports lipid A and to eukaryotic
P-glycoproteins.
Length = 576
Score = 30.8 bits (70), Expect = 1.3
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 136 VVITGPSGVGKGTLISMLMK 155
V + GPSG GK TL +L++
Sbjct: 369 VALVGPSGAGKSTLFQLLLR 388
>gnl|CDD|224051 COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase
component [Amino acid transport and metabolism].
Length = 240
Score = 30.6 bits (70), Expect = 1.3
Identities = 17/31 (54%), Positives = 20/31 (64%), Gaps = 2/31 (6%)
Query: 126 KGVIGNVEKP--VVITGPSGVGKGTLISMLM 154
KG+ +VEK VVI GPSG GK TL+ L
Sbjct: 19 KGISLSVEKGEVVVIIGPSGSGKSTLLRCLN 49
>gnl|CDD|213223 cd03256, ABC_PhnC_transporter, ATP-binding cassette domain of the
binding protein-dependent phosphonate transport system.
Phosphonates are a class of organophosphorus compounds
characterized by a chemically stable
carbon-to-phosphorus (C-P) bond. Phosphonates are
widespread among naturally occurring compounds in all
kingdoms of wildlife, but only prokaryotic
microorganisms are able to cleave this bond. Certain
bacteria such as E. coli can use alkylphosphonates as a
phosphorus source. 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 = 241
Score = 30.6 bits (70), Expect = 1.3
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 136 VVITGPSGVGKGTLISML 153
V + GPSG GK TL+ L
Sbjct: 30 VALIGPSGAGKSTLLRCL 47
>gnl|CDD|224084 COG1162, COG1162, Predicted GTPases [General function prediction
only].
Length = 301
Score = 30.3 bits (69), Expect = 1.5
Identities = 12/20 (60%), Positives = 14/20 (70%)
Query: 134 KPVVITGPSGVGKGTLISML 153
K V+ G SGVGK TLI+ L
Sbjct: 165 KITVLLGQSGVGKSTLINAL 184
>gnl|CDD|224345 COG1428, COG1428, Deoxynucleoside kinases [Nucleotide transport and
metabolism].
Length = 216
Score = 30.0 bits (68), Expect = 1.6
Identities = 9/24 (37%), Positives = 11/24 (45%)
Query: 136 VVITGPSGVGKGTLISMLMKEFPS 159
+VI G G GK TL L +
Sbjct: 7 IVIEGMIGAGKSTLAQALAEHLGF 30
>gnl|CDD|227952 COG5665, NOT5, CCR4-NOT transcriptional regulation complex, NOT5
subunit [Transcription].
Length = 548
Score = 30.4 bits (68), Expect = 1.7
Identities = 24/132 (18%), Positives = 47/132 (35%), Gaps = 16/132 (12%)
Query: 257 EELEERLRARGTETE--DQILKRLRNAKEEIKQGKSSGIFDHILY---NDKLEEC--YEN 309
+E EE+ + ILK+L+N E+ D I Y N+ + Y+
Sbjct: 134 QENEEQTERHEFHIANLENILKKLQNN--EMDPEPVEEFQDDIKYYVENNDDPDFIEYDT 191
Query: 310 LKKHLGLDGSIATNHQTSPKGIDLPADHSVSKVANKVIIKCGAAEGKASKNLMVLDVSSL 369
+ + +G + ++++ +PK ++ + I E K DVS
Sbjct: 192 IYEDMGCEIQPSSSNNEAPKE-------GNNQTSLSSIRSSKKQERSPKKKAPQRDVSIS 244
Query: 370 KGGAPGRTRGLQ 381
G++
Sbjct: 245 DRATTPIAPGVE 256
>gnl|CDD|237617 PRK14131, PRK14131, N-acetylneuraminic acid mutarotase;
Provisional.
Length = 376
Score = 30.4 bits (69), Expect = 1.7
Identities = 18/73 (24%), Positives = 24/73 (32%), Gaps = 11/73 (15%)
Query: 27 RDCETTTVIGDKTYVIAGS--DESIGVKI-------YDRSTGNWLIPAVRGIEPRPCKGH 77
R+ I K YV G S G YD T +W + P GH
Sbjct: 75 REQAVAAFIDGKLYVFGGIGKTNSEGSPQVFDDVYKYDPKTNSWQ--KLDTRSPVGLAGH 132
Query: 78 SAVLLNEDRILVI 90
AV L+ + +
Sbjct: 133 VAVSLHNGKAYIT 145
>gnl|CDD|188394 TIGR03864, PQQ_ABC_ATP, ABC transporter, ATP-binding subunit,
PQQ-dependent alcohol dehydrogenase system. Members of
this protein family are the ATP-binding subunit of an
ABC transporter system that is associated with PQQ
biosynthesis and PQQ-dependent alcohol dehydrogenases.
While this family shows homology to several efflux ABC
transporter subunits, the presence of a periplasmic
substrate-binding protein and association with systems
for catabolism of alcohols suggests a role in import
rather than detoxification [Transport and binding
proteins, Carbohydrates, organic alcohols, and acids].
Length = 236
Score = 30.0 bits (68), Expect = 1.7
Identities = 16/51 (31%), Positives = 25/51 (49%), Gaps = 8/51 (15%)
Query: 136 VVITGPSGVGKGTLISMLMKEFP------SMFGFSVSHTTRAPRAMEKDGV 180
V + GP+G GK TL S+L + + S+ G + R A+ + GV
Sbjct: 30 VALLGPNGAGKSTLFSLLTRLYVAQEGQISVAGHDLRRAPR--AALARLGV 78
>gnl|CDD|226360 COG3840, ThiQ, ABC-type thiamine transport system, ATPase component
[Coenzyme metabolism].
Length = 231
Score = 30.0 bits (68), Expect = 1.9
Identities = 16/41 (39%), Positives = 21/41 (51%), Gaps = 4/41 (9%)
Query: 136 VVITGPSGVGKGTLISMLMK-EFP---SMFGFSVSHTTRAP 172
V I GPSG GK TL++++ E P + V HT P
Sbjct: 28 VAILGPSGAGKSTLLNLIAGFETPASGEILINGVDHTASPP 68
>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 = 30.0 bits (68), Expect = 1.9
Identities = 12/22 (54%), Positives = 12/22 (54%)
Query: 136 VVITGPSGVGKGTLISMLMKEF 157
V ITG G GK TLI L E
Sbjct: 32 VGITGVPGAGKSTLIEALGMEL 53
>gnl|CDD|182331 PRK10247, PRK10247, putative ABC transporter ATP-binding protein
YbbL; Provisional.
Length = 225
Score = 29.7 bits (67), Expect = 1.9
Identities = 10/16 (62%), Positives = 13/16 (81%)
Query: 137 VITGPSGVGKGTLISM 152
+ITGPSG GK TL+ +
Sbjct: 37 LITGPSGCGKSTLLKI 52
>gnl|CDD|224847 COG1936, COG1936, Predicted nucleotide kinase (related to CMP and
AMP kinases) [Nucleotide transport and metabolism].
Length = 180
Score = 29.6 bits (67), Expect = 2.0
Identities = 28/134 (20%), Positives = 47/134 (35%), Gaps = 34/134 (25%)
Query: 136 VVITGPSGVGKGTLISMLMKEFPSMFGFSVSHTTRAPRAMEKDGVHYHFTERSVMEKAIK 195
+ ITG GVGK T+ +L G+ V + E A +
Sbjct: 3 IAITGTPGVGKTTVCKLL-----RELGYKVIE---------------------LNELAKE 36
Query: 196 DGKFLEFASVHGNLYGTSVEAVEAVADAGKRCILDID--VQGARSVRASPLDAIFIFICP 253
+G + E+ L + + V+ + + + + V S D + +
Sbjct: 37 NGLYTEYDE----LRKSVIVDVDKLRKRLEELLREGSGIVDSHLSHLLPDCDLVVVLRAD 92
Query: 254 PSMEELEERLRARG 267
P E L ERL+ RG
Sbjct: 93 P--EVLYERLKGRG 104
>gnl|CDD|226164 COG3638, COG3638, ABC-type phosphate/phosphonate transport system,
ATPase component [Inorganic ion transport and
metabolism].
Length = 258
Score = 29.9 bits (68), Expect = 2.0
Identities = 11/18 (61%), Positives = 12/18 (66%)
Query: 136 VVITGPSGVGKGTLISML 153
V I GPSG GK TL+ L
Sbjct: 33 VAIIGPSGAGKSTLLRSL 50
>gnl|CDD|217465 pfam03266, NTPase_1, NTPase. This domain is found across all
species from bacteria to human, and the function was
determined first in a hyperthermophilic bacterium to be
an NTPase. The structure of one member-sequence
represents a variation of the RecA fold, and implies
that the function might be that of a DNA/RNA modifying
enzyme. The sequence carries both a Walker A and Walker
B motif which together are characteristic of ATPases or
GTPases. The protein exhibits an increased expression
profile in human liver cholangiocarcinoma when compared
to normal tissue.
Length = 168
Score = 29.5 bits (67), Expect = 2.1
Identities = 10/15 (66%), Positives = 12/15 (80%)
Query: 136 VVITGPSGVGKGTLI 150
+ ITGP GVGK TL+
Sbjct: 2 IFITGPPGVGKTTLV 16
>gnl|CDD|223562 COG0488, Uup, ATPase components of ABC transporters with duplicated
ATPase domains [General function prediction only].
Length = 530
Score = 30.3 bits (69), Expect = 2.1
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 136 VVITGPSGVGKGTLISMLMKE 156
+ I GP+G GK TL+ +L E
Sbjct: 351 IAIVGPNGAGKSTLLKLLAGE 371
>gnl|CDD|224025 COG1100, COG1100, GTPase SAR1 and related small G proteins [General
function prediction only].
Length = 219
Score = 29.5 bits (66), Expect = 2.1
Identities = 9/25 (36%), Positives = 15/25 (60%)
Query: 136 VVITGPSGVGKGTLISMLMKEFPSM 160
+V+ G GVGK TL++ L+ +
Sbjct: 8 IVVLGDGGVGKTTLLNRLVGDEFPE 32
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 30.3 bits (69), Expect = 2.2
Identities = 12/35 (34%), Positives = 20/35 (57%), Gaps = 3/35 (8%)
Query: 123 AWSKGVIGNVEKPVVITGPSGVGKGTLISMLMKEF 157
+W KG +K +++ GP GVGK +L L ++
Sbjct: 32 SWLKGKP---KKALLLYGPPGVGKTSLAHALANDY 63
>gnl|CDD|224054 COG1131, CcmA, ABC-type multidrug transport system, ATPase
component [Defense mechanisms].
Length = 293
Score = 30.0 bits (68), Expect = 2.2
Identities = 26/107 (24%), Positives = 35/107 (32%), Gaps = 20/107 (18%)
Query: 126 KGVIGNVEKP--VVITGPSGVGKGTLISMLMKEFPSMFG----FSVSHTTRAPRAMEKDG 179
GV VE + GP+G GK TL+ +L G + + G
Sbjct: 22 DGVSFEVEPGEIFGLLGPNGAGKTTLLKILAGLLKPTSGEILVLGYDVVKEPAKVRRRIG 81
Query: 180 V----HYHFTERSVMEKAIKDGKFLEFASVHGNLYGTSVEAVEAVAD 222
+ E +V E LEF LYG S E E +
Sbjct: 82 YVPQEPSLYPELTVRE-------NLEF---FARLYGLSKEEAEERIE 118
>gnl|CDD|225982 COG3451, VirB4, Type IV secretory pathway, VirB4 components
[Intracellular trafficking and secretion].
Length = 796
Score = 30.4 bits (69), Expect = 2.2
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 138 ITGPSGVGKGTLISMLMKEF 157
I GP+G GK L+S L+ +
Sbjct: 441 IIGPTGAGKTVLLSFLLAQA 460
>gnl|CDD|181705 PRK09219, PRK09219, xanthine phosphoribosyltransferase; Validated.
Length = 189
Score = 29.4 bits (67), Expect = 2.2
Identities = 9/21 (42%), Positives = 11/21 (52%)
Query: 256 MEELEERLRARGTETEDQILK 276
M+ LEER+ G ILK
Sbjct: 1 MKLLEERILKDGKVLSGNILK 21
>gnl|CDD|225183 COG2274, SunT, ABC-type bacteriocin/lantibiotic exporters, contain
an N-terminal double-glycine peptidase domain [Defense
mechanisms].
Length = 709
Score = 30.3 bits (69), Expect = 2.3
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 134 KPVVITGPSGVGKGTLISMLM 154
+ V I G SG GK TL+ +L+
Sbjct: 500 EKVAIVGRSGSGKSTLLKLLL 520
>gnl|CDD|130260 TIGR01192, chvA, glucan exporter ATP-binding protein. This model
describes glucan exporter ATP binding protein in
bacteria. It belongs to the larger ABC transporter
superfamily with the characteristic ATP binding motif.
The In general, this protein is in some ways implicated
in osmoregulation and suggested to participate in the
export of glucan from the cytoplasm to periplasm. The
cyclic beta-1,2-glucan in the bactrerial periplasmic
space is suggested to confer the property of high
osmolority. It has also been demonstrated that mutants
in this loci have lost functions of virulence and
motility. It is unclear as to how virulence and
osmoadaptaion are related [Transport and binding
proteins, Carbohydrates, organic alcohols, and acids].
Length = 585
Score = 30.2 bits (68), Expect = 2.3
Identities = 40/180 (22%), Positives = 72/180 (40%), Gaps = 30/180 (16%)
Query: 136 VVITGPSGVGKGTLISMLMKEFP------SMFGFSVSHTTRAPRAMEKDGVHYHFTERSV 189
V I GP+G GK TLI++L + + + G ++ TR + + F + +
Sbjct: 364 VAIVGPTGAGKTTLINLLQRVYDPTVGQILIDGIDINTVTRESL---RKSIATVFQDAGL 420
Query: 190 MEKAIKDGKFLEFASVHGNLYGTSVEAVEAVADAGKRCILD------IDVQGARSVRASP 243
++I++ L G T E EA A + + G R R S
Sbjct: 421 FNRSIRENIRL------GREGATDEEVYEAAKAAAAHDFILKRSNGYDTLVGERGNRLSG 474
Query: 244 LDAIFIFICPPSMEE-----LEERLRARGTETEDQILKRLRNAKEEIKQGKSSGIFDHIL 298
+ + I ++ L+E A ETE R++NA + +++ +++ I H L
Sbjct: 475 GERQRLAIARAILKNAPILVLDEATSALDVETE----ARVKNAIDALRKNRTTFIIAHRL 530
>gnl|CDD|234015 TIGR02788, VirB11, P-type DNA transfer ATPase VirB11. The VirB11
protein is found in the vir locus of Agrobacterium Ti
plasmids where it is involved in the type IV secretion
system for DNA transfer. VirB11 is believed to be an
ATPase. VirB11 is a homolog of the P-like conjugation
system TrbB protein and the Flp pilus sytem protein
TadA.
Length = 308
Score = 29.6 bits (67), Expect = 2.5
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 134 KPVVITGPSGVGKGTLISMLMKEFPS 159
K ++I+G +G GK T + L+ E P
Sbjct: 145 KNIIISGGTGSGKTTFLKSLVDEIPK 170
>gnl|CDD|237875 PRK14974, PRK14974, cell division protein FtsY; Provisional.
Length = 336
Score = 29.9 bits (68), Expect = 2.5
Identities = 22/55 (40%), Positives = 26/55 (47%), Gaps = 8/55 (14%)
Query: 133 EKPVVI--TGPSGVGKGTLISMLMKEFPSMFGFSV----SHTTRAPRAMEKDGVH 181
KPVVI G +G GK T I+ L GFSV T RA A+E+ H
Sbjct: 138 GKPVVIVFVGVNGTGKTTTIAKLAYYLKKN-GFSVVIAAGDTFRAG-AIEQLEEH 190
>gnl|CDD|129690 TIGR00602, rad24, checkpoint protein rad24. All proteins in this
family for which functions are known are involved in DNA
damage tolerance (likely cell cycle checkpoints).This
family is based on the phylogenomic analysis of JA Eisen
(1999, Ph.D. Thesis, Stanford University) [DNA
metabolism, DNA replication, recombination, and repair].
Length = 637
Score = 29.9 bits (67), Expect = 2.5
Identities = 28/82 (34%), Positives = 39/82 (47%), Gaps = 10/82 (12%)
Query: 82 LNEDRILVIKKGSSSDDCLWFLEVDTPYVREQ-----KKVVGAEVVAWSKG-VIGNVEKP 135
L +D L + + + W E P + + KK+ EV W K V+ N K
Sbjct: 55 LEQDTGLELSSENLDGNEPWV-EKYKPETQHELAVHKKKI--EEVETWLKAQVLENAPKR 111
Query: 136 VV-ITGPSGVGKGTLISMLMKE 156
++ ITGPSG GK T I +L KE
Sbjct: 112 ILLITGPSGCGKSTTIKILSKE 133
>gnl|CDD|234041 TIGR02868, CydC, thiol reductant ABC exporter, CydC subunit. The
gene pair cydCD encodes an ABC-family transporter in
which each gene contains an N-terminal membrane-spanning
domain (pfam00664) and a C-terminal ATP-binding domain
(pfam00005). In E. coli these genes were discovered as
mutants which caused the terminal heme-copper oxidase
complex cytochrome bd to fail to assemble. Recent work
has shown that the transporter is involved in export of
redox-active thiol compounds such as cysteine and
glutathione. The linkage to assembly of the cytochrome
bd complex is further supported by the conserved operon
structure found outside the gammaproteobacteria
(cydABCD) containing both the transporter and oxidase
genes components. The genes used as the seed members for
this model are all either found in the
gammproteobacterial context or the CydABCD context. All
members of this family scoring above trusted at the time
of its creation were from genomes which encode a
cytochrome bd complex.
Length = 530
Score = 30.0 bits (68), Expect = 2.5
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 136 VVITGPSGVGKGTLISMLMKEFP 158
V I GPSG GK TL++ L
Sbjct: 364 VAILGPSGSGKSTLLATLAGLLD 386
>gnl|CDD|233911 TIGR02530, flg_new, flagellar operon protein. Members of this
family are found in a subset of bacterial flagellar
operons, generally between genes designated flgD and
flgE, in species as diverse as Bacillus halodurans and
various other Firmicutes, Geobacter sulfurreducens, and
Bdellovibrio bacteriovorus. The specific molecular
function is unknown [Cellular processes, Chemotaxis and
motility].
Length = 96
Score = 28.2 bits (63), Expect = 2.6
Identities = 14/44 (31%), Positives = 21/44 (47%), Gaps = 4/44 (9%)
Query: 260 EERLRARGTETEDQILKRLRNAKEEIKQGKSSGIFDH-ILYNDK 302
ER+R R K+L E +++ +S G+ D IL ND
Sbjct: 22 LERMRERNISINPDDWKKL---LEAVEEAESKGVKDSLILMNDA 62
>gnl|CDD|132027 TIGR02982, heterocyst_DevA, ABC exporter ATP-binding subunit, DevA
family. Members of this protein family are found mostly
in the Cyanobacteria, but also in the Planctomycetes.
Cyanobacterial examples are involved in heterocyst
formation, by which some fraction of members of the
colony undergo a developmental change and become capable
of nitrogen fixation. The DevBCA proteins are thought
export of either heterocyst-specific glycolipids or an
enzyme essential for formation of the laminated layer
found in heterocysts.
Length = 220
Score = 29.6 bits (67), Expect = 2.6
Identities = 10/18 (55%), Positives = 16/18 (88%)
Query: 136 VVITGPSGVGKGTLISML 153
V++TGPSG GK TL++++
Sbjct: 34 VILTGPSGSGKTTLLTLI 51
>gnl|CDD|222597 pfam14214, Helitron_like_N, Helitron helicase-like domain at
N-terminus. This family is found in Helitrons, recently
recognised eukaryotic transposons that are predicted to
amplify by a rolling-circle mechanism. In many instances
a protein-coding gene is disrupted by their insertion.
Length = 184
Score = 29.1 bits (66), Expect = 2.6
Identities = 24/122 (19%), Positives = 39/122 (31%), Gaps = 36/122 (29%)
Query: 208 NLYGTSVEAVEA----VADAGKRCILDIDVQGARSVRASP-------LDA---------- 246
LY +A+EA + GKR +L S DA
Sbjct: 52 ELYQGLQDALEAGDTDGNEIGKRIVL------PASFTGGRRYMQQNYQDAMAICRRYGKP 105
Query: 247 -IFI-FICPPSMEELEERLRARGTETED------QILK-RLRNAKEEIKQGKSSGIFDHI 297
+FI F C P E+ L G +D ++ +L +++ + G
Sbjct: 106 DLFITFTCNPKWPEITRALLEPGQNPQDRPDIVARVFHMKLDELMDDLLKKHIFGKVIAY 165
Query: 298 LY 299
+Y
Sbjct: 166 VY 167
>gnl|CDD|213229 cd03262, ABC_HisP_GlnQ, ATP-binding cassette domain of the
histidine and glutamine transporters. HisP and GlnQ are
the ATP-binding components of the bacterial periplasmic
histidine and glutamine permeases, respectively.
Histidine permease is a multi-subunit complex containing
the HisQ and HisM integral membrane subunits and two
copies of HisP. HisP has properties intermediate between
those of integral and peripheral membrane proteins and
is accessible from both sides of the membrane,
presumably by its interaction with HisQ and HisM. The
two HisP subunits form a homodimer within the complex.
The domain structure of the amino acid uptake systems is
typical for prokaryotic extracellular solute binding
protein-dependent uptake systems. All of the amino acid
uptake systems also have at least one, and in a few
cases, two extracellular solute binding proteins located
in the periplasm of Gram-negative bacteria, or attached
to the cell membrane of Gram-positive bacteria. The
best-studied member of the PAAT (polar amino acid
transport) family is the HisJQMP system of S.
typhimurium, where HisJ is the extracellular solute
binding proteins and HisP is the ABC protein.
Length = 213
Score = 29.4 bits (67), Expect = 2.7
Identities = 11/15 (73%), Positives = 12/15 (80%)
Query: 136 VVITGPSGVGKGTLI 150
VVI GPSG GK TL+
Sbjct: 29 VVIIGPSGSGKSTLL 43
>gnl|CDD|227118 COG4778, PhnL, ABC-type phosphonate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 235
Score = 29.3 bits (66), Expect = 2.9
Identities = 11/18 (61%), Positives = 13/18 (72%)
Query: 136 VVITGPSGVGKGTLISML 153
VV+ GPSG GK TL+ L
Sbjct: 40 VVLHGPSGSGKSTLLRSL 57
>gnl|CDD|238941 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 = 28.1 bits (63), Expect = 2.9
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 136 VVITGPSGVGKGTLISMLMKEFPSMFGFSV 165
+V+TG GVGK TL + L + G V
Sbjct: 2 IVVTGKGGVGKTTLAANLAAAL-AKRGKRV 30
>gnl|CDD|238977 cd02019, NK, Nucleoside/nucleotide kinase (NK) is a protein
superfamily consisting of multiple families of enzymes
that share structural similarity and are functionally
related to the catalysis of the reversible phosphate
group transfer from nucleoside triphosphates to
nucleosides/nucleotides, nucleoside monophosphates, or
sugars. Members of this family play a wide variety of
essential roles in nucleotide metabolism, the
biosynthesis of coenzymes and aromatic compounds, as
well as the metabolism of sugar and sulfate.
Length = 69
Score = 27.3 bits (61), Expect = 3.0
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 136 VVITGPSGVGKGTLISMLMKEF 157
+ ITG SG GK T+ L ++
Sbjct: 2 IAITGGSGSGKSTVAKKLAEQL 23
>gnl|CDD|177443 PHA02653, PHA02653, RNA helicase NPH-II; Provisional.
Length = 675
Score = 29.9 bits (68), Expect = 3.0
Identities = 14/29 (48%), Positives = 20/29 (68%)
Query: 134 KPVVITGPSGVGKGTLISMLMKEFPSMFG 162
KPVV+TG +GVGK + + L+ F +FG
Sbjct: 180 KPVVLTGGTGVGKTSQVPKLLLWFNYLFG 208
>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and
permease components [Defense mechanisms].
Length = 567
Score = 29.7 bits (67), Expect = 3.0
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 136 VVITGPSGVGKGTLISMLMKEFPSMFG 162
V I GPSG GK TLI +L++ + G
Sbjct: 358 VAIVGPSGSGKSTLIKLLLRLYDPTSG 384
>gnl|CDD|213213 cd03246, ABCC_Protease_Secretion, ATP-binding cassette domain of
PrtD, subfamily C. This family represents the ABC
component of the protease secretion system PrtD, a
60-kDa integral membrane protein sharing 37% identity
with HlyB, the ABC component of the alpha-hemolysin
secretion pathway, in the C-terminal domain. They export
degradative enzymes by using a type I protein secretion
system and lack an N-terminal signal peptide, but
contain a C-terminal secretion signal. The Type I
secretion apparatus is made up of three components, an
ABC transporter, a membrane fusion protein (MFP), and an
outer membrane protein (OMP). For the HlyA transporter
complex, HlyB (ABC transporter) and HlyD (MFP) reside in
the inner membrane of E. coli. The OMP component is
TolC, which is thought to interact with the MFP to form
a continuous channel across the periplasm from the
cytoplasm to the exterior. HlyB belongs to the family of
ABC transporters, which are ubiquitous, ATP-dependent
transmembrane pumps or channels. The spectrum of
transport substrates ranges from inorganic ions,
nutrients such as amino acids, sugars, or peptides,
hydrophobic drugs, to large polypeptides, such as HlyA.
Length = 173
Score = 29.1 bits (66), Expect = 3.0
Identities = 9/14 (64%), Positives = 10/14 (71%)
Query: 136 VVITGPSGVGKGTL 149
+ I GPSG GK TL
Sbjct: 31 LAIIGPSGSGKSTL 44
>gnl|CDD|226359 COG3839, MalK, ABC-type sugar transport systems, ATPase components
[Carbohydrate transport and metabolism].
Length = 338
Score = 29.5 bits (67), Expect = 3.1
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 136 VVITGPSGVGKGTLISML 153
VV+ GPSG GK TL+ M+
Sbjct: 32 VVLLGPSGCGKSTLLRMI 49
>gnl|CDD|238899 cd01918, HprK_C, HprK/P, the bifunctional histidine-containing
protein kinase/phosphatase, controls the phosphorylation
state of the phosphocarrier protein HPr and regulates
the utilization of carbon sources by gram-positive
bacteria. It catalyzes both the ATP-dependent
phosphorylation of Ser-46 of HPr and its
dephosphorylation by phosphorolysis. The latter reaction
uses inorganic phosphate as substrate and produces
pyrophosphate. Phosphoenolpyruvate carboxykinase (PEPCK)
and the C-terminal catalytic domain of HprK/P are
structurally similar with conserved active site residues
suggesting these two phosphotransferases have related
functions. The HprK/P N-terminal domain is structurally
similar to the N-terminal domains of the MurE and MurF
amino acid ligases.
Length = 149
Score = 28.7 bits (65), Expect = 3.1
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 136 VVITGPSGVGKGTL 149
V+ITGPSG+GK L
Sbjct: 17 VLITGPSGIGKSEL 30
>gnl|CDD|182893 PRK11000, PRK11000, maltose/maltodextrin transporter ATP-binding
protein; Provisional.
Length = 369
Score = 29.6 bits (67), Expect = 3.2
Identities = 11/18 (61%), Positives = 13/18 (72%)
Query: 136 VVITGPSGVGKGTLISML 153
VV GPSG GK TL+ M+
Sbjct: 32 VVFVGPSGCGKSTLLRMI 49
>gnl|CDD|129833 TIGR00750, lao, LAO/AO transport system ATPase. In E. coli,
mutation of this kinase blocks phosphorylation of two
transporter system periplasmic binding proteins and
consequently inhibits those transporters. This kinase is
also found in Gram-positive bacteria, archaea, and the
roundworm C. elegans. It may have a more general, but
still unknown function. Mutations have also been found
that do not phosphorylate the periplasmic binding
proteins, yet still allow transport. The ATPase activity
of this protein seems to be necessary, however
[Transport and binding proteins, Amino acids, peptides
and amines, Regulatory functions, Protein interactions].
Length = 300
Score = 29.4 bits (66), Expect = 3.2
Identities = 11/22 (50%), Positives = 12/22 (54%)
Query: 136 VVITGPSGVGKGTLISMLMKEF 157
V ITG G GK TL+ L E
Sbjct: 37 VGITGTPGAGKSTLLEALGMEL 58
>gnl|CDD|233062 TIGR00630, uvra, excinuclease ABC, A subunit. This family is a
member of the ABC transporter superfamily of proteins of
which all members for which functions are known except
the UvrA proteins are involved in the transport of
material through membranes. UvrA orthologs are involved
in the recognition of DNA damage as a step in nucleotide
excision repair. This family is based on the
phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis,
Stanford University) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 925
Score = 29.6 bits (67), Expect = 3.3
Identities = 10/15 (66%), Positives = 10/15 (66%)
Query: 136 VVITGPSGVGKGTLI 150
ITG SG GK TLI
Sbjct: 637 TCITGVSGSGKSTLI 651
>gnl|CDD|239388 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 = 28.4 bits (64), Expect = 3.3
Identities = 10/20 (50%), Positives = 11/20 (55%)
Query: 138 ITGPSGVGKGTLISMLMKEF 157
ITG G GK TLI L+
Sbjct: 4 ITGVPGAGKSTLIDALITAL 23
>gnl|CDD|234579 PRK00023, cmk, cytidylate kinase; Provisional.
Length = 225
Score = 28.9 bits (66), Expect = 3.3
Identities = 12/27 (44%), Positives = 17/27 (62%), Gaps = 2/27 (7%)
Query: 133 EKPVVIT--GPSGVGKGTLISMLMKEF 157
K +VI GP+G GKGT+ +L K+
Sbjct: 2 MKAIVIAIDGPAGSGKGTVAKILAKKL 28
>gnl|CDD|233436 TIGR01490, HAD-SF-IB-hyp1, HAD-superfamily subfamily IB hydrolase,
TIGR01490. This hypothetical equivalog is a member of
the IB subfamily (TIGR01488) of the haloacid
dehalogenase (HAD) superfamily of aspartate-nucleophile
hydrolases. The sequences modelled by This model are all
bacterial. The IB subfamily includes the enzyme
phosphoserine phosphatase (TIGR00338). Due to this
relationship, several of these sequences have been
annotated as "phosphoserine phosphatase related
proteins," or "Phosphoserine phosphatase-family
enzymes." There is presently no evidence that any of the
enzymes in This model possess PSPase activity.
OMNI|NTL01ML1250 is annotated as a "possible
transferase," however this is due to the C-terminal
domain found on this sequence which is homologous to a
group of glycerol-phosphate acyltransferases (between
trusted and noise to TIGR00530). A subset of these
sequences including OMNI|CC1962, the Caulobacter
crescentus CicA protein cluster together and may
represent a separate equivalog [Unknown function,
Enzymes of unknown specificity].
Length = 202
Score = 28.8 bits (65), Expect = 3.4
Identities = 23/76 (30%), Positives = 37/76 (48%), Gaps = 3/76 (3%)
Query: 258 ELEERLRARGTETEDQIL-KRLR-NAKEEIKQGKSSGIFDHILYNDKLEECYENLKKHLG 315
LEE +RA E +Q + L A++ I+ K+ G +L + L + L + LG
Sbjct: 67 LLEEDVRAIVEEFVNQKIESILYPEARDLIRWHKAEG-HTIVLVSASLTILVKPLARILG 125
Query: 316 LDGSIATNHQTSPKGI 331
+D +I T + S GI
Sbjct: 126 IDNAIGTRLEESEDGI 141
>gnl|CDD|133382 cd01107, HTH_BmrR, Helix-Turn-Helix DNA binding domain of the BmrR
transcription regulator. Helix-turn-helix (HTH)
multidrug-efflux transporter transcription regulator,
BmrR and YdfL of Bacillus subtilis, and related
proteins; N-terminal domain. Bmr is a membrane protein
which causes the efflux of a variety of toxic substances
and antibiotics. BmrR is comprised of two distinct
domains that harbor a regulatory (effector-binding) site
and an active (DNA-binding) site. The conserved
N-terminal domain contains a winged HTH motif that
mediates DNA binding, while the C-terminal domain binds
coactivating, toxic compounds. BmrR shares the
N-terminal DNA binding domain with other transcription
regulators of the MerR superfamily that promote
transcription by reconfiguring the spacer between the
-35 and -10 promoter elements.
Length = 108
Score = 27.9 bits (63), Expect = 3.5
Identities = 11/45 (24%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 243 PLDAIFIFICPPSMEELEERLRARGTETEDQILKRLRNAKEEIKQ 287
PL+ I + + +EL + LR + E E +I + L+ ++
Sbjct: 60 PLEEIKEILDADNDDELRKLLREKLAELEAEI-EELQRILRLLED 103
>gnl|CDD|232848 TIGR00157, TIGR00157, ribosome small subunit-dependent GTPase A.
Members of this protein were designated YjeQ and are now
designated RsgA (ribosome small subunit-dependent GTPase
A). The strongest motif in the alignment of these
proteins is GXSGVGKS[ST], a classic P-loop for
nucleotide binding. This protein has been shown to
cleave GTP and remain bound to GDP. A role as a
regulator of translation has been suggested. The Aquifex
aeolicus ortholog is split into consecutive open reading
frames. Consequently, this model was build in fragment
mode (-f option) [Protein synthesis, Translation
factors].
Length = 245
Score = 29.3 bits (66), Expect = 3.6
Identities = 16/50 (32%), Positives = 20/50 (40%), Gaps = 8/50 (16%)
Query: 137 VITGPSGVGKGTLISML-------MKEFPSMFGFSVSHTTRAPRAMEKDG 179
V G SGVGK +LI+ L + + S G HTT G
Sbjct: 124 VFAGQSGVGKSSLINALDPSVKQQVNDISSKLGLG-KHTTTHVELFHFHG 172
>gnl|CDD|233232 TIGR01004, PulS_OutS, lipoprotein, PulS/OutS family. This family
comprises lipoproteins from four gamma proteobacterial
species: PulS protein of Klebsiella pneumoniae, the OutS
protein of Erwinia chrysanthemi and Pectobacterium
chrysanthemi, and the functionally uncharacterized E.
coli protein EtpO. PulS and OutS have been shown to
interact with and facilitate insertion of secretins into
the outer membrane, suggesting a chaperone-like, or
piloting function for members of this family [Transport
and binding proteins, Amino acids, peptides and amines].
Length = 128
Score = 28.4 bits (63), Expect = 3.6
Identities = 9/26 (34%), Positives = 14/26 (53%)
Query: 332 DLPADHSVSKVANKVIIKCGAAEGKA 357
DLP D ++ K A V ++ G G+
Sbjct: 60 DLPDDGTILKTAVNVAVQKGWDTGRY 85
>gnl|CDD|224930 COG2019, AdkA, Archaeal adenylate kinase [Nucleotide transport and
metabolism].
Length = 189
Score = 28.9 bits (65), Expect = 3.7
Identities = 13/26 (50%), Positives = 17/26 (65%)
Query: 134 KPVVITGPSGVGKGTLISMLMKEFPS 159
K VVITG GVGK T++ + +KE
Sbjct: 5 KVVVITGVPGVGKTTVLKIALKELVK 30
>gnl|CDD|224292 COG1373, COG1373, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 398
Score = 29.3 bits (66), Expect = 3.7
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 134 KPVVITGPSGVGKGTLISMLMKEFPS 159
++I GP VGK TL+ +L+K
Sbjct: 38 FIILILGPRQVGKTTLLKLLIKGLLE 63
>gnl|CDD|221527 pfam12318, FAD-SLDH, Membrane bound FAD containing D-sorbitol
dehydrogenase. This family of proteins is found in
bacteria. Proteins in this family are typically between
168 and 189 amino acids in length. There is a conserved
ALM sequence motif. This family is a membrane protein
(FAD-SLDH) involved in oxidation of D-sorbitol to
L-sorbose.
Length = 170
Score = 28.5 bits (64), Expect = 3.7
Identities = 14/53 (26%), Positives = 21/53 (39%), Gaps = 2/53 (3%)
Query: 87 ILVIKKGSSSDDCLWFLEVDTPYVREQKKVVGAEVVAWSKGVIGNVEKPVVIT 139
+L +DD LE D P + A + AW G +G+ VV+
Sbjct: 84 LLAQSGLQEADDFAAQLEADAP--PALRDTALAIITAWYLGTVGDGADAVVVA 134
>gnl|CDD|222802 PHA00497, pol, RNA-dependent RNA polymerase.
Length = 673
Score = 29.4 bits (66), Expect = 4.0
Identities = 15/82 (18%), Positives = 30/82 (36%), Gaps = 5/82 (6%)
Query: 173 RAMEKDGVHYHFTERSVMEKAIKDGKFLEFASVHGNLYGTSVEAVEAVADAGKRCILDID 232
E+ +H T R + + + KF E V + S ++ + D
Sbjct: 317 AMYERYAYTWHHTTREDKIEKVYEWKFAEATDVSDHDTFFSGWLIDLICDELPEMFAPWW 376
Query: 233 VQGARSVRASPLDAIFIFICPP 254
++ ARS+ P+ ++ P
Sbjct: 377 MELARSLHRLPV-----YVRAP 393
>gnl|CDD|235210 PRK04040, PRK04040, adenylate kinase; Provisional.
Length = 188
Score = 28.7 bits (65), Expect = 4.0
Identities = 10/23 (43%), Positives = 17/23 (73%)
Query: 134 KPVVITGPSGVGKGTLISMLMKE 156
K VV+TG GVGK T+++ +++
Sbjct: 3 KVVVVTGVPGVGKTTVLNKALEK 25
>gnl|CDD|238835 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 = 28.8 bits (65), Expect = 4.0
Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 2/37 (5%)
Query: 136 VVITGPSGVGKGTLISMLMKEFPSMFGFSVSHTTRAP 172
+V G G GK TLI +L + + G+ V TR P
Sbjct: 3 IVFEGIDGAGKTTLIELLAERLEAR-GYEVV-LTREP 37
>gnl|CDD|234631 PRK00098, PRK00098, GTPase RsgA; Reviewed.
Length = 298
Score = 29.0 bits (66), Expect = 4.2
Identities = 9/14 (64%), Positives = 11/14 (78%)
Query: 137 VITGPSGVGKGTLI 150
V+ G SGVGK TL+
Sbjct: 168 VLAGQSGVGKSTLL 181
>gnl|CDD|234734 PRK00349, uvrA, excinuclease ABC subunit A; Reviewed.
Length = 943
Score = 29.3 bits (67), Expect = 4.2
Identities = 12/24 (50%), Positives = 14/24 (58%), Gaps = 4/24 (16%)
Query: 131 NVEKP----VVITGPSGVGKGTLI 150
+VE P +TG SG GK TLI
Sbjct: 629 DVEIPLGKFTCVTGVSGSGKSTLI 652
Score = 28.1 bits (64), Expect = 9.1
Identities = 11/28 (39%), Positives = 16/28 (57%), Gaps = 6/28 (21%)
Query: 126 KGVIGNVEKP----VVITGPSGVGKGTL 149
K + +++ P VV TG SG GK +L
Sbjct: 17 KNI--DLDIPRDKLVVFTGLSGSGKSSL 42
>gnl|CDD|221968 pfam13189, Cytidylate_kin2, Cytidylate kinase-like family. This
family includes enzymes related to cytidylate kinase.
Length = 176
Score = 28.3 bits (64), Expect = 4.4
Identities = 22/115 (19%), Positives = 46/115 (40%), Gaps = 13/115 (11%)
Query: 173 RAMEKDGVHYHFTERSVMEKAIKDGKFLEFASVHGNLYGTSVEAVEAVADAGKRCILDID 232
A ++ G+ ER EKA L ++ G G + + + + A + I ++
Sbjct: 35 EAAKESGISEEEFER-YDEKA---PNSLLYSIAAGFYRGEDISSDDKLFKAQSKVIRELA 90
Query: 233 VQG--------ARSVRASPLDAIFIFICPPSMEELEERLRARGTETEDQILKRLR 279
+G A + + + +FI +E+ ER+ R +E + K ++
Sbjct: 91 EKGSCVIVGRCADYILRDRPNVLSVFIYAD-LEDRVERVMEREGLSEKEAEKLIK 144
>gnl|CDD|188994 cd06455, M3A_TOP, Peptidase M3 Thimet oligopeptidase (TOP) also
includes neurolysin. Peptidase M3 Thimet oligopeptidase
(TOP; PZ-peptidase; endo-oligopeptidase A; endopeptidase
24.15; soluble metallo-endopeptidase; EC 3.4.24.15)
family also includes neurolysin (endopeptidase 24.16,
microsomal endopeptidase, mitochondrial oligopeptidase
M, neurotensin endopeptidase, soluble angiotensin
II-binding protein, thimet oligopeptidase II) which
hydrolyzes oligopeptides such as neurotensin, bradykinin
and dynorphin A. TOP and neurolysin are neuropeptidases
expressed abundantly in the testis, but also found in
the liver, lung and kidney. They are involved in the
metabolism of neuropeptides under 20 amino acid residues
long and cleave most bioactive peptides at the same
sites, but recognize different positions on some
naturally occurring and synthetic peptides; they cleave
at distinct sites on the 13-residue bioactive peptide
neurotensin, which modulates central dopaminergic and
cholinergic circuits. TOP has been shown to degrade
peptides released by the proteasome, limiting the extent
of antigen presentation by major histocompatibility
complex class I molecules, and has been associated with
amyloid protein precursor processing.
Length = 637
Score = 29.1 bits (66), Expect = 4.4
Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 257 EELEERLRARGTETEDQILKRLRNAKEEIKQGKSSGIFDHILYNDKLEE 305
++L E+L+ E E L L+ KE + G +D Y ++++E
Sbjct: 261 DDLAEKLKPLA-EKELAELLALK-KKECPEAGDRIYAWDLRYYMNRVKE 307
>gnl|CDD|213238 cd03271, ABC_UvrA_II, ATP-binding cassette domain II of the
excision repair protein UvrA. Nucleotide excision
repair in eubacteria is a process that repairs DNA
damage by the removal of a 12-13-mer oligonucleotide
containing the lesion. Recognition and cleavage of the
damaged DNA is a multistep ATP-dependent reaction that
requires the UvrA, UvrB, and UvrC proteins. Both UvrA
and UvrB are ATPases, with UvrA having two ATP binding
sites, which have the characteristic signature of the
family of ABC proteins and UvrB having one ATP binding
site that is structurally related to that of helicases.
Length = 261
Score = 28.7 bits (65), Expect = 4.5
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 136 VVITGPSGVGKGTLI 150
+TG SG GK +LI
Sbjct: 24 TCVTGVSGSGKSSLI 38
>gnl|CDD|213188 cd03221, ABCF_EF-3, ATP-binding cassette domain of elongation
factor 3, subfamily F. 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 = 28.2 bits (64), Expect = 4.5
Identities = 7/21 (33%), Positives = 13/21 (61%)
Query: 136 VVITGPSGVGKGTLISMLMKE 156
+ + G +G GK TL+ ++ E
Sbjct: 29 IGLVGRNGAGKSTLLKLIAGE 49
>gnl|CDD|233369 TIGR01351, adk, adenylate kinase. Adenylate kinase (EC 2.7.4.3)
converts ATP + AMP to ADP + ADP, that is, uses ATP as a
phosphate donor for AMP. Most members of this family are
known or believed to be adenylate kinase. However, some
members accept other nucleotide triphosphates as donors,
may be unable to use ATP, and may fail to complement
adenylate kinase mutants. An example of a
nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10)
is a GTP:AMP phosphotransferase. This family is
designated subfamily rather than equivalog for this
reason [Purines, pyrimidines, nucleosides, and
nucleotides, Nucleotide and nucleoside
interconversions].
Length = 210
Score = 28.7 bits (65), Expect = 4.6
Identities = 8/22 (36%), Positives = 14/22 (63%)
Query: 136 VVITGPSGVGKGTLISMLMKEF 157
+V+ GP G GKGT + +++
Sbjct: 2 LVLLGPPGSGKGTQAKRIAEKY 23
>gnl|CDD|226970 COG4619, COG4619, ABC-type uncharacterized transport system, ATPase
component [General function prediction only].
Length = 223
Score = 28.7 bits (64), Expect = 4.6
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 136 VVITGPSGVGKGTLISML 153
+ ITGPSG GK TL+ ++
Sbjct: 32 IAITGPSGCGKSTLLKIV 49
>gnl|CDD|235666 PRK06002, fliI, flagellum-specific ATP synthase; Validated.
Length = 450
Score = 29.2 bits (66), Expect = 4.6
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 142 SGVGKGTLISMLMK 155
SGVGK TL++ML +
Sbjct: 174 SGVGKSTLLAMLAR 187
>gnl|CDD|215595 PLN03130, PLN03130, ABC transporter C family member; Provisional.
Length = 1622
Score = 29.3 bits (66), Expect = 4.7
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 4/39 (10%)
Query: 131 NVEKP----VVITGPSGVGKGTLISMLMKEFPSMFGFSV 165
N++ P V I G +G GK +LIS ++ E P SV
Sbjct: 637 NLDVPVGSLVAIVGSTGEGKTSLISAMLGELPPRSDASV 675
>gnl|CDD|213192 cd03225, ABC_cobalt_CbiO_domain1, First domain of the ATP-binding
cassette component of cobalt transport system. Domain I
of the ABC component of a cobalt transport family found
in bacteria, archaea, and eukaryota. The transition
metal cobalt is an essential component of many enzymes
and must be transported into cells in appropriate
amounts when needed. This ABC transport system of the
CbiMNQO family is involved in cobalt transport in
association with the cobalamin (vitamin B12)
biosynthetic pathways. Most of cobalt (Cbi) transport
systems possess a separate CbiN component, the
cobalt-binding periplasmic protein, and they are encoded
by the conserved gene cluster cbiMNQO. Both the CbiM and
CbiQ proteins are integral cytoplasmic membrane
proteins, and the CbiO protein has the linker peptide
and the Walker A and B motifs commonly found in the
ATPase components of the ABC-type transport systems.
Length = 211
Score = 28.6 bits (65), Expect = 4.7
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 136 VVITGPSGVGKGTLISMLM 154
V+I GP+G GK TL+ +L
Sbjct: 30 VLIVGPNGSGKSTLLRLLN 48
>gnl|CDD|226617 COG4133, CcmA, ABC-type transport system involved in cytochrome c
biogenesis, ATPase component [Posttranslational
modification, protein turnover, chaperones].
Length = 209
Score = 28.4 bits (64), Expect = 4.7
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 136 VVITGPSGVGKGTLISML 153
+ ITGP+G GK TL+ +L
Sbjct: 31 LQITGPNGAGKTTLLRIL 48
>gnl|CDD|213221 cd03254, ABCC_Glucan_exporter_like, ATP-binding cassette domain of
glucan transporter and related proteins, subfamily C.
Glucan exporter ATP-binding protein. In A. tumefaciens
cyclic beta-1, 2-glucan must be transported into the
periplasmic space to exert its action as a virulence
factor. This subfamily belongs to the MRP-like family
and is involved in drug, peptide, and lipid export. The
MRP-like family, similar to all ABC proteins, have a
common four-domain core structure constituted by two
membrane-spanning domains each composed of six
transmembrane (TM) helices and two nucleotide-binding
domains (NBD). 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 = 229
Score = 28.7 bits (65), Expect = 4.8
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 136 VVITGPSGVGKGTLISMLMK 155
V I GP+G GK TLI++LM+
Sbjct: 32 VAIVGPTGAGKTTLINLLMR 51
>gnl|CDD|178435 PLN02842, PLN02842, nucleotide kinase.
Length = 505
Score = 29.1 bits (65), Expect = 4.8
Identities = 12/31 (38%), Positives = 20/31 (64%)
Query: 253 PPSMEELEERLRARGTETEDQILKRLRNAKE 283
PP EE++ RL R +TE+++ RL+ K+
Sbjct: 137 PPESEEIKARLITRPDDTEEKVKARLQIYKK 167
>gnl|CDD|237894 PRK15064, PRK15064, ABC transporter ATP-binding protein;
Provisional.
Length = 530
Score = 29.1 bits (66), Expect = 4.9
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 136 VVITGPSGVGKGTLISMLMKEFPSMFG 162
+ I G +GVGK TL+ L+ E G
Sbjct: 348 LAIIGENGVGKTTLLRTLVGELEPDSG 374
>gnl|CDD|213180 cd03213, ABCG_EPDR, Eye pigment and drug resistance transporter
subfamily G of the ATP-binding cassette superfamily.
ABCG transporters are involved in eye pigment (EP)
precursor transport, regulation of lipid-trafficking
mechanisms, and pleiotropic drug resistance (DR). DR is
a well-described phenomenon occurring in fungi and
shares several similarities with processes in bacteria
and higher eukaryotes. Compared to other members of the
ABC transporter subfamilies, the ABCG transporter family
is composed of proteins that have an ATP-binding
cassette domain at the N-terminus and a TM
(transmembrane) domain at the C-terminus.
Length = 194
Score = 28.3 bits (64), Expect = 4.9
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 136 VVITGPSGVGKGTLISMLM 154
I GPSG GK TL++ L
Sbjct: 38 TAIMGPSGAGKSTLLNALA 56
>gnl|CDD|182980 PRK11124, artP, arginine transporter ATP-binding subunit;
Provisional.
Length = 242
Score = 28.8 bits (65), Expect = 5.0
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 136 VVITGPSGVGKGTLISML 153
+V+ GPSG GK +L+ +L
Sbjct: 31 LVLLGPSGAGKSSLLRVL 48
>gnl|CDD|213268 cd03301, ABC_MalK_N, The N-terminal ATPase domain of the maltose
transporter, MalK. ATP binding cassette (ABC) proteins
function from bacteria to human, mediating the
translocation of substances into and out of cells or
organelles. ABC transporters contain two
transmembrane-spanning domains (TMDs) or subunits and
two nucleotide binding domains (NBDs) or subunits that
couple transport to the hydrolysis of ATP. In the
maltose transport system, the periplasmic maltose
binding protein (MBP) stimulates the ATPase activity of
the membrane-associated transporter, which consists of
two transmembrane subunits, MalF and MalG, and two
copies of the ATP binding subunit, MalK, and becomes
tightly bound to the transporter in the catalytic
transition state, ensuring that maltose is passed to the
transporter as ATP is hydrolyzed.
Length = 213
Score = 28.4 bits (64), Expect = 5.0
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 136 VVITGPSGVGKGTLISML 153
VV+ GPSG GK T + M+
Sbjct: 29 VVLLGPSGCGKTTTLRMI 46
>gnl|CDD|213196 cd03229, ABC_Class3, ATP-binding cassette domain of the binding
protein-dependent transport systems. This class is
comprised of all BPD (Binding Protein Dependent) systems
that are largely represented in archaea and eubacteria
and are primarily involved in scavenging solutes from
the environment. 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 = 178
Score = 28.3 bits (64), Expect = 5.0
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 136 VVITGPSGVGKGTLISMLMK 155
V + GPSG GK TL+ +
Sbjct: 29 VALLGPSGSGKSTLLRCIAG 48
>gnl|CDD|223256 COG0178, UvrA, Excinuclease ATPase subunit [DNA replication,
recombination, and repair].
Length = 935
Score = 29.1 bits (66), Expect = 5.1
Identities = 12/23 (52%), Positives = 15/23 (65%), Gaps = 4/23 (17%)
Query: 131 NVEKP----VVITGPSGVGKGTL 149
++E P VVITG SG GK +L
Sbjct: 20 DLEIPRNKLVVITGLSGSGKSSL 42
Score = 29.1 bits (66), Expect = 5.2
Identities = 12/25 (48%), Positives = 15/25 (60%), Gaps = 4/25 (16%)
Query: 131 NVEKP----VVITGPSGVGKGTLIS 151
+VE P +TG SG GK TLI+
Sbjct: 621 DVEIPLGVFTCVTGVSGSGKSTLIN 645
>gnl|CDD|237039 PRK12288, PRK12288, GTPase RsgA; Reviewed.
Length = 347
Score = 28.7 bits (65), Expect = 5.2
Identities = 21/55 (38%), Positives = 26/55 (47%), Gaps = 15/55 (27%)
Query: 137 VITGPSGVGKGTLISMLMKEFPSMFGFSVS-------HTTRAPRAMEKDGVHYHF 184
+ G SGVGK +LI+ L+ E + G VS HTT A R YHF
Sbjct: 209 IFVGQSGVGKSSLINALLPEAEILVG-DVSDNSGLGQHTTTAARL-------YHF 255
>gnl|CDD|236320 PRK08644, PRK08644, thiamine biosynthesis protein ThiF;
Provisional.
Length = 212
Score = 28.3 bits (64), Expect = 5.2
Identities = 13/32 (40%), Positives = 19/32 (59%), Gaps = 3/32 (9%)
Query: 251 ICPPSMEELEERLRARGTETEDQILKRLRNAK 282
PSMEE E L +R T ++L++L+ AK
Sbjct: 2 GEIPSMEEFEAMLASRHTP---KLLEKLKKAK 30
>gnl|CDD|211835 TIGR03548, mutarot_permut, cyclically-permuted mutarotase family
protein. Members of this protein family show
essentially full-length homology, cyclically permuted,
to YjhT from Escherichia coli. YjhT was shown to act as
a mutarotase for sialic acid, and by this ability to be
able to act as a virulence factor. Members of the YjhT
family (TIGR03547) and this cyclically-permuted family
have multiple repeats of the beta-propeller-forming
Kelch repeat.
Length = 323
Score = 28.6 bits (64), Expect = 5.3
Identities = 18/60 (30%), Positives = 25/60 (41%), Gaps = 6/60 (10%)
Query: 36 GDKTYVIAGSDESI---GVKIYDRSTGNWLIPAVRGI--EPRPCKGHSAVLLNEDRILVI 90
++ YV G D G K Y TG W A EP G +++ +NE +L I
Sbjct: 171 QNELYVFGGGDNIAYTDGYK-YSPKTGTWEKVADPLSDGEPISLLGAASIAINESLLLCI 229
>gnl|CDD|224041 COG1116, TauB, ABC-type nitrate/sulfonate/bicarbonate transport
system, ATPase component [Inorganic ion transport and
metabolism].
Length = 248
Score = 28.7 bits (65), Expect = 5.4
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 136 VVITGPSGVGKGTLISML 153
V I GPSG GK TL+ ++
Sbjct: 32 VAILGPSGCGKSTLLRLI 49
>gnl|CDD|213190 cd03223, ABCD_peroxisomal_ALDP, ATP-binding cassette domain of
peroxisomal transporter, subfamily D. Peroxisomal
ATP-binding cassette transporter (Pat) is involved in
the import of very long-chain fatty acids (VLCFA) into
the peroxisome. The peroxisomal membrane forms a
permeability barrier for a wide variety of metabolites
required for and formed during fatty acid
beta-oxidation. To communicate with the cytoplasm and
mitochondria, peroxisomes need dedicated proteins to
transport such hydrophilic molecules across their
membranes. X-linked adrenoleukodystrophy (X-ALD) is
caused by mutations in the ALD gene, which encodes ALDP
(adrenoleukodystrophy protein ), a peroxisomal integral
membrane protein that is a member of the ATP-binding
cassette (ABC) transporter protein family. The disease
is characterized by a striking and unpredictable
variation in phenotypic expression. Phenotypes include
the rapidly progressive childhood cerebral form (CCALD),
the milder adult form, adrenomyeloneuropathy (AMN), and
variants without neurologic involvement (i.e.
asymptomatic).
Length = 166
Score = 28.3 bits (64), Expect = 5.4
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 136 VVITGPSGVGKGTLISML 153
++ITGPSG GK +L L
Sbjct: 30 LLITGPSGTGKSSLFRAL 47
>gnl|CDD|224410 COG1493, HprK, Serine kinase of the HPr protein, regulates
carbohydrate metabolism [Signal transduction
mechanisms].
Length = 308
Score = 28.8 bits (65), Expect = 5.7
Identities = 10/14 (71%), Positives = 11/14 (78%)
Query: 136 VVITGPSGVGKGTL 149
V+ITGPSG GK L
Sbjct: 148 VLITGPSGAGKSEL 161
>gnl|CDD|140267 PTZ00240, PTZ00240, 60S ribosomal protein P0; Provisional.
Length = 323
Score = 28.8 bits (64), Expect = 5.9
Identities = 21/76 (27%), Positives = 29/76 (38%), Gaps = 21/76 (27%)
Query: 148 TLISMLMKEFPSMFGFSVSHTTRAPRAMEKDGVHYHFTERSVMEKAIKDGKFLEFASVHG 207
T+ ML+ F ++ SV+ Y F E +GK L A++ G
Sbjct: 243 TIGPMLVDAFKNLLAVSVA-------------TSYEFEEH--------NGKELREAALEG 281
Query: 208 NLYGTSVEAVEAVADA 223
L G A EA A A
Sbjct: 282 LLGGGGSAAAEAAAAA 297
>gnl|CDD|223203 COG0125, Tmk, Thymidylate kinase [Nucleotide transport and
metabolism].
Length = 208
Score = 28.0 bits (63), Expect = 6.2
Identities = 13/38 (34%), Positives = 16/38 (42%), Gaps = 2/38 (5%)
Query: 136 VVITGPSGVGKGTLISMLMKEFPSMFGFSVSHTTRAPR 173
+VI G G GK T +L + G V TR P
Sbjct: 6 IVIEGIDGAGKTTQAELLKERLEER-GIKV-VLTREPG 41
>gnl|CDD|224677 COG1763, MobB, Molybdopterin-guanine dinucleotide biosynthesis
protein [Coenzyme metabolism].
Length = 161
Score = 27.7 bits (62), Expect = 6.4
Identities = 11/39 (28%), Positives = 16/39 (41%), Gaps = 4/39 (10%)
Query: 138 ITGPSGVGKGTLISMLMKEFPSMFGFSVS---HTTRAPR 173
I G GK TLI L+++ G+ V+ H
Sbjct: 7 IVGYKNSGKTTLIEKLVRKL-KARGYRVATVKHAHHDFD 44
>gnl|CDD|236870 PRK11174, PRK11174, cysteine/glutathione ABC transporter
membrane/ATP-binding component; Reviewed.
Length = 588
Score = 28.7 bits (65), Expect = 6.4
Identities = 8/18 (44%), Positives = 13/18 (72%)
Query: 136 VVITGPSGVGKGTLISML 153
+ + GPSG GK +L++ L
Sbjct: 379 IALVGPSGAGKTSLLNAL 396
>gnl|CDD|181906 PRK09493, glnQ, glutamine ABC transporter ATP-binding protein;
Reviewed.
Length = 240
Score = 28.1 bits (63), Expect = 6.5
Identities = 11/15 (73%), Positives = 12/15 (80%)
Query: 136 VVITGPSGVGKGTLI 150
VVI GPSG GK TL+
Sbjct: 30 VVIIGPSGSGKSTLL 44
>gnl|CDD|227320 COG4987, CydC, ABC-type transport system involved in cytochrome bd
biosynthesis, fused ATPase and permease components
[Energy production and conversion / Posttranslational
modification, protein turnover, chaperones].
Length = 573
Score = 28.4 bits (64), Expect = 6.7
Identities = 11/27 (40%), Positives = 14/27 (51%)
Query: 136 VVITGPSGVGKGTLISMLMKEFPSMFG 162
V I G SG GK TL+ +L + G
Sbjct: 367 VAILGRSGSGKSTLLQLLAGAWDPQQG 393
>gnl|CDD|226646 COG4178, COG4178, ABC-type uncharacterized transport system,
permease and ATPase components [General function
prediction only].
Length = 604
Score = 28.8 bits (65), Expect = 6.8
Identities = 8/15 (53%), Positives = 12/15 (80%)
Query: 136 VVITGPSGVGKGTLI 150
++ITG SG GK +L+
Sbjct: 422 LLITGESGAGKTSLL 436
>gnl|CDD|226620 COG4136, COG4136, ABC-type uncharacterized transport system, ATPase
component [General function prediction only].
Length = 213
Score = 27.9 bits (62), Expect = 7.1
Identities = 11/29 (37%), Positives = 16/29 (55%)
Query: 136 VVITGPSGVGKGTLISMLMKEFPSMFGFS 164
V + GPSG GK TL+S ++ F +
Sbjct: 31 VTLMGPSGCGKSTLLSWMIGALAGQFSCT 59
>gnl|CDD|182732 PRK10789, PRK10789, putative multidrug transporter
membrane\ATP-binding components; Provisional.
Length = 569
Score = 28.5 bits (64), Expect = 7.2
Identities = 10/20 (50%), Positives = 15/20 (75%)
Query: 138 ITGPSGVGKGTLISMLMKEF 157
I GP+G GK TL+S++ + F
Sbjct: 346 ICGPTGSGKSTLLSLIQRHF 365
>gnl|CDD|218719 pfam05729, NACHT, NACHT domain. This NTPase domain is found in
apoptosis proteins as well as those involved in MHC
transcription activation. This family is closely related
to pfam00931.
Length = 165
Score = 27.7 bits (62), Expect = 7.2
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 135 PVVITGPSGVGKGTLISMLM 154
V++ G +G GK TL+ +
Sbjct: 2 TVILQGEAGSGKTTLLQKIA 21
>gnl|CDD|238139 cd00227, CPT, Chloramphenicol (Cm) phosphotransferase (CPT).
Cm-inactivating enzyme; modifies the primary (C-3)
hydroxyl of the antibiotic. Related structurally to
shikimate kinase II.
Length = 175
Score = 27.9 bits (62), Expect = 7.4
Identities = 29/98 (29%), Positives = 37/98 (37%), Gaps = 11/98 (11%)
Query: 196 DGKFLEFASVHGNL-YGTSVEAVEAVADAGKRCILDIDVQGARSV------RASPLDAIF 248
DG L G EAV A+A AG I D DV R+ LD ++
Sbjct: 56 DGDGGVSPGPEFRLLEGAWYEAVAAMARAGANVIAD-DVFLGRAALQDCWRSFVGLDVLW 114
Query: 249 IFI-CPPSMEELEERLRARGTETEDQILKRLRNAKEEI 285
+ + CP E E R ARG Q K+ R +
Sbjct: 115 VGVRCP--GEVAEGRETARGDRVPGQARKQARVVHAGV 150
>gnl|CDD|217435 pfam03225, Viral_Hsp90, Viral heat shock protein Hsp90 homologue.
Length = 511
Score = 28.5 bits (64), Expect = 7.4
Identities = 20/87 (22%), Positives = 37/87 (42%), Gaps = 19/87 (21%)
Query: 252 CPPSMEELEERLRARGTETEDQILK--RLRNA------KEEIKQGKSSG----------- 292
C +ME+++E L+ + ++ R+ N+ +EI++G G
Sbjct: 131 CKYTMEDIKEFLKGYPGADDTRLETLYRVCNSLGRLIDLKEIERGVILGFDIDTSEDVPA 190
Query: 293 IFDHILYNDKLEECYENLKKHLGLDGS 319
+ + + ND EC KK+L L S
Sbjct: 191 VGEGLSSNDLFLECLNLFKKYLSLSSS 217
>gnl|CDD|223616 COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ
chaperones [Posttranslational modification, protein
turnover, chaperones].
Length = 786
Score = 28.4 bits (64), Expect = 7.5
Identities = 25/113 (22%), Positives = 43/113 (38%), Gaps = 28/113 (24%)
Query: 192 KAIKDGKFLEFASVHGNLYGTSVEAVEAVADAGKRCILD-------IDV--QGARSVRAS 242
+ +K+ ++ HG + EA+ A R I D ID+ + VR
Sbjct: 343 RGLKE-RYEAH---HGVRI--TDEALVAAVTLSDRYIPDRFLPDKAIDLLDEAGARVRLE 396
Query: 243 PLDAIFIFICPPSMEELEERLRARGTETE------DQILKRLRNAKEEIKQGK 289
P ++ELE L E E D+ K+L + ++K+G+
Sbjct: 397 IDK-------PEELDELERELAQLEIEKEALEREQDEKEKKLIDEIIKLKEGR 442
>gnl|CDD|224715 COG1802, GntR, Transcriptional regulators [Transcription].
Length = 230
Score = 28.1 bits (63), Expect = 7.6
Identities = 20/113 (17%), Positives = 32/113 (28%), Gaps = 25/113 (22%)
Query: 249 IFICPPSMEELEERLRARGT-ETE----------DQILKRLRNAKEEIKQGKSSGI---- 293
F+ P S+ E E R E ++ L L EE+++ ++G
Sbjct: 77 AFVAPLSLAEAREIFEVRELLEGAAARLAAARATEEDLAELEAILEELRKAIAAGDDAFL 136
Query: 294 -----FDHILY----NDKLEECYENLKKHLGLDGSIATNHQTSPKGIDLPADH 337
F L N L E L +A + +H
Sbjct: 137 ELNRAFHLALAEAAGNPYLLEIIRRLLLARRP-LRLALYRSAEERARQAIDEH 188
>gnl|CDD|216619 pfam01637, Arch_ATPase, Archaeal ATPase. This family contain a
conserved P-loop motif that is involved in binding ATP.
This family is almost exclusively found in
archaebacteria and particularly in Methanococcus
jannaschii that encodes sixteen members of this family.
Length = 223
Score = 28.0 bits (63), Expect = 7.7
Identities = 25/135 (18%), Positives = 47/135 (34%), Gaps = 19/135 (14%)
Query: 135 PVVITGPSGVGKGTLISMLMKEFPSMFGFSV-----SHTTRAPRAMEKDGVHYHFTERSV 189
+V+ GP GK L+ ++E G+ V + + E
Sbjct: 22 IIVVYGPRRCGKTALLREFLEELRE-LGYRVIYYDPLRREFEEKLDRFE-------EAKR 73
Query: 190 MEKAIKDGKFLEFASVHGNLYGTSVEAV-EAVADAGKRCILDID-VQGARSVRASP--LD 245
+ +A+ D + L S+ + E + GK+ + ID VQ A + + +
Sbjct: 74 LAEALGD-ALPKIGIAKSKLAFLSLTLLFELLKRKGKKIAIIIDEVQYAIGLNGAESYVK 132
Query: 246 AIF-IFICPPSMEEL 259
+ + PP L
Sbjct: 133 LLLNLIDYPPKEYHL 147
>gnl|CDD|226166 COG3640, CooC, CO dehydrogenase maturation factor [Cell division
and chromosome partitioning].
Length = 255
Score = 28.0 bits (63), Expect = 7.9
Identities = 13/30 (43%), Positives = 20/30 (66%)
Query: 136 VVITGPSGVGKGTLISMLMKEFPSMFGFSV 165
+ ITG GVGK T+ ++L+K S G++V
Sbjct: 3 IAITGKGGVGKTTIAALLLKRLLSKGGYNV 32
>gnl|CDD|236442 PRK09270, PRK09270, nucleoside triphosphate hydrolase
domain-containing protein; Reviewed.
Length = 229
Score = 28.0 bits (63), Expect = 7.9
Identities = 12/28 (42%), Positives = 14/28 (50%), Gaps = 4/28 (14%)
Query: 242 SPLDAIF---IFICPPSMEELEERLRAR 266
L +F IF+ P E L ERL AR
Sbjct: 155 RRLAGLFDFTIFLDAP-AEVLRERLVAR 181
>gnl|CDD|237475 PRK13695, PRK13695, putative NTPase; Provisional.
Length = 174
Score = 27.6 bits (62), Expect = 7.9
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 136 VVITGPSGVGKGTLISMLMKE 156
+ ITGP GVGK TL+ + +
Sbjct: 3 IGITGPPGVGKTTLVLKIAEL 23
>gnl|CDD|225597 COG3055, COG3055, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 381
Score = 28.1 bits (63), Expect = 8.2
Identities = 22/76 (28%), Positives = 28/76 (36%), Gaps = 10/76 (13%)
Query: 22 FSLKSRDCETTTVIGDKTYVI--AGSDESIGVKI------YDRSTGNWLIPAVRGIEPRP 73
F +R+ VIG K YV G S ++ YD ST +W R P
Sbjct: 78 FPGGARNQAVAAVIGGKLYVFGGYGKSVSSSPQVFNDAYRYDPSTNSWHKLDTR--SPTG 135
Query: 74 CKGHSAVLLNEDRILV 89
G S LN +I
Sbjct: 136 LVGASTFSLNGTKIYF 151
>gnl|CDD|237870 PRK14964, PRK14964, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 491
Score = 28.2 bits (63), Expect = 8.3
Identities = 9/27 (33%), Positives = 17/27 (62%), Gaps = 3/27 (11%)
Query: 129 IGNVEKPVVITGPSGVGKGT---LISM 152
+ + + +++ G SGVGK T +IS+
Sbjct: 31 LNKIPQSILLVGASGVGKTTCARIISL 57
>gnl|CDD|213198 cd03231, ABC_CcmA_heme_exporter, Cytochrome c biogenesis
ATP-binding export protein. CcmA, the ATP-binding
component of the bacterial CcmAB transporter. The CCM
family is involved in bacterial cytochrome c biogenesis.
Cytochrome c maturation in E. coli requires the ccm
operon, which encodes eight membrane proteins
(CcmABCDEFGH). CcmE is a periplasmic heme chaperon that
binds heme covalently and transfers it onto
apocytochrome c in the presence of CcmF, CcmG, and CcmH.
The CcmAB proteins represent an ABC transporter and the
CcmCD proteins participate in heme transfer to CcmE.
Length = 201
Score = 27.8 bits (62), Expect = 8.6
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 136 VVITGPSGVGKGTLISML 153
+ +TGP+G GK TL+ +L
Sbjct: 29 LQVTGPNGSGKTTLLRIL 46
>gnl|CDD|235492 PRK05480, PRK05480, uridine/cytidine kinase; Provisional.
Length = 209
Score = 27.8 bits (63), Expect = 8.8
Identities = 11/29 (37%), Positives = 17/29 (58%), Gaps = 2/29 (6%)
Query: 133 EKPVVI--TGPSGVGKGTLISMLMKEFPS 159
+KP++I G SG GK T+ S + +E
Sbjct: 4 KKPIIIGIAGGSGSGKTTVASTIYEELGD 32
>gnl|CDD|177066 CHL00144, odpB, pyruvate dehydrogenase E1 component beta subunit;
Validated.
Length = 327
Score = 28.2 bits (63), Expect = 8.8
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 130 GNVEKPVVITGPSGVGK 146
GN P+VI GP GVG+
Sbjct: 107 GNFTIPIVIRGPGGVGR 123
>gnl|CDD|184214 PRK13657, PRK13657, cyclic beta-1,2-glucan ABC transporter;
Provisional.
Length = 588
Score = 28.4 bits (64), Expect = 9.0
Identities = 12/22 (54%), Positives = 16/22 (72%)
Query: 136 VVITGPSGVGKGTLISMLMKEF 157
V I GP+G GK TLI++L + F
Sbjct: 364 VAIVGPTGAGKSTLINLLQRVF 385
>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC,
primarily archaeal type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. It is found
in a single copy and is homodimeric in prokaryotes, but
six paralogs (excluded from this family) are found in
eukarotes, where SMC proteins are heterodimeric. This
family represents the SMC protein of archaea and a few
bacteria (Aquifex, Synechocystis, etc); the SMC of other
bacteria is described by TIGR02168. The N- and
C-terminal domains of this protein are well conserved,
but the central hinge region is skewed in composition
and highly divergent [Cellular processes, Cell division,
DNA metabolism, Chromosome-associated proteins].
Length = 1164
Score = 28.1 bits (63), Expect = 9.5
Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 4/37 (10%)
Query: 137 VITGPSGVGKGTLISMLMKEFPSMFGFSVSHTTRAPR 173
VI+GP+G GK + ++ F G S S RA R
Sbjct: 27 VISGPNGSGKSNIGDAIL--F--ALGLSSSKAMRAER 59
>gnl|CDD|227519 COG5192, BMS1, GTP-binding protein required for 40S ribosome
biogenesis [Translation, ribosomal structure and
biogenesis].
Length = 1077
Score = 28.2 bits (62), Expect = 9.5
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 136 VVITGPSGVGKGTLISMLMKEF 157
V + GP G GK TLI L++ F
Sbjct: 72 VAVVGPPGTGKSTLIRSLVRRF 93
>gnl|CDD|225265 COG2401, COG2401, ABC-type ATPase fused to a predicted
acetyltransferase domain [General function prediction
only].
Length = 593
Score = 28.3 bits (63), Expect = 9.7
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 136 VVITGPSGVGKGTLISMLMKE 156
V + G SG GK TL+ M++
Sbjct: 412 VAVVGQSGAGKTTLLRMILGA 432
>gnl|CDD|146355 pfam03677, UPF0137, Uncharacterized protein family (UPF0137). This
family includes GP6-D a virulence plasmid encoded
protein.
Length = 244
Score = 27.9 bits (62), Expect = 9.9
Identities = 12/39 (30%), Positives = 14/39 (35%), Gaps = 1/39 (2%)
Query: 130 GNVEKPV-VITGPSGVGKGTLISMLMKEFPSMFGFSVSH 167
G+ EK VI G I +L KE P V
Sbjct: 157 GSQEKKEDVIRNYRGESNTEAIDILRKELPLSRNKDVET 195
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.316 0.135 0.389
Gapped
Lambda K H
0.267 0.0534 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 20,232,720
Number of extensions: 1983058
Number of successful extensions: 3214
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3192
Number of HSP's successfully gapped: 233
Length of query: 399
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 300
Effective length of database: 6,546,556
Effective search space: 1963966800
Effective search space used: 1963966800
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: 60 (27.3 bits)