RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16778
(433 letters)
>gnl|CDD|225804 COG3265, GntK, Gluconate kinase [Carbohydrate transport and
metabolism].
Length = 161
Score = 220 bits (563), Expect = 5e-71
Identities = 82/152 (53%), Positives = 106/152 (69%), Gaps = 3/152 (1%)
Query: 44 MGVSGSGKSTIGESLATRLGVKFIDGDHLHPQSNIDKMSAKQPLNDEDRRPWLNNINRII 103
MGVSGSGKST+G +LA RLG KFIDGD LHP +NI+KMSA PLND+DR PWL +
Sbjct: 1 MGVSGSGKSTVGSALAERLGAKFIDGDDLHPPANIEKMSAGIPLNDDDRWPWLEALGDAA 60
Query: 104 HQLNVDNLTGVLVCSALRRNYRDIIRNNN-RVVFIYLKAEFGVILSRLQKRAEHFMPADL 162
L N V+ CSAL+R+YRD++R N + F+YL +F +IL R++ R HFMPA L
Sbjct: 61 ASLAQKNKHVVIACSALKRSYRDLLREANPGLRFVYLDGDFDLILERMKARKGHFMPASL 120
Query: 163 LESQFQTLEEPDPLVEPDVRTVSVNEPLEGIV 194
L+SQF TLEEP + DV T+ +++P E +V
Sbjct: 121 LDSQFATLEEPGA--DEDVLTIDIDQPPEEVV 150
>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 = 206 bits (527), Expect = 1e-65
Identities = 80/151 (52%), Positives = 100/151 (66%), Gaps = 5/151 (3%)
Query: 40 VFVIMGVSGSGKSTIGESLATRLGVKFIDGDHLHPQSNIDKMSAKQPLNDEDRRPWLNNI 99
+ V+MGVSGSGKST+G++LA RLG FIDGD LHP +NI KM+A PLNDEDR PWL +
Sbjct: 1 IIVVMGVSGSGKSTVGKALAERLGAPFIDGDDLHPPANIAKMAAGIPLNDEDRWPWLQAL 60
Query: 100 NR-IIHQLNVDNLTGVLVCSALRRNYRDIIR---NNNRVVFIYLKAEFGVILSRLQKRAE 155
++ +L V+ CSAL+R YRDI+R N RV F++L V+ RL R
Sbjct: 61 TDALLAKLASAGEGVVVACSALKRIYRDILRGGAANPRVRFVHLDGPREVLAERLAARKG 120
Query: 156 HFMPADLLESQFQTLEEPDPLVEPDVRTVSV 186
HFMPADLL+SQF+TLE P E DV + V
Sbjct: 121 HFMPADLLDSQFETLEPPGE-DEEDVIVIDV 150
>gnl|CDD|233355 TIGR01313, therm_gnt_kin, carbohydrate kinase, thermoresistant
glucokinase family. This model represents a subfamily
of proteins that includes thermoresistant and
thermosensitve isozymes of gluconate kinase
(gluconokinase) in E. coli and other related proteins;
members of this family are often named by similarity to
the thermostable isozyme. These proteins show homology
to shikimate kinases and adenylate kinases but not to
gluconate kinases from the FGGY family of carbohydrate
kinases.
Length = 163
Score = 205 bits (523), Expect = 5e-65
Identities = 85/157 (54%), Positives = 107/157 (68%), Gaps = 2/157 (1%)
Query: 41 FVIMGVSGSGKSTIGESLATRLGVKFIDGDHLHPQSNIDKMSAKQPLNDEDRRPWLNNIN 100
FV+MGV+GSGKSTI +LA RLG KFI+GD LHP +NI+KMSA PLND+DR PWL N+N
Sbjct: 1 FVLMGVAGSGKSTIASALAHRLGAKFIEGDDLHPAANIEKMSAGIPLNDDDRWPWLQNLN 60
Query: 101 RIIHQLNVDNLTGVLVCSALRRNYRDIIRN-NNRVVFIYLKAEFGVILSRLQKRAEHFMP 159
N G++ CSAL+R+YRDI+R + FIYL + VIL R++ R HFM
Sbjct: 61 DASTAAAAKNKVGIITCSALKRHYRDILREAEPNLHFIYLSGDKDVILERMKARKGHFMK 120
Query: 160 ADLLESQFQTLEEPDPLVEPDVRTVSVNEPLEGIVSK 196
AD+LESQF LEEP E DV V +++PLEG+
Sbjct: 121 ADMLESQFAALEEPL-ADETDVLRVDIDQPLEGVEED 156
>gnl|CDD|236926 PRK11545, gntK, gluconate kinase 1; Provisional.
Length = 163
Score = 181 bits (461), Expect = 1e-55
Identities = 73/155 (47%), Positives = 106/155 (68%), Gaps = 2/155 (1%)
Query: 44 MGVSGSGKSTIGESLATRLGVKFIDGDHLHPQSNIDKMSAKQPLNDEDRRPWLNNINRII 103
MGVSGSGKS + +A +L F+DGD LHP+ NI+KM++ +PLND+DR+PWL +N
Sbjct: 1 MGVSGSGKSAVASEVAHQLHAAFLDGDFLHPRRNIEKMASGEPLNDDDRKPWLQALNDAA 60
Query: 104 HQLNVDNLTGVLVCSALRRNYRDIIRNNNR-VVFIYLKAEFGVILSRLQKRAEHFMPADL 162
+ N ++VCSAL+++YRD++R N + FIYLK +F VI SRL+ R HF +
Sbjct: 61 FAMQRTNKVSLIVCSALKKHYRDLLREGNPNLSFIYLKGDFDVIESRLKARKGHFFKTQM 120
Query: 163 LESQFQTLEEPDPLVEPDVRTVSVNEPLEGIVSKS 197
L +QF+TL+EP E DV V +++PLEG+V+ +
Sbjct: 121 LVTQFETLQEPGA-DETDVLVVDIDQPLEGVVAST 154
>gnl|CDD|216281 pfam01070, FMN_dh, FMN-dependent dehydrogenase.
Length = 302
Score = 174 bits (445), Expect = 2e-51
Identities = 66/131 (50%), Positives = 89/131 (67%), Gaps = 1/131 (0%)
Query: 222 ALKVLRIRPRVMRDLSKRTLVTDALGHPVQIPIGVSPAAMQKLAHEEGEIGNAAAVGEVG 281
A +R+RPRV+RD+S R L T LG + +P G++P MQ LAH +GE+ A A G
Sbjct: 29 AFDRIRLRPRVLRDVSDRDLSTTLLGQRLSLPFGIAPTGMQGLAHPDGELALARAAAAAG 88
Query: 282 GIYILSTISTTSIEELAEKTPQTTKWFQLYIYRDREITKSLVQRAEKAGYKALVLTVDTN 341
++LST+S+TS+EE+A WFQLY+ +DRE+T+ L++RAE AGYKALVLTVDT
Sbjct: 89 IPFVLSTVSSTSLEEVAAAAGG-PLWFQLYVPKDRELTEDLLERAEAAGYKALVLTVDTP 147
Query: 342 VFGTRYADIRN 352
V G R D+R
Sbjct: 148 VLGNRERDLRT 158
Score = 94.1 bits (235), Expect = 2e-21
Identities = 33/59 (55%), Positives = 42/59 (71%), Gaps = 1/59 (1%)
Query: 362 IEELAEKTPQTTKWFQLYIYRDREITKSLVQRAEKAGYKALVLTVDTNVFGTRYADIRN 420
+EE+A WFQLY+ +DRE+T+ L++RAE AGYKALVLTVDT V G R D+R
Sbjct: 101 LEEVAAAAGGP-LWFQLYVPKDRELTEDLLERAEAAGYKALVLTVDTPVLGNRERDLRT 158
>gnl|CDD|239203 cd02809, alpha_hydroxyacid_oxid_FMN, Family of homologous
FMN-dependent alpha-hydroxyacid oxidizing enzymes. This
family occurs in both prokaryotes and eukaryotes.
Members of this family include flavocytochrome b2
(FCB2), glycolate oxidase (GOX), lactate monooxygenase
(LMO), mandelate dehydrogenase (MDH), and long chain
hydroxyacid oxidase (LCHAO). In green plants, glycolate
oxidase is one of the key enzymes in photorespiration
where it oxidizes glycolate to glyoxylate. LMO catalyzes
the oxidation of L-lactate to acetate and carbon
dioxide. MDH oxidizes (S)-mandelate to phenylglyoxalate.
It is an enzyme in the mandelate pathway that occurs in
several strains of Pseudomonas which converts
(R)-mandelate to benzoate.
Length = 299
Score = 170 bits (433), Expect = 9e-50
Identities = 70/141 (49%), Positives = 94/141 (66%), Gaps = 6/141 (4%)
Query: 222 ALKVLRIRPRVMRDLSKRTLVTDALGHPVQIPIGVSPAAMQKLAHEEGEIGNAAAVGEVG 281
A +R+RPRV+RD+SKR T LG + +P G++P +Q LAH +GE+ A A G
Sbjct: 35 AFDRIRLRPRVLRDVSKRDTSTTLLGQKLAMPFGIAPTGLQGLAHPDGELATARAAAAAG 94
Query: 282 GIYILSTISTTSIEELAEKTPQTTKWFQLYIYRDREITKSLVQRAEKAGYKALVLTVDTN 341
+ LST+STTS+EE+A P +WFQLY+ RDREIT+ L++RAE AGYKALVLTVDT
Sbjct: 95 IPFTLSTVSTTSLEEVAAAAP-GPRWFQLYVPRDREITEDLLRRAEAAGYKALVLTVDTP 153
Query: 342 VFGTRY-----ADIRNKFNMP 357
V G R A +R+++ P
Sbjct: 154 VLGRRLTWDDLAWLRSQWKGP 174
Score = 89.0 bits (222), Expect = 7e-20
Identities = 37/69 (53%), Positives = 48/69 (69%), Gaps = 6/69 (8%)
Query: 362 IEELAEKTPQTTKWFQLYIYRDREITKSLVQRAEKAGYKALVLTVDTNVFGTRY-----A 416
+EE+A P +WFQLY+ RDREIT+ L++RAE AGYKALVLTVDT V G R A
Sbjct: 107 LEEVAAAAP-GPRWFQLYVPRDREITEDLLRRAEAAGYKALVLTVDTPVLGRRLTWDDLA 165
Query: 417 DIRNKFNMP 425
+R+++ P
Sbjct: 166 WLRSQWKGP 174
>gnl|CDD|182097 PRK09825, idnK, D-gluconate kinase; Provisional.
Length = 176
Score = 165 bits (418), Expect = 3e-49
Identities = 77/157 (49%), Positives = 103/157 (65%), Gaps = 2/157 (1%)
Query: 41 FVIMGVSGSGKSTIGESLATRLGVKFIDGDHLHPQSNIDKMSAKQPLNDEDRRPWLNNIN 100
+++MGVSGSGKS IG +A KFIDGD LHP NIDKMS PL DEDR PWL +N
Sbjct: 6 YILMGVSGSGKSLIGSKIAALFSAKFIDGDDLHPAKNIDKMSQGIPLTDEDRLPWLERLN 65
Query: 101 RIIHQLNVDNLTGVLVCSALRRNYRDIIRNNN-RVVFIYLKAEFGVILSRLQKRAEHFMP 159
+ L N TG +VCS+L++ YRDI+R ++ V F++L ++ IL+R+Q+RA HFMP
Sbjct: 66 DASYSLYKKNETGFIVCSSLKKQYRDILRKSSPNVHFLWLDGDYETILARMQRRAGHFMP 125
Query: 160 ADLLESQFQTLEEPDPLVEPDVRTVSVNEPLEGIVSK 196
DLL+SQF LE P E D+ + VN +E + +
Sbjct: 126 PDLLQSQFDALERPCA-DEHDIARIDVNHDIENVTEQ 161
>gnl|CDD|240088 cd04737, LOX_like_FMN, L-Lactate oxidase (LOX) FMN-binding domain.
LOX is a member of the family of FMN-containing
alpha-hydroxyacid oxidases and catalyzes the oxidation
of l-lactate using molecular oxygen to generate pyruvate
and H2O2. This family occurs in both prokaryotes and
eukaryotes. Members of this family include
flavocytochrome b2 (FCB2), glycolate oxidase (GOX),
lactate monooxygenase (LMO), mandelate dehydrogenase
(MDH), and long chain hydroxyacid oxidase (LCHAO).
Length = 351
Score = 148 bits (376), Expect = 5e-41
Identities = 62/170 (36%), Positives = 99/170 (58%), Gaps = 1/170 (0%)
Query: 228 IRPRVMRDLSKRTLVTDALGHPVQIPIGVSPAAMQKLAHEEGEIGNAAAVGEVGGIYILS 287
I PRV++ + T+ LG ++ PI ++P A LAH GE+ A + EVG ++ +S
Sbjct: 49 IVPRVLQGVESPDTSTELLGIKLKTPIIMAPIAAHGLAHATGEVATARGMAEVGSLFSIS 108
Query: 288 TISTTSIEELAEKTPQTTKWFQLYIYRDREITKSLVQRAEKAGYKALVLTVDTNVFGTRY 347
T S TS+EE+A+ + KWFQLY+ +D +SL+ RA+ AG KA++LT D V G R
Sbjct: 109 TYSNTSLEEIAKASNGGPKWFQLYMSKDDGFNRSLLDRAKAAGAKAIILTADATVGGNRE 168
Query: 348 ADIRNKFNMPSHL-NIEELAEKTPQTTKWFQLYIYRDREITKSLVQRAEK 396
ADIRNKF P + N+ +E T + ++Y ++++ + ++ K
Sbjct: 169 ADIRNKFQFPFGMPNLNHFSEGTGKGKGISEIYAAAKQKLSPADIEFIAK 218
Score = 78.6 bits (194), Expect = 5e-16
Identities = 33/68 (48%), Positives = 46/68 (67%)
Query: 358 SHLNIEELAEKTPQTTKWFQLYIYRDREITKSLVQRAEKAGYKALVLTVDTNVFGTRYAD 417
S+ ++EE+A+ + KWFQLY+ +D +SL+ RA+ AG KA++LT D V G R AD
Sbjct: 111 SNTSLEEIAKASNGGPKWFQLYMSKDDGFNRSLLDRAKAAGAKAIILTADATVGGNREAD 170
Query: 418 IRNKFNMP 425
IRNKF P
Sbjct: 171 IRNKFQFP 178
>gnl|CDD|215294 PLN02535, PLN02535, glycolate oxidase.
Length = 364
Score = 140 bits (354), Expect = 8e-38
Identities = 64/144 (44%), Positives = 87/144 (60%), Gaps = 1/144 (0%)
Query: 222 ALKVLRIRPRVMRDLSKRTLVTDALGHPVQIPIGVSPAAMQKLAHEEGEIGNAAAVGEVG 281
A + + RPRV+ D+SK + T LG+ + PI ++P AM KLAH EGEI A A
Sbjct: 43 AFRRITFRPRVLVDVSKIDMSTTILGYTISAPIMIAPTAMHKLAHPEGEIATARAAAACN 102
Query: 282 GIYILSTISTTSIEELAEKTPQTTKWFQLYIYRDREITKSLVQRAEKAGYKALVLTVDTN 341
I +LS +++ ++EE+A ++ QLY+Y+ R+I LVQRAEK GYKA+VLT D
Sbjct: 103 TIMVLSFMASCTVEEVASSC-NAVRFLQLYVYKRRDIAAQLVQRAEKNGYKAIVLTADVP 161
Query: 342 VFGTRYADIRNKFNMPSHLNIEEL 365
G R ADI+NK P N E L
Sbjct: 162 RLGRREADIKNKMISPQLKNFEGL 185
Score = 74.9 bits (184), Expect = 9e-15
Identities = 32/64 (50%), Positives = 41/64 (64%), Gaps = 1/64 (1%)
Query: 362 IEELAEKTPQTTKWFQLYIYRDREITKSLVQRAEKAGYKALVLTVDTNVFGTRYADIRNK 421
+EE+A ++ QLY+Y+ R+I LVQRAEK GYKA+VLT D G R ADI+NK
Sbjct: 115 VEEVASSC-NAVRFLQLYVYKRRDIAAQLVQRAEKNGYKAIVLTADVPRLGRREADIKNK 173
Query: 422 FNMP 425
P
Sbjct: 174 MISP 177
>gnl|CDD|239448 cd03332, LMO_FMN, L-Lactate 2-monooxygenase (LMO) FMN-binding
domain. LMO is a FMN-containing enzyme that catalyzes
the conversion of L-lactate and oxygen to acetate,
carbon dioxide, and water. LMO is a member of the family
of alpha-hydroxy acid oxidases. It is thought to be a
homooctamer with two- and four- fold axes in the center
of the octamer.
Length = 383
Score = 140 bits (354), Expect = 2e-37
Identities = 53/134 (39%), Positives = 84/134 (62%)
Query: 222 ALKVLRIRPRVMRDLSKRTLVTDALGHPVQIPIGVSPAAMQKLAHEEGEIGNAAAVGEVG 281
A RI PR++R +++R L + G + P+ ++P +Q+L H + E+ A A E+G
Sbjct: 56 AFSRWRIVPRMLRGVTERDLSVELFGRTLAAPLLLAPIGVQELFHPDAELATARAAAELG 115
Query: 282 GIYILSTISTTSIEELAEKTPQTTKWFQLYIYRDREITKSLVQRAEKAGYKALVLTVDTN 341
YILST S++SIE++A +WFQLY +D ++T+SL++RAEKAGY+ LV+T+DT
Sbjct: 116 VPYILSTASSSSIEDVAAAAGDAPRWFQLYWPKDDDLTESLLRRAEKAGYRVLVVTLDTW 175
Query: 342 VFGTRYADIRNKFN 355
G R D+ +
Sbjct: 176 SLGWRPRDLDLGYL 189
Score = 81.2 bits (201), Expect = 8e-17
Identities = 27/62 (43%), Positives = 41/62 (66%)
Query: 362 IEELAEKTPQTTKWFQLYIYRDREITKSLVQRAEKAGYKALVLTVDTNVFGTRYADIRNK 421
IE++A +WFQLY +D ++T+SL++RAEKAGY+ LV+T+DT G R D+
Sbjct: 128 IEDVAAAAGDAPRWFQLYWPKDDDLTESLLRRAEKAGYRVLVVTLDTWSLGWRPRDLDLG 187
Query: 422 FN 423
+
Sbjct: 188 YL 189
>gnl|CDD|239238 cd02922, FCB2_FMN, Flavocytochrome b2 (FCB2) FMN-binding domain.
FCB2 (AKA L-lactate:cytochrome c oxidoreductase) is a
respiratory enzyme located in the intermembrane space of
fungal mitochondria which catalyzes the oxidation of
L-lactate to pyruvate. FCB2 also participates in a short
electron-transport chain involving cytochrome c and
cytochrome oxidase which ultimately directs the reducing
equivalents gained from L-lactate oxidation to oxygen,
yielding one molecule of ATP for every L-lactate
molecule consumed. FCB2 is composed of 2 domains: a
C-terminal flavin-binding domain, which includes the
active site for lacate oxidation, and an N-terminal
b2-cytochrome domain, required for efficient cytochrome
c reduction. FCB2 is a homotetramer and contains two
noncovalently bound cofactors, FMN and heme per subunit.
Length = 344
Score = 137 bits (348), Expect = 5e-37
Identities = 72/208 (34%), Positives = 107/208 (51%), Gaps = 25/208 (12%)
Query: 222 ALKVLRIRPRVMRDLSKRTLVTDALGHPVQIPIGVSPAAMQKLAHEEGEIGNAAAVGEVG 281
A + +R RPRV+RD+ K T LGH V +P +SPAA+ KLAH +GE+ A A G+ G
Sbjct: 35 AFQRIRFRPRVLRDVEKVDTSTTILGHKVSLPFFISPAALAKLAHPDGELNLARAAGKHG 94
Query: 282 GIYILSTISTTSIEELAE-KTPQTTKWFQLYIYRDREITKSLVQRAEKAGYKALVLTVDT 340
+ ++ST ++ S+EE+ + + P +FQLY+ +DR T+ L++RAEK G KA+ LTVD
Sbjct: 95 ILQMISTNASCSLEEIVDARPPDQPLFFQLYVNKDRTKTEELLKRAEKLGAKAIFLTVDA 154
Query: 341 NVFGTRYADIRNKFN--MPSHLNIEELAEKTPQTTKWFQLYIYRD---------REITKS 389
V G R D R K + ++ K + +I R+ TK
Sbjct: 155 PVLGKRERDERLKAEEAVSDGPAGKKTKAKGGGAGRAMSGFIDPTLTWDDIKWLRKHTK- 213
Query: 390 L------VQRAE------KAGYKALVLT 405
L VQ E + G +VL+
Sbjct: 214 LPIVLKGVQTVEDAVLAAEYGVDGIVLS 241
Score = 71.5 bits (176), Expect = 1e-13
Identities = 28/66 (42%), Positives = 41/66 (62%), Gaps = 1/66 (1%)
Query: 358 SHLNIEELAE-KTPQTTKWFQLYIYRDREITKSLVQRAEKAGYKALVLTVDTNVFGTRYA 416
+ ++EE+ + + P +FQLY+ +DR T+ L++RAEK G KA+ LTVD V G R
Sbjct: 103 ASCSLEEIVDARPPDQPLFFQLYVNKDRTKTEELLKRAEKLGAKAIFLTVDAPVLGKRER 162
Query: 417 DIRNKF 422
D R K
Sbjct: 163 DERLKA 168
>gnl|CDD|224223 COG1304, idi, Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and
related proteins) [Coenzyme transport and metabolism].
Length = 360
Score = 133 bits (338), Expect = 2e-35
Identities = 63/157 (40%), Positives = 83/157 (52%), Gaps = 13/157 (8%)
Query: 215 VDDFEQFALKVLRIRPRVMRDLSKRTLVTDALGHPVQIPIGVSPAAMQKLAHEEGEIGNA 274
+ FE AL RPRV+ ++ L T LG + PI ++P LAH EGE+ NA
Sbjct: 33 REAFEDIAL-----RPRVLPEVDDIDLSTTFLGQKLSAPIIIAPMTGGGLAHPEGEVINA 87
Query: 275 AAVGEVGGIYILSTISTTSIEELAEKTPQTTKWFQLYIYRDREITKSLVQRAEKAGYKAL 334
G +ILST+ + IEE+A P FQLY +DRE +LV RA AG K L
Sbjct: 88 KLAAAAGEPFILSTVGSQRIEEVAAAPP-----FQLYFSKDREFAPNLVDRAANAGAKQL 142
Query: 335 VLTVDTNVFGTRYADIRNKFNMPS---HLNIEELAEK 368
VLTVD+ V G R D N + P+ HLN+ + A +
Sbjct: 143 VLTVDSPVGGERERDAVNGISAPALAIHLNVLQEATQ 179
Score = 66.2 bits (162), Expect = 6e-12
Identities = 31/64 (48%), Positives = 36/64 (56%), Gaps = 5/64 (7%)
Query: 362 IEELAEKTPQTTKWFQLYIYRDREITKSLVQRAEKAGYKALVLTVDTNVFGTRYADIRNK 421
IEE+A P FQLY +DRE +LV RA AG K LVLTVD+ V G R D N
Sbjct: 107 IEEVAAAPP-----FQLYFSKDREFAPNLVDRAANAGAKQLVLTVDSPVGGERERDAVNG 161
Query: 422 FNMP 425
+ P
Sbjct: 162 ISAP 165
>gnl|CDD|166620 PLN02979, PLN02979, glycolate oxidase.
Length = 366
Score = 131 bits (331), Expect = 1e-34
Identities = 61/137 (44%), Positives = 93/137 (67%), Gaps = 1/137 (0%)
Query: 229 RPRVMRDLSKRTLVTDALGHPVQIPIGVSPAAMQKLAHEEGEIGNAAAVGEVGGIYILST 288
RPR++ D+SK + T LG + +PI V+P AMQK+AH +GE A A G I LS+
Sbjct: 47 RPRILIDVSKIDMTTTVLGFKISMPIMVAPTAMQKMAHPDGEYATARAASAAGTIMTLSS 106
Query: 289 ISTTSIEELAEKTPQTTKWFQLYIYRDREITKSLVQRAEKAGYKALVLTVDTNVFGTRYA 348
+T+S+EE+A P ++FQLY+Y++R + + LV+RAE+AG+KA+ LTVDT G R +
Sbjct: 107 WATSSVEEVASTGP-GIRFFQLYVYKNRNVVEQLVRRAERAGFKAIALTVDTPRLGRRES 165
Query: 349 DIRNKFNMPSHLNIEEL 365
DI+N+F +P +L ++
Sbjct: 166 DIKNRFTLPPNLTLKNF 182
Score = 74.0 bits (181), Expect = 2e-14
Identities = 32/68 (47%), Positives = 51/68 (75%), Gaps = 1/68 (1%)
Query: 361 NIEELAEKTPQTTKWFQLYIYRDREITKSLVQRAEKAGYKALVLTVDTNVFGTRYADIRN 420
++EE+A P ++FQLY+Y++R + + LV+RAE+AG+KA+ LTVDT G R +DI+N
Sbjct: 111 SVEEVASTGP-GIRFFQLYVYKNRNVVEQLVRRAERAGFKAIALTVDTPRLGRRESDIKN 169
Query: 421 KFNMPSHL 428
+F +P +L
Sbjct: 170 RFTLPPNL 177
>gnl|CDD|166134 PLN02493, PLN02493, probable peroxisomal (S)-2-hydroxy-acid
oxidase.
Length = 367
Score = 128 bits (322), Expect = 3e-33
Identities = 62/144 (43%), Positives = 95/144 (65%), Gaps = 1/144 (0%)
Query: 222 ALKVLRIRPRVMRDLSKRTLVTDALGHPVQIPIGVSPAAMQKLAHEEGEIGNAAAVGEVG 281
A + RPR++ D+SK + T LG + +PI V+P AMQK+AH +GE A A G
Sbjct: 41 AFARILFRPRILIDVSKIDMTTTVLGFKISMPIMVAPTAMQKMAHPDGEYATARAASAAG 100
Query: 282 GIYILSTISTTSIEELAEKTPQTTKWFQLYIYRDREITKSLVQRAEKAGYKALVLTVDTN 341
I LS+ +T+S+EE+A P ++FQLY+Y++R + + LV+RAE+AG+KA+ LTVDT
Sbjct: 101 TIMTLSSWATSSVEEVASTGP-GIRFFQLYVYKNRNVVEQLVRRAERAGFKAIALTVDTP 159
Query: 342 VFGTRYADIRNKFNMPSHLNIEEL 365
G R +DI+N+F +P +L ++
Sbjct: 160 RLGRRESDIKNRFTLPPNLTLKNF 183
Score = 74.4 bits (182), Expect = 1e-14
Identities = 32/68 (47%), Positives = 51/68 (75%), Gaps = 1/68 (1%)
Query: 361 NIEELAEKTPQTTKWFQLYIYRDREITKSLVQRAEKAGYKALVLTVDTNVFGTRYADIRN 420
++EE+A P ++FQLY+Y++R + + LV+RAE+AG+KA+ LTVDT G R +DI+N
Sbjct: 112 SVEEVASTGP-GIRFFQLYVYKNRNVVEQLVRRAERAGFKAIALTVDTPRLGRRESDIKN 170
Query: 421 KFNMPSHL 428
+F +P +L
Sbjct: 171 RFTLPPNL 178
>gnl|CDD|131755 TIGR02708, L_lactate_ox, L-lactate oxidase. Members of this
protein oxidize L-lactate to pyruvate, reducing
molecular oxygen to hydrogen peroxide. The enzyme is
known in Aerococcus viridans, Streptococcus iniae, and
some strains of Streptococcus pyogenes where it appears
to contribute to virulence [Energy metabolism, Other].
Length = 367
Score = 110 bits (275), Expect = 9e-27
Identities = 50/137 (36%), Positives = 77/137 (56%)
Query: 228 IRPRVMRDLSKRTLVTDALGHPVQIPIGVSPAAMQKLAHEEGEIGNAAAVGEVGGIYILS 287
I P +++D+ + + LGH ++ P ++P A KLA+E+GE+ A V E G IY S
Sbjct: 57 IVPHLLQDVENPSTEIEFLGHKLKSPFIMAPVAAHKLANEQGEVATARGVSEFGSIYTTS 116
Query: 288 TISTTSIEELAEKTPQTTKWFQLYIYRDREITKSLVQRAEKAGYKALVLTVDTNVFGTRY 347
+ ST + E++E T WFQ Y+ +D I + ++ R + G KA+VLT D V G R
Sbjct: 117 SYSTADLPEISEALNGTPHWFQFYMSKDDGINRDIMDRVKADGAKAIVLTADATVGGNRE 176
Query: 348 ADIRNKFNMPSHLNIEE 364
D+RN F P + I +
Sbjct: 177 VDVRNGFVFPVGMPIVQ 193
Score = 61.5 bits (149), Expect = 2e-10
Identities = 26/68 (38%), Positives = 38/68 (55%)
Query: 358 SHLNIEELAEKTPQTTKWFQLYIYRDREITKSLVQRAEKAGYKALVLTVDTNVFGTRYAD 417
S ++ E++E T WFQ Y+ +D I + ++ R + G KA+VLT D V G R D
Sbjct: 119 STADLPEISEALNGTPHWFQFYMSKDDGINRDIMDRVKADGAKAIVLTADATVGGNREVD 178
Query: 418 IRNKFNMP 425
+RN F P
Sbjct: 179 VRNGFVFP 186
>gnl|CDD|240087 cd04736, MDH_FMN, Mandelate dehydrogenase (MDH)-like FMN-binding
domain. MDH is part of a widespread family of
homologous FMN-dependent a-hydroxy acid oxidizing
enzymes that oxidizes (S)-mandelate to phenylglyoxalate.
MDH is an enzyme in the mandelate pathway that occurs in
several strains of Pseudomonas which converts
(R)-mandelate to benzoate. This family occurs in both
prokaryotes and eukaryotes. Members of this family
include flavocytochrome b2 (FCB2), glycolate oxidase
(GOX), lactate monooxygenase (LMO), mandelate
dehydrogenase (MDH), and long chain hydroxyacid oxidase
(LCHAO).
Length = 361
Score = 102 bits (255), Expect = 5e-24
Identities = 50/136 (36%), Positives = 71/136 (52%), Gaps = 2/136 (1%)
Query: 222 ALKVLRIRPRVMRDLSKRTLVTDALGHPVQIPIGVSPAAMQKLAHEEGEIGNAAAVGEVG 281
A R PR + D+SKR + G P+ ++P + G++ A A + G
Sbjct: 35 AFDRWRFIPRRLVDVSKRDISASLFGKVWSAPLVIAPTGLNGAFWPNGDLALARAAAKAG 94
Query: 282 GIYILSTISTTSIEELAEKTPQTTKWFQLYIYRDREITKSLVQRAEKAGYKALVLTVDTN 341
++LST S SIE++A + WFQLY+ RE+ + LV+RA AGY LVLT D
Sbjct: 95 IPFVLSTASNMSIEDVARQA-DGDLWFQLYVVH-RELAELLVKRALAAGYTTLVLTTDVA 152
Query: 342 VFGTRYADIRNKFNMP 357
V G R D+RN F +P
Sbjct: 153 VNGYRERDLRNGFAIP 168
Score = 70.2 bits (172), Expect = 3e-13
Identities = 33/79 (41%), Positives = 46/79 (58%), Gaps = 8/79 (10%)
Query: 353 KFNMP------SHLNIEELAEKTPQTTKWFQLYIYRDREITKSLVQRAEKAGYKALVLTV 406
K +P S+++IE++A + WFQLY+ RE+ + LV+RA AGY LVLT
Sbjct: 92 KAGIPFVLSTASNMSIEDVARQA-DGDLWFQLYVVH-RELAELLVKRALAAGYTTLVLTT 149
Query: 407 DTNVFGTRYADIRNKFNMP 425
D V G R D+RN F +P
Sbjct: 150 DVAVNGYRERDLRNGFAIP 168
>gnl|CDD|183033 PRK11197, lldD, L-lactate dehydrogenase; Provisional.
Length = 381
Score = 100 bits (251), Expect = 2e-23
Identities = 49/138 (35%), Positives = 73/138 (52%), Gaps = 6/138 (4%)
Query: 215 VDDFEQFALKVLRIRPRVMRDLSKRTLVTDALGHPVQIPIGVSPAAMQKLAHEEGEIGNA 274
V+D AL R RV++D+S +L T G + +P+ ++P + + GE+ A
Sbjct: 39 VEDLADIAL-----RQRVLKDMSDLSLETTLFGEKLSMPVALAPVGLTGMYARRGEVQAA 93
Query: 275 AAVGEVGGIYILSTISTTSIEELAEKTPQTTKWFQLYIYRDREITKSLVQRAEKAGYKAL 334
A G + LST+S IEE+A + WFQLY+ RDR ++ ++RA+ AG L
Sbjct: 94 RAADAKGIPFTLSTVSVCPIEEVAPAI-KRPMWFQLYVLRDRGFMRNALERAKAAGCSTL 152
Query: 335 VLTVDTNVFGTRYADIRN 352
V TVD V G RY D +
Sbjct: 153 VFTVDMPVPGARYRDAHS 170
Score = 63.5 bits (155), Expect = 5e-11
Identities = 26/59 (44%), Positives = 35/59 (59%), Gaps = 1/59 (1%)
Query: 362 IEELAEKTPQTTKWFQLYIYRDREITKSLVQRAEKAGYKALVLTVDTNVFGTRYADIRN 420
IEE+A + WFQLY+ RDR ++ ++RA+ AG LV TVD V G RY D +
Sbjct: 113 IEEVAPAI-KRPMWFQLYVLRDRGFMRNALERAKAAGCSTLVFTVDMPVPGARYRDAHS 170
>gnl|CDD|188481 TIGR03966, actino_HemFlav, heme/flavin dehydrogenase, mycofactocin
system. Members of this protein family possess an
N-terminal heme-binding domain and C-terminal
flavodehydrogenase domain, and share homology to yeast
flavocytochrome b2, to E. coli L-lactate dehydrogenase
[cytochrome], to (S)-mandelate dehydrogenase, etc. This
enzyme appears only in the context of the mycofactocin
system. Interestingly, it is absent from the four
species detected so far with mycofactocin but without an
F420 biosynthesis system.
Length = 385
Score = 77.1 bits (190), Expect = 2e-15
Identities = 50/179 (27%), Positives = 82/179 (45%), Gaps = 14/179 (7%)
Query: 226 LRIRPRVMRDLSKRTLVTDALGHPVQIPIGVSPAAMQKLAHEEGEIGNAAAVGEVGGIYI 285
L RP V KR L T +G + P+ +SP +Q + H +GE+ A A G
Sbjct: 47 LGFRPHVAGAPPKRELSTTVMGQEISFPVLISPTGVQAV-HPDGEVAVARAAAARGTAMG 105
Query: 286 LSTISTTSIEELAEKTPQTTKWFQLYIYRDREITKSLVQRAEKAGYKALVLTVDTNVFGT 345
LS+ ++ +EE+ P+T +FQ+Y R+ + ++RA AG K L+LT+D F +
Sbjct: 106 LSSFASKPVEEVVAANPKT--FFQIYWVGSRDDILARLERARAAGAKGLILTLDW-SFAS 162
Query: 346 RYADIRNKFNMPSHLNIEELAEKTPQTT---KWFQLYIYRDREI----TKSLVQRAEKA 397
R D + +P +++ + P+ W Y+ R I +L R E
Sbjct: 163 R-RDWGSPE-IPEKIDLRTMLRFAPEVLVRPGWLLRYL-RSGRIPDLTVPNLALRGETP 218
Score = 37.0 bits (86), Expect = 0.015
Identities = 19/53 (35%), Positives = 31/53 (58%), Gaps = 3/53 (5%)
Query: 362 IEELAEKTPQTTKWFQLYIYRDREITKSLVQRAEKAGYKALVLTVDTNVFGTR 414
+EE+ P+T +FQ+Y R+ + ++RA AG K L+LT+D F +R
Sbjct: 114 VEEVVAANPKT--FFQIYWVGSRDDILARLERARAAGAKGLILTLDW-SFASR 163
>gnl|CDD|216360 pfam01202, SKI, Shikimate kinase.
Length = 158
Score = 72.6 bits (179), Expect = 3e-15
Identities = 33/115 (28%), Positives = 50/115 (43%), Gaps = 16/115 (13%)
Query: 48 GSGKSTIGESLATRLGVKFIDGDHLHPQSNIDKMSAKQPLNDED----RRPWLNNINRII 103
G+GKSTIG LA LG+ FID D MS + +E RR + ++
Sbjct: 2 GAGKSTIGRLLAKALGLPFIDTDQEI--EKRTGMSIAEIFEEEGEEGFRRLESEVLKELL 59
Query: 104 HQLNVDNLTGVLVC---SALRRNYRDIIRNNNRVVFIYLKAEFGVILSRLQKRAE 155
+ N V+ + L R +++ N V +YL A+ V+L RL+
Sbjct: 60 AEHNA-----VIATGGGAVLSEENRALLKENGIV--VYLDADPEVLLERLKADKT 107
>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 = 53.5 bits (129), Expect = 1e-08
Identities = 31/148 (20%), Positives = 54/148 (36%), Gaps = 19/148 (12%)
Query: 40 VFVIMGVSGSGKSTIGESLATRLGVKFIDGDHLHPQSNIDKMSAKQPLNDEDRRPWLNNI 99
+ +++G+ GSGKST L LG + D L ++ P + +
Sbjct: 1 LILMVGLPGSGKSTFARRLLRELGAVVLSSDTL-----RKRLRGDGPPDISYYARASGRV 55
Query: 100 NRIIHQLNVDNLTG---VLVC-----SALRRNYRDIIRNNN-RVVFIYLKAEFGVILSRL 150
+ + +L + L V+V R D+ R V +YL+A V+ R
Sbjct: 56 YQRLLELAREALRAGRPVIVDATNLSREERARLIDLARRYGAPVRIVYLEAPEEVLRERN 115
Query: 151 QKRAEH-----FMPADLLESQFQTLEEP 173
+R +P +L+ E P
Sbjct: 116 AQRERSGGDPSDVPEAVLDRMLARFEPP 143
>gnl|CDD|222000 pfam13238, AAA_18, AAA domain.
Length = 128
Score = 50.1 bits (120), Expect = 9e-08
Identities = 24/113 (21%), Positives = 45/113 (39%), Gaps = 4/113 (3%)
Query: 42 VIMGVSGSGKSTIGESLATRLGVKFID-GDHLHPQSNIDKMSAKQPLNDEDRRPWLNNIN 100
+I G GSGK+T+ + LA RLG D +D+ + D ++
Sbjct: 2 LITGTPGSGKTTLAKELAERLGDVLRDLAKENGLVLELDEEITDE-SKRLDEDKLAKLLD 60
Query: 101 RIIHQLNVDNLTGVLVCSALRRNYRDIIRNNNRVVFIYLKAEFGVILSRLQKR 153
++ + ++ + +VF+ L+A+ +L RL+KR
Sbjct: 61 KLEKIIEELAEGENVIIDGHLAEL--ELERFKDLVFVVLRADPEELLERLKKR 111
>gnl|CDD|221983 pfam13207, AAA_17, AAA domain.
Length = 114
Score = 49.2 bits (117), Expect = 2e-07
Identities = 25/116 (21%), Positives = 44/116 (37%), Gaps = 8/116 (6%)
Query: 40 VFVIMGVSGSGKSTIGESLATRLGVKFIDGDHLHPQSNIDKMSAKQPLNDEDRRPWLNNI 99
+ +I G GSGKST+ + LA +LG+ I D L + L+D + ++
Sbjct: 1 IILITGPPGSGKSTLAKKLAEKLGIPVISLDDLL------REEGLAELDDGELDDIDIDL 54
Query: 100 NRIIHQLNVDNLTGVLVCSALRRNYRDIIRNNNRVVFIYLKAEFGVILSRLQKRAE 155
+ L+ ++ R +R + ++L RL KR
Sbjct: 55 ELLEEILDELAKQEWVIDGV--RESTLELRLEEADLVVFLDLPLPACRFRLLKRRL 108
>gnl|CDD|234654 PRK00131, aroK, shikimate kinase; Reviewed.
Length = 175
Score = 48.3 bits (116), Expect = 1e-06
Identities = 20/31 (64%), Positives = 23/31 (74%)
Query: 42 VIMGVSGSGKSTIGESLATRLGVKFIDGDHL 72
V++G G+GKSTIG LA RLG FID DHL
Sbjct: 8 VLIGFMGAGKSTIGRLLAKRLGYDFIDTDHL 38
>gnl|CDD|223775 COG0703, AroK, Shikimate kinase [Amino acid transport and
metabolism].
Length = 172
Score = 47.6 bits (114), Expect = 2e-06
Identities = 33/119 (27%), Positives = 58/119 (48%), Gaps = 16/119 (13%)
Query: 42 VIMGVSGSGKSTIGESLATRLGVKFIDGDHLHPQSNIDK---MSAKQPLNDEDRRPWLNN 98
V++G G+GKSTIG +LA L + FID D I+K MS + + +E+
Sbjct: 6 VLIGFMGAGKSTIGRALAKALNLPFIDTDQE-----IEKRTGMSIAE-IFEEEGEEGFRR 59
Query: 99 I-NRIIHQLNVDNLTGVLV---CSALRRNYRDIIRNNNRVVFIYLKAEFGVILSRLQKR 153
+ ++ +L ++ V+ + L R++++ V +YL A F + RLQ+
Sbjct: 60 LETEVLKELLEEDNA-VIATGGGAVLSEENRNLLKKRGIV--VYLDAPFETLYERLQRD 115
>gnl|CDD|238260 cd00464, SK, Shikimate kinase (SK) is the fifth enzyme in the
shikimate pathway, a seven-step biosynthetic pathway
which converts erythrose-4-phosphate to chorismic acid,
found in bacteria, fungi and plants. Chorismic acid is
a important intermediate in the synthesis of aromatic
compounds, such as aromatic amino acids, p-aminobenzoic
acid, folate and ubiquinone. Shikimate kinase catalyses
the phosphorylation of the 3-hydroxyl group of shikimic
acid using ATP.
Length = 154
Score = 46.4 bits (111), Expect = 3e-06
Identities = 15/31 (48%), Positives = 23/31 (74%)
Query: 42 VIMGVSGSGKSTIGESLATRLGVKFIDGDHL 72
V++G+ G+GK+T+G LA LG+ F+D D L
Sbjct: 3 VLIGMMGAGKTTVGRLLAKALGLPFVDLDEL 33
>gnl|CDD|184411 PRK13946, PRK13946, shikimate kinase; Provisional.
Length = 184
Score = 44.5 bits (106), Expect = 2e-05
Identities = 16/30 (53%), Positives = 23/30 (76%)
Query: 42 VIMGVSGSGKSTIGESLATRLGVKFIDGDH 71
V++G+ G+GKST+G LAT LG+ F+D D
Sbjct: 14 VLVGLMGAGKSTVGRRLATMLGLPFLDADT 43
>gnl|CDD|223603 COG0529, CysC, Adenylylsulfate kinase and related kinases
[Inorganic ion transport and metabolism].
Length = 197
Score = 43.4 bits (103), Expect = 7e-05
Identities = 45/174 (25%), Positives = 71/174 (40%), Gaps = 37/174 (21%)
Query: 35 GSPSTVFVIMGVSGSGKSTIGESLATRL-----GVKFIDGDHLHPQSNIDKMSAKQPLND 89
G V G+SGSGKSTI +L +L V +DGD++ ++ +
Sbjct: 20 GQKGAVIWFTGLSGSGKSTIANALEEKLFAKGYHVYLLDGDNVR-----HGLNRDLGFSR 74
Query: 90 EDRRPWLNNINRIIH--QLNVDNLTGVLVCSALRRNYRDIIRNNNRVVF-------IYLK 140
EDR NI R+ +L D G++V A YR+ R R + +Y+
Sbjct: 75 EDRI---ENIRRVAEVAKLLADA--GLIVIVAFISPYRE-DRQMARELLGEGEFIEVYVD 128
Query: 141 AEFGVILSR----LQKRA-----EHFMPADLLESQFQTLEEPDPLVEPDVRTVS 185
V R L K+A ++F D S ++ E P+ ++ D +V
Sbjct: 129 TPLEVCERRDPKGLYKKARAGEIKNFTGID---SPYEAPENPELHLDTDRNSVE 179
>gnl|CDD|215399 PLN02748, PLN02748, tRNA dimethylallyltransferase.
Length = 468
Score = 44.1 bits (104), Expect = 1e-04
Identities = 25/75 (33%), Positives = 40/75 (53%), Gaps = 9/75 (12%)
Query: 29 LSPS---GEGSP------STVFVIMGVSGSGKSTIGESLATRLGVKFIDGDHLHPQSNID 79
L+PS GE + V V+MG +GSGKS + LA+ V+ I+ D + S +D
Sbjct: 4 LNPSPGAGEEGSPKQKGKAKVVVVMGPTGSGKSKLAVDLASHFPVEIINADSMQVYSGLD 63
Query: 80 KMSAKQPLNDEDRRP 94
++ K PL+++ P
Sbjct: 64 VLTNKVPLHEQKGVP 78
>gnl|CDD|223637 COG0563, Adk, Adenylate kinase and related kinases [Nucleotide
transport and metabolism].
Length = 178
Score = 42.3 bits (100), Expect = 1e-04
Identities = 23/85 (27%), Positives = 35/85 (41%), Gaps = 16/85 (18%)
Query: 41 FVIMGVSGSGKSTIGESLATRLGVKFID-GDHLHPQSNIDKMSAKQPLNDEDRRPWLNNI 99
+I+G G+GKST+ + LA +LG+ +D GD L +R I
Sbjct: 3 ILILGPPGAGKSTLAKKLAKKLGLPHLDTGDILRAAI-------------AERTELGEEI 49
Query: 100 NRII--HQLNVDNLTGVLVCSALRR 122
+ I +L D + LV L
Sbjct: 50 KKYIDKGELVPDEIVNGLVKERLDE 74
>gnl|CDD|235153 PRK03731, aroL, shikimate kinase II; Reviewed.
Length = 171
Score = 41.1 bits (97), Expect = 3e-04
Identities = 14/33 (42%), Positives = 22/33 (66%), Gaps = 1/33 (3%)
Query: 39 TVFVIMGVSGSGKSTIGESLATRLGVKFIDGDH 71
+F++ G G GK+T+G +LA LG +F+D D
Sbjct: 4 PLFLV-GARGCGKTTVGMALAQALGYRFVDTDQ 35
>gnl|CDD|132613 TIGR03574, selen_PSTK, L-seryl-tRNA(Sec) kinase, archaeal. Members
of this protein are L-seryl-tRNA(Sec) kinase. This
enzyme is part of a two-step pathway in Eukaryota and
Archaea for performing selenocysteine biosynthesis by
changing serine misacylated on selenocysteine-tRNA to
selenocysteine. This enzyme performs the first step,
phosphorylation of the OH group of the serine side
chain. This family represents archaeal proteins with
this activity [Protein synthesis, tRNA aminoacylation].
Length = 249
Score = 41.7 bits (98), Expect = 4e-04
Identities = 42/170 (24%), Positives = 77/170 (45%), Gaps = 19/170 (11%)
Query: 42 VIMGVSGSGKSTIGESLATRLGVKFIDGDHLHPQSNIDKMSAKQPLNDEDRRPWLNNINR 101
++ G+ G GKST + LA +L K ID L D + P+ E ++ +
Sbjct: 3 ILTGLPGVGKSTFSKELAKKLSEKNIDVIIL----GTDLIRESFPVWKEKYEEFIRDSTL 58
Query: 102 IIHQLNVDNLTGVLV-----CSALRRNYRDIIRNNNRV-VFIYLKAEFGVILSRLQKRAE 155
+ + + N V+V +++RR+ +I + N+ + IYLKA +L R +R E
Sbjct: 59 YLIKTALKNKYSVIVDDTNYYNSMRRDLINIAKEYNKNYIIIYLKAPLDTLLRRNIERGE 118
Query: 156 HFMPADLLESQFQTLEEPDP--------LVEPDVRTVSVNEPLEGIVSKS 197
+P ++++ ++ +EP L + + NE LE I+ S
Sbjct: 119 K-IPNEVIKDMYEKFDEPGTKYSWDLPDLTIDTTKKIDYNEILEEILEIS 167
>gnl|CDD|221968 pfam13189, Cytidylate_kin2, Cytidylate kinase-like family. This
family includes enzymes related to cytidylate kinase.
Length = 176
Score = 40.2 bits (95), Expect = 6e-04
Identities = 29/132 (21%), Positives = 57/132 (43%), Gaps = 35/132 (26%)
Query: 48 GSGKSTIGESLATRLGVKFIDGDHLHP---QSNIDKMSAKQPLNDEDR-RPWLNNIN--- 100
GSG IG+ LA +LG+ + D + L +S I + ++ DE L +I
Sbjct: 9 GSGGREIGKKLAEKLGIPYYDREILDEAAKESGISEEEFER--YDEKAPNSLLYSIAAGF 66
Query: 101 -----------------RIIHQLNVDNLTGVLV--CSALRRNYRDIIRNNNRVVFIYLKA 141
++I +L + + V+V C+ +Y I+R+ V+ +++ A
Sbjct: 67 YRGEDISSDDKLFKAQSKVIREL-AEKGSCVIVGRCA----DY--ILRDRPNVLSVFIYA 119
Query: 142 EFGVILSRLQKR 153
+ + R+ +R
Sbjct: 120 DLEDRVERVMER 131
>gnl|CDD|235498 PRK05541, PRK05541, adenylylsulfate kinase; Provisional.
Length = 176
Score = 39.7 bits (93), Expect = 8e-04
Identities = 28/119 (23%), Positives = 48/119 (40%), Gaps = 18/119 (15%)
Query: 43 IMGVSGSGKSTIGESLATRLGVK-----FIDGDHLHP---QSNIDKMSAKQPLNDEDRRP 94
I G++GSGK+TI ++L RL +K ++DGD L DK + R
Sbjct: 12 ITGLAGSGKTTIAKALYERLKLKYSNVIYLDGDELREILGHYGYDK---------QSRIE 62
Query: 95 WLNNINRIIHQLNVDNLTGVLVC-SALRRNYRDIIRNNNRVVFIYLKAEFGVILSRLQK 152
++ L + ++ S Y ++ +YLK + ++ R QK
Sbjct: 63 MALKRAKLAKFLADQGMIVIVTTISMFDEIYAYNRKHLPNYFEVYLKCDMEELIRRDQK 121
>gnl|CDD|238985 cd02027, APSK, Adenosine 5'-phosphosulfate kinase (APSK) catalyzes
the phosphorylation of adenosine 5'-phosphosulfate to
form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The
end-product PAPS is a biologically "activated" sulfate
form important for the assimilation of inorganic
sulfate.
Length = 149
Score = 39.0 bits (92), Expect = 0.001
Identities = 32/97 (32%), Positives = 45/97 (46%), Gaps = 20/97 (20%)
Query: 45 GVSGSGKSTIGESLATRL-----GVKFIDGDHLHPQSNI-DKMSAKQPLNDEDRRPWLNN 98
G+SGSGKSTI +L +L V +DGD N+ ++ + EDR N
Sbjct: 6 GLSGSGKSTIARALEEKLFQRGRPVYVLDGD------NVRHGLNKDLGFSREDR---EEN 56
Query: 99 INRIIH--QLNVDNLTGVLVCSALRRNYRDIIRNNNR 133
I RI +L D G++V +A YR+ R R
Sbjct: 57 IRRIAEVAKLLADA--GLIVIAAFISPYRE-DREAAR 90
>gnl|CDD|184412 PRK13947, PRK13947, shikimate kinase; Provisional.
Length = 171
Score = 38.9 bits (91), Expect = 0.002
Identities = 41/146 (28%), Positives = 66/146 (45%), Gaps = 18/146 (12%)
Query: 42 VIMGVSGSGKSTIGESLATRLGVKFIDGDHLHPQSNIDKMSAKQPLN--DEDRRPWLNNI 99
V++G G+GK+T+G+ +AT L FID D I+KM+ ++D
Sbjct: 5 VLIGFMGTGKTTVGKRVATTLSFGFIDTDKE-----IEKMTGMTVAEIFEKDGEVRF--- 56
Query: 100 NRIIHQLNVDNLTGV--LVCS---ALRRNYRDIIRNNNRVVFIYLKAEFGVILSRLQKRA 154
R +L V L + LV + + N ++++ V I LKA VIL R+ K+
Sbjct: 57 -RSEEKLLVKKLARLKNLVIATGGGVVLNPENVVQLRKNGVVICLKARPEVILRRVGKKK 115
Query: 155 EH--FMPADLLESQFQTLEEPDPLVE 178
M D E + L+E +P +
Sbjct: 116 SRPLLMVGDPEERIKELLKEREPFYD 141
>gnl|CDD|213261 cd03294, ABC_Pro_Gly_Betaine, ATP-binding cassette domain of the
osmoprotectant proline/glycine betaine uptake system.
This family comprises the glycine betaine/L-proline ATP
binding subunit in bacteria and its equivalents in
archaea. This transport system belong to the larger
ATP-Binding Cassette (ABC) transporter superfamily. The
characteristic feature of these transporters is the
obligatory coupling of ATP hydrolysis to substrate
translocation. 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 = 269
Score = 39.2 bits (92), Expect = 0.002
Identities = 22/51 (43%), Positives = 28/51 (54%), Gaps = 12/51 (23%)
Query: 40 VFVIMGVSGSGKSTIGESLATRL-----GVKFIDGDHLHPQSNIDKMSAKQ 85
+FVIMG+SGSGKST+ + RL G IDG +I MS K+
Sbjct: 52 IFVIMGLSGSGKSTLLRCI-NRLIEPTSGKVLIDGQ------DIAAMSRKE 95
>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 = 37.9 bits (89), Expect = 0.004
Identities = 22/51 (43%), Positives = 29/51 (56%), Gaps = 6/51 (11%)
Query: 32 SGEGSPSTVFVIMGVSGSGKSTIGESLA---TRLGVK---FIDGDHLHPQS 76
SG+ P + IMG SG+GKST+ +LA T LGV I+G L +S
Sbjct: 29 SGKAKPGELTAIMGPSGAGKSTLLNALAGRRTGLGVSGEVLINGRPLDKRS 79
>gnl|CDD|215451 PLN02840, PLN02840, tRNA dimethylallyltransferase.
Length = 421
Score = 38.6 bits (90), Expect = 0.004
Identities = 25/66 (37%), Positives = 33/66 (50%), Gaps = 2/66 (3%)
Query: 26 TTTLSPSGEGSPS--TVFVIMGVSGSGKSTIGESLATRLGVKFIDGDHLHPQSNIDKMSA 83
TT LS SG V VI G +G+GKS + LA RL + I D + +D SA
Sbjct: 7 TTALSGSGASKTKKEKVIVISGPTGAGKSRLALELAKRLNGEIISADSVQVYRGLDVGSA 66
Query: 84 KQPLND 89
K L++
Sbjct: 67 KPSLSE 72
>gnl|CDD|140006 PRK13949, PRK13949, shikimate kinase; Provisional.
Length = 169
Score = 37.0 bits (86), Expect = 0.006
Identities = 15/31 (48%), Positives = 24/31 (77%), Gaps = 1/31 (3%)
Query: 40 VFVIMGVSGSGKSTIGESLATRLGVKFIDGD 70
+F++ G G+GK+T+G++LA LG+ FID D
Sbjct: 4 IFLV-GYMGAGKTTLGKALARELGLSFIDLD 33
>gnl|CDD|223360 COG0283, Cmk, Cytidylate kinase [Nucleotide transport and
metabolism].
Length = 222
Score = 37.2 bits (87), Expect = 0.009
Identities = 31/117 (26%), Positives = 46/117 (39%), Gaps = 23/117 (19%)
Query: 43 IMGVSGSGKSTIGESLATRLGVKFIDGDH---------LHPQSNIDKMSAKQPLNDE--- 90
I G +GSGKST+ + LA +LG ++D L ++D A L E
Sbjct: 9 IDGPAGSGKSTVAKILAEKLGFHYLDTGAMYRAVALAALKHGVDLDDEDALVALAKELDI 68
Query: 91 ----DRRPWLNN--INRIIHQLNVDNLTGVL-----VCSALRRNYRDIIRNNNRVVF 136
D R +LN ++ I V N + V AL + R +N +V
Sbjct: 69 SFVNDDRVFLNGEDVSEEIRTEEVGNAASKVAAIPEVREALVKLQRAFAKNGPGIVA 125
>gnl|CDD|168472 PRK06217, PRK06217, hypothetical protein; Validated.
Length = 183
Score = 36.6 bits (85), Expect = 0.011
Identities = 14/28 (50%), Positives = 19/28 (67%)
Query: 43 IMGVSGSGKSTIGESLATRLGVKFIDGD 70
I G SGSG +T+G +LA RL + +D D
Sbjct: 6 ITGASGSGTTTLGAALAERLDIPHLDTD 33
>gnl|CDD|238978 cd02020, CMPK, Cytidine monophosphate kinase (CMPK) catalyzes the
reversible phosphorylation of cytidine monophosphate
(CMP) to produce cytidine diphosphate (CDP), using ATP
as the preferred phosphoryl donor.
Length = 147
Score = 35.9 bits (84), Expect = 0.011
Identities = 13/26 (50%), Positives = 20/26 (76%)
Query: 43 IMGVSGSGKSTIGESLATRLGVKFID 68
I G +GSGKST+ + LA +LG+ ++D
Sbjct: 4 IDGPAGSGKSTVAKLLAKKLGLPYLD 29
>gnl|CDD|177823 PLN02165, PLN02165, adenylate isopentenyltransferase.
Length = 334
Score = 37.1 bits (86), Expect = 0.015
Identities = 26/78 (33%), Positives = 39/78 (50%), Gaps = 6/78 (7%)
Query: 16 PPQYVVTLIMTTTLSPSGEGSPSTVFVIMGVSGSGKSTIGESLATRLGVKFIDGDHLHPQ 75
PP+ VVT MT+ + V VIMG +GSGKS + LATR + I+ D +
Sbjct: 25 PPRSVVT--MTSVAME--QNCKDKVVVIMGATGSGKSRLSVDLATRFPSEIINSDKMQVY 80
Query: 76 SNIDKMSAKQPLNDEDRR 93
+ + + + +DRR
Sbjct: 81 DGLKITTNQITI--QDRR 96
>gnl|CDD|213512 TIGR00174, miaA, tRNA dimethylallyltransferase. Alternate names
include delta(2)-isopentenylpyrophosphate transferase,
IPP transferase, 2-methylthio-N6-isopentyladenosine
tRNA modification enzyme. Catalyzes the first step in
the modification of an adenosine near the anticodon to
2-methylthio-N6-isopentyladenosine. Understanding of
substrate specificity has changed [Protein synthesis,
tRNA and rRNA base modification].
Length = 287
Score = 36.6 bits (85), Expect = 0.016
Identities = 16/50 (32%), Positives = 25/50 (50%)
Query: 40 VFVIMGVSGSGKSTIGESLATRLGVKFIDGDHLHPQSNIDKMSAKQPLND 89
V +MG + SGKS + LA +L + I D + +D +AK L +
Sbjct: 1 VIFLMGPTASGKSQLSIQLAQKLNAEIISVDSMQIYKGMDIGTAKPSLQE 50
>gnl|CDD|235335 PRK05057, aroK, shikimate kinase I; Reviewed.
Length = 172
Score = 35.5 bits (82), Expect = 0.021
Identities = 15/32 (46%), Positives = 22/32 (68%), Gaps = 1/32 (3%)
Query: 40 VFVIMGVSGSGKSTIGESLATRLGVKFIDGDH 71
+F++ G G+GKSTIG LA +L ++F D D
Sbjct: 7 IFLV-GPMGAGKSTIGRQLAQQLNMEFYDSDQ 37
>gnl|CDD|224051 COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase
component [Amino acid transport and metabolism].
Length = 240
Score = 35.9 bits (84), Expect = 0.023
Identities = 19/50 (38%), Positives = 27/50 (54%), Gaps = 6/50 (12%)
Query: 40 VFVIMGVSGSGKSTIGESLATRL-----GVKFIDGDHLHPQSNIDKMSAK 84
V VI+G SGSGKST+ L L G +DG+ + + +I K+ K
Sbjct: 30 VVVIIGPSGSGKSTLLRCLN-GLEEPDSGSITVDGEDVGDKKDILKLRRK 78
>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 = 35.3 bits (82), Expect = 0.027
Identities = 26/141 (18%), Positives = 47/141 (33%), Gaps = 37/141 (26%)
Query: 40 VFVIMGVSGSGKSTIGESLATRLGVKFID-GDHLHPQSNIDKMSAKQPLNDEDRRPWLNN 98
+++G GSGK T E LA + G+ I GD L +++++ L +
Sbjct: 1 RILLLGPPGSGKGTQAERLAKKYGLPHISTGDLLR-----EEIASGTELGKK-------- 47
Query: 99 INRIIHQ--LNVDNLTGVLVCSALR--------------RNYR------DIIRNNNRV-V 135
I L D + L+ L+ R +++ +
Sbjct: 48 AKEYIDSGKLVPDEIVIKLLKERLKKPDCKKGFILDGFPRTVDQAEALDELLDEGIKPDK 107
Query: 136 FIYLKAEFGVILSRLQKRAEH 156
I L V++ R+ R
Sbjct: 108 VIELDVPDEVLIERILGRRIC 128
>gnl|CDD|226643 COG4175, ProV, ABC-type proline/glycine betaine transport system,
ATPase component [Amino acid transport and metabolism].
Length = 386
Score = 36.2 bits (84), Expect = 0.031
Identities = 22/51 (43%), Positives = 29/51 (56%), Gaps = 12/51 (23%)
Query: 40 VFVIMGVSGSGKSTIGESLATRL-----GVKFIDGDHLHPQSNIDKMSAKQ 85
+FVIMG+SGSGKST+ L RL G +DG +I K+SA +
Sbjct: 56 IFVIMGLSGSGKSTLVRLL-NRLIEPTRGEILVDGK------DIAKLSAAE 99
>gnl|CDD|179661 PRK03846, PRK03846, adenylylsulfate kinase; Provisional.
Length = 198
Score = 35.3 bits (82), Expect = 0.032
Identities = 34/112 (30%), Positives = 49/112 (43%), Gaps = 32/112 (28%)
Query: 35 GSPSTVFVIMGVSGSGKSTIGESLATRL---GVK--FIDGDHLHPQSNIDKMSAKQPLN- 88
G V G+SGSGKST+ +L L GV +DGD N+ + L
Sbjct: 21 GHKGVVLWFTGLSGSGKSTVAGALEEALHELGVSTYLLDGD------NV-----RHGLCS 69
Query: 89 -----DEDRRPWLNNINRI--IHQLNVDNLTGVLVCSAL---RRNYRDIIRN 130
D DR+ NI R+ + +L VD G++V +A R R ++R
Sbjct: 70 DLGFSDADRK---ENIRRVGEVAKLMVD--AGLVVLTAFISPHRAERQMVRE 116
>gnl|CDD|184413 PRK13948, PRK13948, shikimate kinase; Provisional.
Length = 182
Score = 34.8 bits (80), Expect = 0.046
Identities = 15/36 (41%), Positives = 19/36 (52%)
Query: 37 PSTVFVIMGVSGSGKSTIGESLATRLGVKFIDGDHL 72
P T + G G+GKS IG L+ L + FID D
Sbjct: 9 PVTWVALAGFMGTGKSRIGWELSRALMLHFIDTDRY 44
>gnl|CDD|213986 cd07431, PHP_PolIIIA, Polymerase and Histidinol Phosphatase domain
of alpha-subunit of bacterial polymerase III. PolIIIAs
that contain an N-terminal PHP domain have been
classified into four basic groups based on genome
composition, phylogenetic, and domain structural
analysis: polC, dnaE1, dnaE2, and dnaE3. The PHP (also
called histidinol phosphatase-2/HIS2) domain is
associated with several types of DNA polymerases, such
as PolIIIA and family X DNA polymerases, stand alone
histidinol phosphate phosphatases (HisPPases), and a
number of uncharacterized protein families. DNA
polymerase III holoenzyme is one of the five eubacterial
DNA polymerases that is responsible for the replication
of the DNA duplex. The alpha subunit of DNA polymerase
III core enzyme catalyzes the reaction for polymerizing
both DNA strands. The PolIIIA PHP domain has four
conserved sequence motifs and contains an invariant
histidine that is involved in metal ion coordination,
and like other PHP structures, exhibits a distorted
(beta/alpha) 7 barrel and coordinates up to 3 metals.
Initially, it was proposed that PHP region might be
involved in pyrophosphate hydrolysis, but such activity
has not been found. It has been shown that the PHP
domain of PolIIIA has a trinuclear metal complex and is
capable of proofreading activity.
Length = 179
Score = 34.5 bits (80), Expect = 0.049
Identities = 13/24 (54%), Positives = 16/24 (66%), Gaps = 1/24 (4%)
Query: 320 KSLVQRAEKAGYKALVLTVDTNVF 343
+ LV RA++ GY AL LT D NV
Sbjct: 19 EDLVARAKELGYSALALT-DRNVL 41
Score = 34.5 bits (80), Expect = 0.049
Identities = 13/24 (54%), Positives = 16/24 (66%), Gaps = 1/24 (4%)
Query: 388 KSLVQRAEKAGYKALVLTVDTNVF 411
+ LV RA++ GY AL LT D NV
Sbjct: 19 EDLVARAKELGYSALALT-DRNVL 41
>gnl|CDD|134335 PRK00625, PRK00625, shikimate kinase; Provisional.
Length = 173
Score = 34.3 bits (79), Expect = 0.052
Identities = 26/112 (23%), Positives = 41/112 (36%), Gaps = 5/112 (4%)
Query: 45 GVSGSGKSTIGESLATRLGVKFIDGDHLHPQ--SNIDKMSAKQPLNDEDRRPWLNNINRI 102
G+ GK++ G++LA L + F D D L S K+ +
Sbjct: 7 GLPTVGKTSFGKALAKFLSLPFFDTDDLIVSNYHGALYSSPKEIYQAYGEEGFCREEFLA 66
Query: 103 IHQLNVDN-LTGVLVCSALRRNYRDIIRNNNRVVFIYLKAEFGVILSRLQKR 153
+ L V + + + + IR NR + + L I RLQKR
Sbjct: 67 LTSLPVIPSIVALGGGTLMIEPSYAHIR--NRGLLVLLSLPIATIYQRLQKR 116
>gnl|CDD|235244 PRK04182, PRK04182, cytidylate kinase; Provisional.
Length = 180
Score = 34.4 bits (80), Expect = 0.054
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 42 VIMGVSGSGKSTIGESLATRLGVKFI 67
I G GSGK+T+ LA +LG+K +
Sbjct: 4 TISGPPGSGKTTVARLLAEKLGLKHV 29
>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 = 33.9 bits (77), Expect = 0.059
Identities = 17/44 (38%), Positives = 26/44 (59%), Gaps = 5/44 (11%)
Query: 37 PSTVFVIMGVSGSGKSTIGESLATRL-----GVKFIDGDHLHPQ 75
P V +I+G GSGK+T+ +LA L GV +IDG+ + +
Sbjct: 1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEE 44
>gnl|CDD|180124 PRK05537, PRK05537, bifunctional sulfate adenylyltransferase
subunit 1/adenylylsulfate kinase protein; Validated.
Length = 568
Score = 35.4 bits (82), Expect = 0.059
Identities = 17/38 (44%), Positives = 23/38 (60%), Gaps = 7/38 (18%)
Query: 39 TVFVIMGVSGSGKSTIGESLATRL------GVKFIDGD 70
TVF G+SG+GKSTI ++L +L V +DGD
Sbjct: 394 TVF-FTGLSGAGKSTIAKALMVKLMEMRGRPVTLLDGD 430
>gnl|CDD|224985 COG2074, COG2074, 2-phosphoglycerate kinase [Carbohydrate transport
and metabolism].
Length = 299
Score = 34.7 bits (80), Expect = 0.069
Identities = 16/36 (44%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 38 STVFVIMGVSGSGKSTIGESLATRLGVK-FIDGDHL 72
+ +I G SG GKSTI LA RLG++ I D +
Sbjct: 89 PLIILIGGASGVGKSTIAGELARRLGIRSVISTDSI 124
>gnl|CDD|235858 PRK06762, PRK06762, hypothetical protein; Provisional.
Length = 166
Score = 33.8 bits (78), Expect = 0.079
Identities = 14/27 (51%), Positives = 19/27 (70%)
Query: 37 PSTVFVIMGVSGSGKSTIGESLATRLG 63
+T+ +I G SGSGK+TI + L RLG
Sbjct: 1 MTTLIIIRGNSGSGKTTIAKQLQERLG 27
>gnl|CDD|236167 PRK08154, PRK08154, anaerobic benzoate catabolism transcriptional
regulator; Reviewed.
Length = 309
Score = 34.5 bits (80), Expect = 0.086
Identities = 14/23 (60%), Positives = 18/23 (78%)
Query: 45 GVSGSGKSTIGESLATRLGVKFI 67
G+ G+GKST+G LA RLGV F+
Sbjct: 140 GLRGAGKSTLGRMLAARLGVPFV 162
>gnl|CDD|233761 TIGR02173, cyt_kin_arch, cytidylate kinase, putative. Proteins in
this family are believed to be cytidylate kinase.
Members of this family are found in the archaea and in
spirochaetes, and differ considerably from the common
bacterial form of cytidylate kinase described by
TIGR00017.
Length = 171
Score = 33.6 bits (77), Expect = 0.088
Identities = 35/124 (28%), Positives = 55/124 (44%), Gaps = 23/124 (18%)
Query: 40 VFVIMGVSGSGKSTIGESLATRLGVKFIDGDHLHPQSNIDK-MSAKQPLNDEDRRPWLNN 98
+ I G GSGK+T+ + LA +L +K I + + + + LN + P ++
Sbjct: 2 IITISGPPGSGKTTVAKILAEKLSLKLISAGDIFRELAAKMGLDLIEFLNYAEENPEIDK 61
Query: 99 -INRIIHQL-----NV---DNLTGVLVCSALRRNYRDIIRNNNRVVFIYLKAEFGVILSR 149
I+R IH++ NV L G +V R Y D+ I+LKA V R
Sbjct: 62 KIDRRIHEIALKEKNVVLESRLAGWIV-----REYADVK--------IWLKAPLEVRARR 108
Query: 150 LQKR 153
+ KR
Sbjct: 109 IAKR 112
>gnl|CDD|237066 PRK12338, PRK12338, hypothetical protein; Provisional.
Length = 319
Score = 34.3 bits (79), Expect = 0.097
Identities = 15/36 (41%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 38 STVFVIMGVSGSGKSTIGESLATRLGVK-FIDGDHL 72
V +I SG GKSTI LA L +K I+ D +
Sbjct: 4 PYVILIGSASGIGKSTIASELARTLNIKHLIETDFI 39
>gnl|CDD|213184 cd03217, ABC_FeS_Assembly, ABC-type transport system involved in
Fe-S cluster assembly, ATPase component. Biosynthesis
of iron-sulfur clusters (Fe-S) depends on multi-protein
systems. The SUF system of E. coli and Erwinia
chrysanthemi is important for Fe-S biogenesis under
stressful conditions. The SUF system is made of six
proteins: SufC is an atypical cytoplasmic ABC-ATPase,
which forms a complex with SufB and SufD; SufA plays
the role of a scaffold protein for assembly of
iron-sulfur clusters and delivery to target proteins;
SufS is a cysteine desulfurase which mobilizes the
sulfur atom from cysteine and provides it to the
cluster; SufE has no associated function yet.
Length = 200
Score = 33.7 bits (78), Expect = 0.100
Identities = 10/34 (29%), Positives = 19/34 (55%)
Query: 37 PSTVFVIMGVSGSGKSTIGESLATRLGVKFIDGD 70
V +MG +GSGKST+ +++ + +G+
Sbjct: 25 KGEVHALMGPNGSGKSTLAKTIMGHPKYEVTEGE 58
>gnl|CDD|214372 CHL00131, ycf16, sulfate ABC transporter protein; Validated.
Length = 252
Score = 33.8 bits (78), Expect = 0.12
Identities = 15/46 (32%), Positives = 26/46 (56%)
Query: 40 VFVIMGVSGSGKSTIGESLATRLGVKFIDGDHLHPQSNIDKMSAKQ 85
+ IMG +GSGKST+ + +A K ++GD L +I + ++
Sbjct: 35 IHAIMGPNGSGKSTLSKVIAGHPAYKILEGDILFKGESILDLEPEE 80
>gnl|CDD|215599 PLN03140, PLN03140, ABC transporter G family member; Provisional.
Length = 1470
Score = 34.4 bits (79), Expect = 0.13
Identities = 15/34 (44%), Positives = 23/34 (67%)
Query: 37 PSTVFVIMGVSGSGKSTIGESLATRLGVKFIDGD 70
P + +MGVSG+GK+T+ + LA R +I+GD
Sbjct: 905 PGVLTALMGVSGAGKTTLMDVLAGRKTGGYIEGD 938
>gnl|CDD|129128 TIGR00017, cmk, cytidylate kinase. This family consists of
cytidylate kinase, which catalyzes the phosphorylation
of cytidine 5-monophosphate (dCMP) to cytidine 5
-diphosphate (dCDP) in the presence of ATP or GTP. UMP
and dCMP can also act as acceptors [Purines,
pyrimidines, nucleosides, and nucleotides, Nucleotide
and nucleoside interconversions].
Length = 217
Score = 33.6 bits (77), Expect = 0.14
Identities = 12/31 (38%), Positives = 22/31 (70%)
Query: 43 IMGVSGSGKSTIGESLATRLGVKFIDGDHLH 73
I G SG+GKST+ +++A +LG ++D ++
Sbjct: 7 IDGPSGAGKSTVAKAVAEKLGYAYLDSGAMY 37
>gnl|CDD|147567 pfam05454, DAG1, Dystroglycan (Dystrophin-associated glycoprotein
1). Dystroglycan is one of the dystrophin-associated
glycoproteins, which is encoded by a 5.5 kb transcript
in human. The protein product is cleaved into two
non-covalently associated subunits, [alpha] (N-terminal)
and [beta] (C-terminal). In skeletal muscle the
dystroglycan complex works as a transmembrane linkage
between the extracellular matrix and the cytoskeleton.
[alpha]-dystroglycan is extracellular and binds to
merosin ([alpha]-2 laminin) in the basement membrane,
while [beta]-dystroglycan is a transmembrane protein and
binds to dystrophin, which is a large rod-like
cytoskeletal protein, absent in Duchenne muscular
dystrophy patients. Dystrophin binds to intracellular
actin cables. In this way, the dystroglycan complex,
which links the extracellular matrix to the
intracellular actin cables, is thought to provide
structural integrity in muscle tissues. The dystroglycan
complex is also known to serve as an agrin receptor in
muscle, where it may regulate agrin-induced
acetylcholine receptor clustering at the neuromuscular
junction. There is also evidence which suggests the
function of dystroglycan as a part of the signal
transduction pathway because it is shown that Grb2, a
mediator of the Ras-related signal pathway, can interact
with the cytoplasmic domain of dystroglycan. In general,
aberrant expression of dystrophin-associated protein
complex underlies the pathogenesis of Duchenne muscular
dystrophy, Becker muscular dystrophy and severe
childhood autosomal recessive muscular dystrophy.
Interestingly, no genetic disease has been described for
either [alpha]- or [beta]-dystroglycan. Dystroglycan is
widely distributed in non-muscle tissues as well as in
muscle tissues. During epithelial morphogenesis of
kidney, the dystroglycan complex is shown to act as a
receptor for the basement membrane. Dystroglycan
expression in mouse brain and neural retina has also
been reported. However, the physiological role of
dystroglycan in non-muscle tissues has remained unclear.
Length = 290
Score = 33.8 bits (77), Expect = 0.15
Identities = 14/44 (31%), Positives = 20/44 (45%)
Query: 166 QFQTLEEPDPLVEPDVRTVSVNEPLEGIVSKSAIMPPTRAPPNY 209
++ L + DP P P+EG S+ M P R+PP Y
Sbjct: 244 EYTPLRDEDPNAPPYQPPPPFTTPMEGKGSRPKNMTPYRSPPPY 287
>gnl|CDD|129547 TIGR00455, apsK, adenylylsulfate kinase (apsK). This protein,
adenylylsulfate kinase, is often found as a fusion
protein with sulfate adenylyltransferase. Important
residue (active site in E.coli) is residue 100 of the
seed alignment [Central intermediary metabolism, Sulfur
metabolism].
Length = 184
Score = 33.2 bits (76), Expect = 0.16
Identities = 44/170 (25%), Positives = 74/170 (43%), Gaps = 35/170 (20%)
Query: 38 STVFVIMGVSGSGKSTIGESLATRL-----GVKFIDGDHLHPQSNIDKMSAKQPLNDEDR 92
V + G+SGSGKSTI +L +L V +DGD++ N D ++EDR
Sbjct: 18 GVVIWLTGLSGSGKSTIANALEKKLESKGYRVYVLDGDNVRHGLNKD-----LGFSEEDR 72
Query: 93 RPWLNNINRI--IHQLNVDNLTGVLVCSAL---RRNYRDIIRN---NNRVVFIYLKAEFG 144
+ NI RI + +L V N G++V ++ R R ++R + +++
Sbjct: 73 K---ENIRRIGEVAKLFVRN--GIIVITSFISPYRADRQMVRELIEKGEFIEVFVDCPLE 127
Query: 145 VILSR----LQKRA-----EHFMPADLLESQFQTLEEPDPLVEPDVRTVS 185
V R L K+A + F D S ++ E P+ +++ D
Sbjct: 128 VCEQRDPKGLYKKARNGEIKGFTGID---SPYEAPENPEVVLDTDQNDRE 174
>gnl|CDD|235825 PRK06547, PRK06547, hypothetical protein; Provisional.
Length = 172
Score = 32.8 bits (75), Expect = 0.16
Identities = 15/36 (41%), Positives = 22/36 (61%)
Query: 39 TVFVIMGVSGSGKSTIGESLATRLGVKFIDGDHLHP 74
+I G SGSGK+T+ +LA R G + + D L+P
Sbjct: 16 ITVLIDGRSGSGKTTLAGALAARTGFQLVHLDDLYP 51
>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 = 30.8 bits (70), Expect = 0.17
Identities = 15/31 (48%), Positives = 19/31 (61%), Gaps = 3/31 (9%)
Query: 42 VIMGVSGSGKSTIGESLATRLG---VKFIDG 69
I G SGSGKST+ + LA +LG V +D
Sbjct: 3 AITGGSGSGKSTVAKKLAEQLGGRSVVVLDE 33
>gnl|CDD|223473 COG0396, sufC, Cysteine desulfurase activator ATPase
[Posttranslational modification, protein turnover,
chaperones].
Length = 251
Score = 33.3 bits (77), Expect = 0.18
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 5/40 (12%)
Query: 31 PSGEGSPSTVFVIMGVSGSGKSTIGESLATRLGVKFIDGD 70
GE V IMG +GSGKST+ ++ + +G+
Sbjct: 28 KEGE-----VHAIMGPNGSGKSTLAYTIMGHPKYEVTEGE 62
>gnl|CDD|237003 PRK11860, PRK11860, bifunctional 3-phosphoshikimate
1-carboxyvinyltransferase/cytidine monophosphate kinase;
Provisional.
Length = 661
Score = 33.9 bits (78), Expect = 0.19
Identities = 16/53 (30%), Positives = 26/53 (49%)
Query: 40 VFVIMGVSGSGKSTIGESLATRLGVKFIDGDHLHPQSNIDKMSAKQPLNDEDR 92
V I G + SGK T+ +A LG ++D L+ + + + A L+DE
Sbjct: 444 VICIDGPTASGKGTVAARVAEALGYHYLDSGALYRLTALAALRAGVALDDEAA 496
>gnl|CDD|233207 TIGR00955, 3a01204, The Eye Pigment Precursor Transporter (EPP)
Family protein. [Transport and binding proteins,
Other].
Length = 617
Score = 33.9 bits (78), Expect = 0.19
Identities = 17/41 (41%), Positives = 23/41 (56%), Gaps = 3/41 (7%)
Query: 32 SGEGSPSTVFVIMGVSGSGKSTIGESLATRL--GVKFIDGD 70
SG P + +MG SG+GK+T+ +LA R GVK G
Sbjct: 45 SGVAKPGELLAVMGSSGAGKTTLMNALAFRSPKGVK-GSGS 84
>gnl|CDD|181965 PRK09580, sufC, cysteine desulfurase ATPase component; Reviewed.
Length = 248
Score = 33.2 bits (76), Expect = 0.19
Identities = 15/34 (44%), Positives = 19/34 (55%)
Query: 37 PSTVFVIMGVSGSGKSTIGESLATRLGVKFIDGD 70
P V IMG +GSGKST+ +LA R + G
Sbjct: 26 PGEVHAIMGPNGSGKSTLSATLAGREDYEVTGGT 59
>gnl|CDD|224345 COG1428, COG1428, Deoxynucleoside kinases [Nucleotide transport
and metabolism].
Length = 216
Score = 33.1 bits (76), Expect = 0.20
Identities = 14/30 (46%), Positives = 20/30 (66%)
Query: 38 STVFVIMGVSGSGKSTIGESLATRLGVKFI 67
+ V VI G+ G+GKST+ ++LA LG K
Sbjct: 4 AMVIVIEGMIGAGKSTLAQALAEHLGFKVF 33
>gnl|CDD|130254 TIGR01186, proV, glycine betaine/L-proline transport ATP binding
subunit. This model describes the glycine
betaine/L-proline ATP binding subunit in bacteria and
its equivalents in archaea. This transport system
belong to the larger ATP-Binding Cassette (ABC)
transporter superfamily. The characteristic feature of
these transporter is the obligatory coupling of ATP
hydrolysis to substrate translocation. The minimal
configuration of bacterial ABC transport system: an
ATPase or ATP binding subunit; An integral membrane
protein; a hydrophilic polypetpide, which likely
functions as substrate binding protein. Functionally,
this transport system is involved in osmoregulation.
Under conditions of stress, the organism recruits these
transport system to accumulate glycine betaine and
other solutes which offer osmo-protection. It has been
demonstrated that glycine betaine uptake is accompanied
by symport with sodium ions. The locus has been named
variously as proU or opuA. A gene library from L.lactis
functionally complements an E.coli proU mutant. The
comlementing locus is similar to a opuA locus in
B.sutlis. This clarifies the differences in
nomenclature [Transport and binding proteins, Amino
acids, peptides and amines].
Length = 363
Score = 33.3 bits (76), Expect = 0.20
Identities = 26/59 (44%), Positives = 32/59 (54%), Gaps = 13/59 (22%)
Query: 40 VFVIMGVSGSGKSTIGESLATRL-----GVKFIDGDHLHPQSNIDKMSAKQPLNDEDRR 93
+FVIMG+SGSGKST L RL G FIDG+ NI K S + L + R+
Sbjct: 21 IFVIMGLSGSGKSTTVRML-NRLIEPTAGQIFIDGE------NIMKQSPVE-LREVRRK 71
>gnl|CDD|216586 pfam01583, APS_kinase, Adenylylsulphate kinase. Enzyme that
catalyzes the phosphorylation of adenylylsulphate to
3'-phosphoadenylylsulfate. This domain contains an ATP
binding P-loop motif.
Length = 157
Score = 32.3 bits (74), Expect = 0.23
Identities = 33/104 (31%), Positives = 49/104 (47%), Gaps = 19/104 (18%)
Query: 37 PSTVFVIMGVSGSGKSTIGESLATRL-----GVKFIDGDHLHPQSNIDKMSAKQPLNDED 91
T++ G+SGSGKSTI +L +L V +DGD++ N D ++ED
Sbjct: 2 GCTIW-FTGLSGSGKSTIANALERKLFAQGISVYVLDGDNVRHGLNKD-----LGFSEED 55
Query: 92 RRPWLNNINRIIH--QLNVDNLTGVLVCSALRRNYRDIIRNNNR 133
R NI RI +L D G++V ++ YR R+ R
Sbjct: 56 RT---ENIRRIAEVAKLFADA--GLIVITSFISPYRA-DRDMAR 93
>gnl|CDD|233208 TIGR00956, 3a01205, Pleiotropic Drug Resistance (PDR) Family
protein. [Transport and binding proteins, Other].
Length = 1394
Score = 33.5 bits (77), Expect = 0.23
Identities = 14/34 (41%), Positives = 20/34 (58%)
Query: 37 PSTVFVIMGVSGSGKSTIGESLATRLGVKFIDGD 70
P T+ +MG SG+GK+T+ LA R+ I G
Sbjct: 788 PGTLTALMGASGAGKTTLLNVLAERVTTGVITGG 821
>gnl|CDD|183280 PRK11701, phnK, phosphonate C-P lyase system protein PhnK;
Provisional.
Length = 258
Score = 33.0 bits (76), Expect = 0.24
Identities = 13/26 (50%), Positives = 18/26 (69%)
Query: 37 PSTVFVIMGVSGSGKSTIGESLATRL 62
P V I+G SGSGK+T+ +L+ RL
Sbjct: 31 PGEVLGIVGESGSGKTTLLNALSARL 56
>gnl|CDD|234579 PRK00023, cmk, cytidylate kinase; Provisional.
Length = 225
Score = 32.8 bits (76), Expect = 0.24
Identities = 12/26 (46%), Positives = 18/26 (69%)
Query: 43 IMGVSGSGKSTIGESLATRLGVKFID 68
I G +GSGK T+ + LA +LG ++D
Sbjct: 9 IDGPAGSGKGTVAKILAKKLGFHYLD 34
>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 = 32.2 bits (74), Expect = 0.26
Identities = 14/70 (20%), Positives = 26/70 (37%), Gaps = 12/70 (17%)
Query: 37 PSTVFVIMGVSGSGKSTIGESLATRLGVKFIDGDHLHPQSNIDKMSAKQPLNDEDRRPWL 96
+ ++G +GSGKST+ ++A G+ + ID + +
Sbjct: 24 AGEIVALVGPNGSGKSTLLRAIA---GLLKPTSGEIL----ID----GKDIAKLPLEELR 72
Query: 97 NNINRIIHQL 106
I + QL
Sbjct: 73 RRI-GYVPQL 81
>gnl|CDD|226648 COG4185, COG4185, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 187
Score = 32.4 bits (74), Expect = 0.26
Identities = 12/36 (33%), Positives = 21/36 (58%), Gaps = 2/36 (5%)
Query: 39 TVFVIMGVSGSGKSTIGESLATRL--GVKFIDGDHL 72
+ ++ G +GSGKST+ S L G+ F++ D +
Sbjct: 3 RLDIVAGPNGSGKSTVYASTLAPLLPGIVFVNADEI 38
>gnl|CDD|215634 PLN03211, PLN03211, ABC transporter G-25; Provisional.
Length = 659
Score = 33.3 bits (76), Expect = 0.27
Identities = 14/31 (45%), Positives = 21/31 (67%)
Query: 32 SGEGSPSTVFVIMGVSGSGKSTIGESLATRL 62
+G SP + ++G SGSGKST+ +LA R+
Sbjct: 88 TGMASPGEILAVLGPSGSGKSTLLNALAGRI 118
>gnl|CDD|226164 COG3638, COG3638, ABC-type phosphate/phosphonate transport system,
ATPase component [Inorganic ion transport and
metabolism].
Length = 258
Score = 32.6 bits (75), Expect = 0.28
Identities = 26/97 (26%), Positives = 37/97 (38%), Gaps = 23/97 (23%)
Query: 42 VIMGVSGSGKSTIGESLATRL----GVKFIDGDHLHPQSNIDKMSAKQPLNDEDRRPWLN 97
I+G SG+GKST+ SL + G +G I K+ K+ R
Sbjct: 34 AIIGPSGAGKSTLLRSLNGLVDPTSGEILFNGV------QITKLKGKE------LRKLRR 81
Query: 98 NINRIIHQLN----VDNLTGVLVCSALRRNYRDIIRN 130
+I I Q N + L VL+ R Y R+
Sbjct: 82 DIGMIFQQFNLVPRLSVLENVLLG---RLGYTSTWRS 115
>gnl|CDD|188208 TIGR02323, CP_lyasePhnK, phosphonate C-P lyase system protein
PhnK. Members of this family are the PhnK protein of
C-P lyase systems for utilization of phosphonates.
These systems resemble phosphonatase-based systems in
having a three component ABC transporter, where
TIGR01097 is the permease, TIGR01098 is the
phosphonates binding protein, and TIGR02315 is the
ATP-binding cassette (ABC) protein. They differ,
however, in having, typically, ten or more additional
genes, many of which are believed to form a
membrane-associated complex. This protein (PhnK) and
the adjacent-encoded PhnL resemble transporter
ATP-binding proteins but are suggested, based on
mutatgenesis studies, to be part of this complex rather
than part of a transporter per se [Central intermediary
metabolism, Phosphorus compounds].
Length = 253
Score = 32.5 bits (74), Expect = 0.31
Identities = 15/26 (57%), Positives = 17/26 (65%)
Query: 37 PSTVFVIMGVSGSGKSTIGESLATRL 62
P V I+G SGSGKST+ LA RL
Sbjct: 28 PGEVLGIVGESGSGKSTLLGCLAGRL 53
>gnl|CDD|177850 PLN02199, PLN02199, shikimate kinase.
Length = 303
Score = 32.7 bits (74), Expect = 0.33
Identities = 14/34 (41%), Positives = 23/34 (67%)
Query: 43 IMGVSGSGKSTIGESLATRLGVKFIDGDHLHPQS 76
++G+ GSGK+T+G+ ++ LG F D D L Q+
Sbjct: 107 LVGMMGSGKTTVGKLMSKVLGYTFFDCDTLIEQA 140
>gnl|CDD|233959 TIGR02639, ClpA, ATP-dependent Clp protease ATP-binding subunit
clpA. [Protein fate, Degradation of proteins, peptides,
and glycopeptides].
Length = 730
Score = 32.7 bits (75), Expect = 0.37
Identities = 11/34 (32%), Positives = 18/34 (52%)
Query: 34 EGSPSTVFVIMGVSGSGKSTIGESLATRLGVKFI 67
P F+ +G +G GK+ + + LA LGV +
Sbjct: 479 PNKPVGSFLFVGPTGVGKTELAKQLAEELGVHLL 512
>gnl|CDD|226592 COG4107, PhnK, ABC-type phosphonate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 258
Score = 32.4 bits (74), Expect = 0.38
Identities = 12/26 (46%), Positives = 18/26 (69%)
Query: 37 PSTVFVIMGVSGSGKSTIGESLATRL 62
P V I+G SGSGK+T+ + ++ RL
Sbjct: 31 PGEVLGIVGESGSGKTTLLKCISGRL 56
>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 = 31.8 bits (72), Expect = 0.38
Identities = 12/40 (30%), Positives = 19/40 (47%), Gaps = 1/40 (2%)
Query: 26 TTTLSPSGEGSPSTVFVIMGVSGSGKSTIGESLATRLGVK 65
L + G P +V + G SG+GK+++ L L V
Sbjct: 13 LDALRRARSGGPPSVLLT-GPSGTGKTSLLRELLEGLLVA 51
>gnl|CDD|224052 COG1127, Ttg2A, ABC-type transport system involved in resistance
to organic solvents, ATPase component [Secondary
metabolites biosynthesis, transport, and catabolism].
Length = 263
Score = 32.2 bits (74), Expect = 0.44
Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 15/59 (25%)
Query: 31 PSGEGSPSTVFVIMGVSGSGKSTIGESLATRL----GVKFIDGDHLHPQSNIDKMSAKQ 85
P GE + I+G SGSGKST+ + L G IDG+ +I ++S ++
Sbjct: 32 PRGE-----ILAILGGSGSGKSTLLRLILGLLRPDKGEILIDGE------DIPQLSEEE 79
>gnl|CDD|213194 cd03227, ABC_Class2, ATP-binding cassette domain of
non-transporter proteins. ABC-type Class 2 contains
systems involved in cellular processes other than
transport. These families are characterized by the fact
that the ABC subunit is made up of duplicated, fused
ABC modules (ABC2). No known transmembrane proteins or
domains are associated with these proteins.
Length = 162
Score = 31.6 bits (72), Expect = 0.44
Identities = 11/33 (33%), Positives = 18/33 (54%)
Query: 34 EGSPSTVFVIMGVSGSGKSTIGESLATRLGVKF 66
++ +I G +GSGKSTI +++ LG
Sbjct: 17 TFGEGSLTIITGPNGSGKSTILDAIGLALGGAQ 49
>gnl|CDD|179157 PRK00889, PRK00889, adenylylsulfate kinase; Provisional.
Length = 175
Score = 31.5 bits (72), Expect = 0.48
Identities = 29/92 (31%), Positives = 42/92 (45%), Gaps = 21/92 (22%)
Query: 45 GVSGSGKSTIGESLATRL-----GVKFIDGD----HLHPQSNIDKMSAKQPLNDEDRRPW 95
G+SG+GK+TI +LA +L V+ +DGD +L S + EDR
Sbjct: 11 GLSGAGKTTIARALAEKLREAGYPVEVLDGDAVRTNL---------SKGLGFSKEDRD-- 59
Query: 96 LNNINRIIHQLNVDNLTGVLVCSALRRNYRDI 127
NI RI N+ GV+V + YR+
Sbjct: 60 -TNIRRIGFVANLLTRHGVIVLVSAISPYRET 90
>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 = 31.8 bits (73), Expect = 0.48
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 41 FVIMGVSGSGKSTIGESLATRLGVKFI 67
V++G GSGK T + +A + G+ I
Sbjct: 2 LVLLGPPGSGKGTQAKRIAEKYGLPHI 28
>gnl|CDD|238836 cd01673, dNK, Deoxyribonucleoside kinase (dNK) catalyzes the
phosphorylation of deoxyribonucleosides to yield
corresponding monophosphates (dNMPs). This family
consists of various deoxynucleoside kinases including
deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC
2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC
2.7.1.21) kinases. They are key enzymes in the salvage
of deoxyribonucleosides originating from extra- or
intracellular breakdown of DNA.
Length = 193
Score = 31.4 bits (72), Expect = 0.50
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 40 VFVIMGVSGSGKSTIGESLATRLGVKFI 67
V V+ G G+GKST+ + LA LG + +
Sbjct: 1 VIVVEGNIGAGKSTLAKELAEHLGYEVV 28
>gnl|CDD|224027 COG1102, Cmk, Cytidylate kinase [Nucleotide transport and
metabolism].
Length = 179
Score = 31.5 bits (72), Expect = 0.51
Identities = 13/28 (46%), Positives = 18/28 (64%)
Query: 40 VFVIMGVSGSGKSTIGESLATRLGVKFI 67
V I G+ GSGK+T+ LA LG+K +
Sbjct: 2 VITISGLPGSGKTTVARELAEHLGLKLV 29
>gnl|CDD|180682 PRK06761, PRK06761, hypothetical protein; Provisional.
Length = 282
Score = 32.0 bits (73), Expect = 0.54
Identities = 12/41 (29%), Positives = 20/41 (48%), Gaps = 6/41 (14%)
Query: 40 VFVIMGVSGSGKSTIGESLATRLGVK------FIDGDHLHP 74
+ +I G+ G GKST + L L +++G+ HP
Sbjct: 5 LIIIEGLPGFGKSTTAKMLNDILSQNGIEVELYLEGNLDHP 45
>gnl|CDD|180911 PRK07261, PRK07261, topology modulation protein; Provisional.
Length = 171
Score = 31.2 bits (71), Expect = 0.62
Identities = 15/36 (41%), Positives = 19/36 (52%)
Query: 42 VIMGVSGSGKSTIGESLATRLGVKFIDGDHLHPQSN 77
I+G SGSGKST+ L+ + D LH Q N
Sbjct: 4 AIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQPN 39
>gnl|CDD|217429 pfam03215, Rad17, Rad17 cell cycle checkpoint protein.
Length = 490
Score = 31.9 bits (72), Expect = 0.64
Identities = 15/52 (28%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 34 EGSPSTVFVIMGVSGSGKSTIGESLATRLGVKFID---GDHLHPQSNIDKMS 82
E + + ++ G SG GKST + L+ LG++ I+ ++LH N +
Sbjct: 41 ESNKQLILLLTGPSGCGKSTTVKVLSKELGIEIIEWSNPEYLHNPDNECQKP 92
>gnl|CDD|213228 cd03261, ABC_Org_Solvent_Resistant, ATP-binding cassette
transport system involved in resistant to organic
solvents. 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 = 235
Score = 31.3 bits (72), Expect = 0.65
Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 18/54 (33%)
Query: 40 VFVIMGVSGSGKSTIGESLATRLGVKFIDGDHLHPQS--------NIDKMSAKQ 85
+ I+G SGSGKST+ L +G+ L P S +I +S +
Sbjct: 28 ILAIIGPSGSGKSTL---LRLIVGL-------LRPDSGEVLIDGEDISGLSEAE 71
>gnl|CDD|236546 PRK09518, PRK09518, bifunctional cytidylate kinase/GTPase Der;
Reviewed.
Length = 712
Score = 32.1 bits (73), Expect = 0.68
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 43 IMGVSGSGKSTIGESLATRLGVKFID 68
I G +G GKS++ +LA LG ++D
Sbjct: 6 IDGPAGVGKSSVSRALAQYLGYAYLD 31
>gnl|CDD|224049 COG1124, DppF, ABC-type dipeptide/oligopeptide/nickel transport
system, ATPase component [Amino acid transport and
metabolism / Inorganic ion transport and metabolism].
Length = 252
Score = 31.5 bits (72), Expect = 0.69
Identities = 15/42 (35%), Positives = 18/42 (42%), Gaps = 4/42 (9%)
Query: 37 PSTVFVIMGVSGSGKSTIGESLATRLGVKF----IDGDHLHP 74
I+G SGSGKST+ LA +DG L P
Sbjct: 32 RGETLGIVGESGSGKSTLARLLAGLEKPSSGSILLDGKPLAP 73
>gnl|CDD|213201 cd03234, ABCG_White, White pigment protein homolog of ABCG
transporter subfamily. The White subfamily represents
ABC transporters homologous to the Drosophila white
gene, which acts as a dimeric importer for eye pigment
precursors. The eye pigmentation of Drosophila is
developed from the synthesis and deposition in the
cells of red pigments, which are synthesized from
guanine, and brown pigments, which are synthesized from
tryptophan. The pigment precursors are encoded by the
white, brown, and scarlet genes, respectively. Evidence
from genetic and biochemical studies suggest that the
White and Brown proteins function as heterodimers to
import guanine, while the White and Scarlet proteins
function to import tryptophan. However, a recent study
also suggests that White may be involved in the
transport of a metabolite, such as 3-hydroxykynurenine,
across intracellular membranes. Mammalian ABC
transporters belonging to the White subfamily (ABCG1,
ABCG5, and ABCG8) have been shown to be involved in the
regulation of lipid-trafficking mechanisms in
macrophages, hepatocytes, and intestinal mucosa cells.
ABCG1 (ABC8), the human homolog of the Drosophila white
gene is induced in monocyte-derived macrophages during
cholesterol influx mediated by acetylated low-density
lipoprotein. It is possible that human ABCG1 forms
heterodimers with several heterologous partners.
Length = 226
Score = 31.5 bits (72), Expect = 0.72
Identities = 15/52 (28%), Positives = 25/52 (48%), Gaps = 12/52 (23%)
Query: 31 PSGEGSPSTVFVIMGVSGSGKSTIGESLATRL-------GVKFIDGDHLHPQ 75
SG+ V I+G SGSGK+T+ ++++ R+ G +G P
Sbjct: 31 ESGQ-----VMAILGSSGSGKTTLLDAISGRVEGGGTTSGQILFNGQPRKPD 77
>gnl|CDD|233665 TIGR01978, sufC, FeS assembly ATPase SufC. SufC is part of the
SUF system, shown in E. coli to consist of six proteins
and believed to act in Fe-S cluster formation during
oxidative stress. SufC forms a complex with SufB and
SufD. SufC belongs to the ATP-binding cassette
transporter family (pfam00005) but is no longer thought
to be part of a transporter. The complex is reported as
cytosolic (PMID:12554644) or associated with the
membrane (PMID:11943156). The SUF system also includes
a cysteine desulfurase (SufS, enhanced by SufE) and a
probable iron-sulfur cluster assembly scaffold protein,
SufA [Biosynthesis of cofactors, prosthetic groups, and
carriers, Other].
Length = 243
Score = 31.5 bits (72), Expect = 0.77
Identities = 12/46 (26%), Positives = 23/46 (50%)
Query: 37 PSTVFVIMGVSGSGKSTIGESLATRLGVKFIDGDHLHPQSNIDKMS 82
+ IMG +GSGKST+ +++A + G L ++ ++
Sbjct: 25 KGEIHAIMGPNGSGKSTLSKTIAGHPSYEVTSGTILFKGQDLLELE 70
>gnl|CDD|215649 pfam00004, AAA, ATPase family associated with various cellular
activities (AAA). AAA family proteins often perform
chaperone-like functions that assist in the assembly,
operation, or disassembly of protein complexes.
Length = 131
Score = 30.3 bits (69), Expect = 0.82
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 45 GVSGSGKSTIGESLATRLGVKFI 67
G G+GK+T+ +++A LG FI
Sbjct: 5 GPPGTGKTTLAKAVAKELGAPFI 27
>gnl|CDD|114966 pfam06275, DUF1031, Protein of unknown function (DUF1031). This
family consists of several Lactococcus lactis
bacteriophage and Lactococcus lactis proteins of unknown
function.
Length = 80
Score = 29.3 bits (65), Expect = 0.88
Identities = 13/45 (28%), Positives = 20/45 (44%), Gaps = 13/45 (28%)
Query: 347 YADIRNKFNMPSHLNIEELAEKTPQTTKWFQLYIYRDREITKSLV 391
Y DI NKFN + KW +L+ + D+E+T+
Sbjct: 46 YLDICNKFNHGKDM-------------KWGELFKFLDKELTEDKQ 77
>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 = 31.5 bits (71), Expect = 0.96
Identities = 16/57 (28%), Positives = 24/57 (42%), Gaps = 8/57 (14%)
Query: 34 EGSPSTVFVIMGVSGSGKSTIGESLATRLGVKFIDGDHLHPQSNIDKMSAKQPLNDE 90
E +P + +I G SG GKST + L+ LG++ Q + ND
Sbjct: 106 ENAPKRILLITGPSGCGKSTTIKILSKELGIQV--------QEWSNPTLPDFQKNDH 154
>gnl|CDD|130261 TIGR01193, bacteriocin_ABC, ABC-type bacteriocin transporter. This
model describes ABC-type bacteriocin transporter. The
amino terminal domain (pfam03412) processes the
N-terminal leader peptide from the bacteriocin while
C-terminal domains resemble ABC transporter membrane
protein and ATP-binding cassette domain. In general,
bacteriocins are agents which are responsible for
killing or inhibiting the closely related species or
even different strains of the same species. Bacteriocins
are usually encoded by bacterial plasmids. Bacteriocins
are named after the species and hence in literature one
encounters various names e.g., leucocin from Leuconostic
geldium; pedicocin from Pedicoccus acidilactici; sakacin
from Lactobacillus sake etc [Protein fate, Protein and
peptide secretion and trafficking, Protein fate, Protein
modification and repair, Transport and binding proteins,
Other].
Length = 708
Score = 31.6 bits (72), Expect = 0.98
Identities = 16/52 (30%), Positives = 25/52 (48%), Gaps = 11/52 (21%)
Query: 43 IMGVSGSGKSTIGESLATRLGVKFIDGDH------LHPQSNIDKMSAKQPLN 88
I+G+SGSGKST+ +L V F +ID+ + +Q +N
Sbjct: 505 IVGMSGSGKSTL-----AKLLVGFFQARSGEILLNGFSLKDIDRHTLRQFIN 551
>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 = 30.9 bits (71), Expect = 1.0
Identities = 13/32 (40%), Positives = 18/32 (56%), Gaps = 4/32 (12%)
Query: 42 VIMGVSGSGKSTIGESLATRLGVK----FIDG 69
+I+G +GSGKST+ L LG +DG
Sbjct: 31 LIVGPNGSGKSTLLRLLNGLLGPTSGEVLVDG 62
>gnl|CDD|213199 cd03232, ABCG_PDR_domain2, Second domain of the pleiotropic drug
resistance-like (PDR) subfamily G of ATP-binding
cassette transporters. The pleiotropic drug resistance
(PDR) is a well-described phenomenon occurring in fungi
and shares several similarities with processes in
bacteria and higher eukaryotes. This PDR subfamily
represents domain I of its (ABC-IM)2 organization. ABC
transporters are a large family of proteins involved in
the transport of a wide variety of different compounds
including sugars, ions, peptides, and more complex
organic molecules. The nucleotide binding domain shows
the highest similarity between all members of the
family. ABC transporters are a subset of nucleotide
hydrolases that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to, the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing
proteins.
Length = 192
Score = 30.7 bits (70), Expect = 1.0
Identities = 16/39 (41%), Positives = 23/39 (58%)
Query: 32 SGEGSPSTVFVIMGVSGSGKSTIGESLATRLGVKFIDGD 70
SG P T+ +MG SG+GK+T+ + LA R I G+
Sbjct: 27 SGYVKPGTLTALMGESGAGKTTLLDVLAGRKTAGVITGE 65
>gnl|CDD|183452 PRK12337, PRK12337, 2-phosphoglycerate kinase; Provisional.
Length = 475
Score = 31.3 bits (71), Expect = 1.1
Identities = 13/25 (52%), Positives = 17/25 (68%)
Query: 40 VFVIMGVSGSGKSTIGESLATRLGV 64
+I GVSG GKS + +LA RLG+
Sbjct: 257 HVLIGGVSGVGKSVLASALAYRLGI 281
>gnl|CDD|172457 PRK13951, PRK13951, bifunctional shikimate
kinase/3-dehydroquinate synthase; Provisional.
Length = 488
Score = 31.4 bits (71), Expect = 1.1
Identities = 14/28 (50%), Positives = 22/28 (78%)
Query: 43 IMGVSGSGKSTIGESLATRLGVKFIDGD 70
++G+ GSGKSTIG+ ++ L ++FID D
Sbjct: 5 LVGMMGSGKSTIGKRVSEVLDLQFIDMD 32
>gnl|CDD|179660 PRK03839, PRK03839, putative kinase; Provisional.
Length = 180
Score = 30.5 bits (69), Expect = 1.1
Identities = 11/26 (42%), Positives = 18/26 (69%)
Query: 43 IMGVSGSGKSTIGESLATRLGVKFID 68
I G G GK+T+ + LA +LG +++D
Sbjct: 5 ITGTPGVGKTTVSKLLAEKLGYEYVD 30
>gnl|CDD|224059 COG1136, SalX, ABC-type antimicrobial peptide transport system,
ATPase component [Defense mechanisms].
Length = 226
Score = 30.6 bits (70), Expect = 1.1
Identities = 11/14 (78%), Positives = 12/14 (85%), Gaps = 1/14 (7%)
Query: 41 FV-IMGVSGSGKST 53
FV I+G SGSGKST
Sbjct: 33 FVAIVGPSGSGKST 46
>gnl|CDD|224048 COG1123, COG1123, ATPase components of various ABC-type transport
systems, contain duplicated ATPase [General function
prediction only].
Length = 539
Score = 31.0 bits (71), Expect = 1.2
Identities = 14/38 (36%), Positives = 17/38 (44%), Gaps = 4/38 (10%)
Query: 37 PSTVFVIMGVSGSGKSTIGESLATRL----GVKFIDGD 70
++G SGSGKST+ LA L G DG
Sbjct: 316 EGETLGLVGESGSGKSTLARILAGLLPPSSGSIIFDGQ 353
>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 = 29.8 bits (68), Expect = 1.2
Identities = 8/15 (53%), Positives = 11/15 (73%)
Query: 40 VFVIMGVSGSGKSTI 54
+ V+ G SG GKST+
Sbjct: 1 LIVLSGPSGVGKSTL 15
>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 = 30.6 bits (70), Expect = 1.2
Identities = 11/15 (73%), Positives = 13/15 (86%)
Query: 40 VFVIMGVSGSGKSTI 54
V VI+G SGSGKST+
Sbjct: 28 VVVIIGPSGSGKSTL 42
>gnl|CDD|182152 PRK09932, PRK09932, glycerate kinase II; Provisional.
Length = 381
Score = 31.0 bits (70), Expect = 1.3
Identities = 20/69 (28%), Positives = 33/69 (47%), Gaps = 1/69 (1%)
Query: 42 VIMGVSGSGKSTIGESLATRLGVKFIDGDHLHPQSNIDKMSAKQPLNDEDRRPWLNNINR 101
+I+G+ GS G +A LGV+F+D D +N ++ + ++ P L N
Sbjct: 129 IILGIGGSATVDGGMGMAQALGVRFLDADGQVLGANGGNLARVASIEMDECDPRLANC-H 187
Query: 102 IIHQLNVDN 110
I +VDN
Sbjct: 188 IEVACDVDN 196
>gnl|CDD|219839 pfam08433, KTI12, Chromatin associated protein KTI12. This is a
family of chromatin associated proteins which interact
with the Elongator complex, a component of the
elongating form of RNA polymerase II. The Elongator
complex has histone acetyltransferase activity.
Length = 266
Score = 30.7 bits (70), Expect = 1.3
Identities = 46/192 (23%), Positives = 76/192 (39%), Gaps = 37/192 (19%)
Query: 42 VIMGVSGSGKSTIGESLATRL-----GVKFIDGDHLHPQSNIDKMSAKQPLNDEDRRPWL 96
++ G+ SGKST + LA L V I + L I+ K ++ R L
Sbjct: 3 ILTGLPSSGKSTRAKELAKYLEEKGYDVIVISDESLG----IESDDYKDSKKEKFLRGSL 58
Query: 97 N-NINRIIHQLNVDNLTGVLVCSALRRNY-----RDII---RNNN-RVVFIYLKAEFGVI 146
+ R ++ T V+V S NY ++ + +Y KA
Sbjct: 59 RSAVKR-----DLSKNTIVIVDSL---NYIKGFRYELYCIAKEAKTTYCVVYCKAPLDTC 110
Query: 147 LSRLQKRAEHFMPADLLESQFQTLEEPD-------PLVE-PDVRTVSVNEPLEGIVSKSA 198
L ++R E P +LL+ +Q EEP+ PL D + ++E L+ ++ KS
Sbjct: 111 LKWNEERGEPSWPDELLDQLYQRFEEPNSKNRWDSPLFTVLDDEDLPLDEILKALIEKSK 170
Query: 199 IMP--PTRAPPN 208
+ P T+ P
Sbjct: 171 LPPNQATQLKPL 182
>gnl|CDD|226425 COG3910, COG3910, Predicted ATPase [General function prediction
only].
Length = 233
Score = 30.5 bits (69), Expect = 1.4
Identities = 13/38 (34%), Positives = 19/38 (50%), Gaps = 2/38 (5%)
Query: 36 SPSTVFVIMGVSGSGKSTIGESLATRLGVKFIDGDHLH 73
+P T G +GSGKST+ E++A +G G
Sbjct: 37 APITFIT--GENGSGKSTLLEAIAAGMGFNAAGGGKNF 72
>gnl|CDD|223256 COG0178, UvrA, Excinuclease ATPase subunit [DNA replication,
recombination, and repair].
Length = 935
Score = 31.0 bits (71), Expect = 1.4
Identities = 16/48 (33%), Positives = 23/48 (47%), Gaps = 8/48 (16%)
Query: 42 VIMGVSGSGKST-IGESL----ATRLG---VKFIDGDHLHPQSNIDKM 81
+ GVSGSGKST I ++L A L + + +IDK+
Sbjct: 631 CVTGVSGSGKSTLINDTLVPALARHLNGTKEEPGPYKKIEGLEHIDKV 678
Score = 29.1 bits (66), Expect = 5.8
Identities = 12/18 (66%), Positives = 13/18 (72%), Gaps = 4/18 (22%)
Query: 42 VIMGVSGSGKSTIGESLA 59
VI G+SGSGKS SLA
Sbjct: 30 VITGLSGSGKS----SLA 43
>gnl|CDD|234734 PRK00349, uvrA, excinuclease ABC subunit A; Reviewed.
Length = 943
Score = 31.2 bits (72), Expect = 1.5
Identities = 10/15 (66%), Positives = 11/15 (73%), Gaps = 1/15 (6%)
Query: 40 VFV-IMGVSGSGKST 53
F + GVSGSGKST
Sbjct: 636 KFTCVTGVSGSGKST 650
Score = 30.4 bits (70), Expect = 2.4
Identities = 11/18 (61%), Positives = 12/18 (66%), Gaps = 4/18 (22%)
Query: 42 VIMGVSGSGKSTIGESLA 59
V G+SGSGKS SLA
Sbjct: 30 VFTGLSGSGKS----SLA 43
>gnl|CDD|179793 PRK04220, PRK04220, 2-phosphoglycerate kinase; Provisional.
Length = 301
Score = 30.3 bits (69), Expect = 1.6
Identities = 13/23 (56%), Positives = 16/23 (69%)
Query: 43 IMGVSGSGKSTIGESLATRLGVK 65
I G SG G STI LA+RLG++
Sbjct: 97 IGGASGVGTSTIAFELASRLGIR 119
>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 = 30.3 bits (69), Expect = 1.7
Identities = 19/64 (29%), Positives = 30/64 (46%), Gaps = 15/64 (23%)
Query: 42 VIMGVSGSGKST-IGESLATRLGVKFIDGDHLHPQSNIDKMSAKQPLNDEDRRPWLNNIN 100
+ GVSGSGKS+ I ++L L + + +QP N DR L +I+
Sbjct: 25 CVTGVSGSGKSSLINDTLYPAL-------------ARRLHLKKEQPGN-HDRIEGLEHID 70
Query: 101 RIIH 104
++I
Sbjct: 71 KVIV 74
>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 = 29.7 bits (68), Expect = 1.7
Identities = 22/69 (31%), Positives = 25/69 (36%), Gaps = 22/69 (31%)
Query: 42 VIMGVSGSGKSTIGESLATRL-----GVKFIDGDHLHPQSNIDKMSAKQPLNDEDRRPWL 96
I+G SGSGKST+ L RL G IDG L D D
Sbjct: 32 AIVGPSGSGKSTLL-KLLLRLYDPTSGEILIDG---------------VDLRDLDLESLR 75
Query: 97 NNINRIIHQ 105
NI + Q
Sbjct: 76 KNIA-YVPQ 83
>gnl|CDD|233039 TIGR00594, polc, DNA-directed DNA polymerase III (polc). All
proteins in this family for which functions are known
are DNA polymerases. 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 = 1022
Score = 30.8 bits (70), Expect = 1.8
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 319 TKSLVQRAEKAGYKALVLTVDTNVFG 344
K LV++A++ G AL LT N+FG
Sbjct: 19 IKPLVKKAKELGMPALALTDHGNMFG 44
Score = 30.8 bits (70), Expect = 1.8
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 387 TKSLVQRAEKAGYKALVLTVDTNVFG 412
K LV++A++ G AL LT N+FG
Sbjct: 19 IKPLVKKAKELGMPALALTDHGNMFG 44
>gnl|CDD|213230 cd03263, ABC_subfamily_A, ATP-binding cassette domain of the
lipid transporters, subfamily A. The ABCA subfamily
mediates the transport of a variety of lipid compounds.
Mutations of members of ABCA subfamily are associated
with human genetic diseases, such as, familial
high-density lipoprotein (HDL) deficiency, neonatal
surfactant deficiency, degenerative retinopathies, and
congenital keratinization disorders. The ABCA1 protein
is involved in disorders of cholesterol transport and
high-density lipoprotein (HDL) biosynthesis. The ABCA4
(ABCR) protein transports vitamin A derivatives in the
outer segments of photoreceptor cells, and therefore,
performs a crucial step in the visual cycle. The ABCA
genes are not present in yeast. However, evolutionary
studies of ABCA genes indicate that they arose as
transporters that subsequently duplicated and that
certain sets of ABCA genes were lost in different
eukaryotic lineages.
Length = 220
Score = 29.8 bits (68), Expect = 2.0
Identities = 6/18 (33%), Positives = 12/18 (66%)
Query: 37 PSTVFVIMGVSGSGKSTI 54
+F ++G +G+GK+T
Sbjct: 27 KGEIFGLLGHNGAGKTTT 44
>gnl|CDD|193518 cd05639, M18, M18 Peptidase aminopeptidase family. Peptidase M18
aminopeptidase family is widely distributed in bacteria
and eukaryotes, but only the yeast aminopeptidase I and
mammalian aspartyl aminopeptidase have been
characterized to date. Yeast aminopeptidase I is active
only in its dodecameric form with broad substrate
specificity, acting on N-terminal leucine and most other
amino acids. In contrast, the mammalian aspartyl
aminopeptidase is highly selective for hydrolysis of
N-terminal Asp or Glu residues from peptides. These
enzymes have two catalytic zinc ions at the active site.
Length = 427
Score = 30.1 bits (68), Expect = 2.2
Identities = 13/34 (38%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 35 GSPSTVFVIMGVSGSGKSTIGESLATRLGVKFID 68
V + S SG TIG LA R G++ ID
Sbjct: 363 NVKWQVATLKNNSPSG-GTIGPFLAARTGIRTID 395
>gnl|CDD|223272 COG0194, Gmk, Guanylate kinase [Nucleotide transport and
metabolism].
Length = 191
Score = 29.4 bits (67), Expect = 2.3
Identities = 11/32 (34%), Positives = 18/32 (56%)
Query: 36 SPSTVFVIMGVSGSGKSTIGESLATRLGVKFI 67
S + V+ G SG GKST+ ++L ++F
Sbjct: 2 SKGLLIVLSGPSGVGKSTLVKALLEDDKLRFS 33
>gnl|CDD|215190 PLN02332, PLN02332, membrane bound O-acyl transferase (MBOAT)
family protein.
Length = 465
Score = 30.4 bits (69), Expect = 2.3
Identities = 14/51 (27%), Positives = 23/51 (45%), Gaps = 14/51 (27%)
Query: 355 NMPSHLNIEELAEKTPQTTKWFQLYIYRDREITKSLVQRAEKAGYKALVLT 405
+P NI Q + W + Y+Y +R LV + +K G+ L+ T
Sbjct: 314 QIPLVWNI--------QVSTWLRHYVY-ER-----LVPKGKKPGFFQLLAT 350
Score = 28.5 bits (64), Expect = 8.8
Identities = 11/35 (31%), Positives = 19/35 (54%), Gaps = 6/35 (17%)
Query: 303 QTTKWFQLYIYRDREITKSLVQRAEKAGYKALVLT 337
Q + W + Y+Y +R LV + +K G+ L+ T
Sbjct: 322 QVSTWLRHYVY-ER-----LVPKGKKPGFFQLLAT 350
>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 = 29.8 bits (68), Expect = 2.3
Identities = 11/14 (78%), Positives = 12/14 (85%), Gaps = 1/14 (7%)
Query: 41 FV-IMGVSGSGKST 53
FV I+G SGSGKST
Sbjct: 32 FVAIVGPSGSGKST 45
>gnl|CDD|220440 pfam09848, DUF2075, Uncharacterized conserved protein (DUF2075).
This domain, found in various prokaryotic proteins
(including putative ATP/GTP binding proteins), has no
known function.
Length = 348
Score = 29.9 bits (68), Expect = 2.4
Identities = 11/39 (28%), Positives = 19/39 (48%), Gaps = 7/39 (17%)
Query: 40 VFVIMGVSGSGKSTIGESLATRLG-------VKFIDGDH 71
VF++ G G+GK+ + +L L F+ G+H
Sbjct: 3 VFLVTGGPGTGKTVVALNLFAELSDSDLGRTAVFLSGNH 41
>gnl|CDD|238980 cd02022, DPCK, Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24)
catalyzes the phosphorylation of dephosphocoenzyme A
(dCoA) to yield CoA, which is the final step in CoA
biosynthesis.
Length = 179
Score = 29.4 bits (67), Expect = 2.5
Identities = 22/84 (26%), Positives = 29/84 (34%), Gaps = 29/84 (34%)
Query: 48 GSGKSTIGESLATRLGVKFIDGD---H---------------------LHPQSNID-KMS 82
GSGKST+ + L LG+ ID D H L +D K
Sbjct: 9 GSGKSTVAKLLKE-LGIPVIDADKIAHEVYEPGGPALQAIVEAFGPDILLEDGELDRKKL 67
Query: 83 AKQPLNDEDRRPWLNNINRIIHQL 106
+ D ++R L I H L
Sbjct: 68 GEIVFADPEKRKKLEA---ITHPL 88
>gnl|CDD|184458 PRK14021, PRK14021, bifunctional shikimate
kinase/3-dehydroquinate synthase; Provisional.
Length = 542
Score = 30.2 bits (68), Expect = 2.5
Identities = 11/29 (37%), Positives = 20/29 (68%)
Query: 42 VIMGVSGSGKSTIGESLATRLGVKFIDGD 70
VI+G+ G+GK+ +G+ +A + + F D D
Sbjct: 10 VIIGMMGAGKTRVGKEVAQMMRLPFADAD 38
>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 = 2.5
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 40 VFVIMGVSGSGKSTIGESLATRL 62
V V+ G G GK+T+ +LA L
Sbjct: 1 VIVVTGKGGVGKTTLAANLAAAL 23
>gnl|CDD|172735 PRK14247, PRK14247, phosphate ABC transporter ATP-binding
protein; Provisional.
Length = 250
Score = 29.9 bits (67), Expect = 2.5
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 37 PSTVFVIMGVSGSGKSTI 54
+T+ +MG SGSGKST+
Sbjct: 28 DNTITALMGPSGSGKSTL 45
>gnl|CDD|216938 pfam02225, PA, PA domain. The PA (Protease associated) domain is
found as an insert domain in diverse proteases. The PA
domain is also found in a plant vacuolar sorting
receptor and members of the RZF family. It has been
suggested that this domain forms a lid-like structure
that covers the active site in active proteases, and is
involved in protein recognition in vacuolar sorting
receptors.
Length = 96
Score = 28.3 bits (63), Expect = 2.6
Identities = 4/36 (11%), Positives = 13/36 (36%)
Query: 323 VQRAEKAGYKALVLTVDTNVFGTRYADIRNKFNMPS 358
+ A++AG +++ + + +P
Sbjct: 50 AENAQRAGAAGVIIYNNDTGGLGGTVGDPSDVTIPV 85
Score = 28.3 bits (63), Expect = 2.6
Identities = 4/36 (11%), Positives = 13/36 (36%)
Query: 391 VQRAEKAGYKALVLTVDTNVFGTRYADIRNKFNMPS 426
+ A++AG +++ + + +P
Sbjct: 50 AENAQRAGAAGVIIYNNDTGGLGGTVGDPSDVTIPV 85
>gnl|CDD|222036 pfam13304, AAA_21, AAA domain.
Length = 256
Score = 29.7 bits (66), Expect = 2.8
Identities = 10/20 (50%), Positives = 16/20 (80%)
Query: 40 VFVIMGVSGSGKSTIGESLA 59
+ VI+G +GSGKS + ++LA
Sbjct: 1 LNVIIGPNGSGKSNLLKALA 20
>gnl|CDD|235594 PRK05761, PRK05761, DNA polymerase I; Reviewed.
Length = 787
Score = 30.0 bits (68), Expect = 2.8
Identities = 15/40 (37%), Positives = 17/40 (42%), Gaps = 5/40 (12%)
Query: 282 GIYILSTISTTSIEELAEKTPQTTKWFQLYIY---RDREI 318
I +LS IS IEEL+ T T W Y R R
Sbjct: 344 LILLLSRISKLPIEELSRATIST--WISNLEYWEHRKRGW 381
>gnl|CDD|224815 COG1903, CbiD, Cobalamin biosynthesis protein CbiD [Coenzyme
metabolism].
Length = 367
Score = 29.6 bits (67), Expect = 2.9
Identities = 24/88 (27%), Positives = 34/88 (38%), Gaps = 19/88 (21%)
Query: 276 AVGEVGGIYILSTISTTSIEELAEKTPQTTKWFQLYIYRDREITKSLVQRAEKAGYKALV 335
+G VGGI IL TT I E P + + + I +S + A AG +V
Sbjct: 163 RLGIVGGISIL---GTTGIVE-----PMSEEAYLASI-------RSELDVARAAGLDHVV 207
Query: 336 LTVDTNVFGTRYADIRNKFNMPSHLNIE 363
G YA R F +P ++
Sbjct: 208 FCPGNT--GEDYA--RKLFILPEQAIVK 231
>gnl|CDD|213205 cd03238, ABC_UvrA, ATP-binding cassette domain 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 = 176
Score = 29.2 bits (66), Expect = 3.0
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 41 FVIMGVSGSGKSTI 54
V+ GVSGSGKST+
Sbjct: 24 VVVTGVSGSGKSTL 37
>gnl|CDD|182221 PRK10070, PRK10070, glycine betaine transporter ATP-binding
subunit; Provisional.
Length = 400
Score = 29.6 bits (66), Expect = 3.1
Identities = 12/15 (80%), Positives = 15/15 (100%)
Query: 40 VFVIMGVSGSGKSTI 54
+FVIMG+SGSGKST+
Sbjct: 56 IFVIMGLSGSGKSTM 70
>gnl|CDD|224540 COG1625, COG1625, Fe-S oxidoreductase, related to NifB/MoaA family
[Energy production and conversion].
Length = 414
Score = 29.7 bits (67), Expect = 3.1
Identities = 14/99 (14%), Positives = 24/99 (24%), Gaps = 14/99 (14%)
Query: 201 PPTRAPPNYSDFVCVDDFEQFALKVLRIRPRVMRDLSKRTLVTDALGHPVQIPIGVSPA- 259
P F Q V IR + + T++T + P I
Sbjct: 256 TPLPDALLGEPF------PQLEDGVGEIREFLPEVDFEATILTGEIAAPRIRTIVRGLEK 309
Query: 260 ----AMQKLAHEEGEIGNAAAVGEVGGIYILSTISTTSI 294
+ K + G + A + I +
Sbjct: 310 AEEVNVVKNEKDGGLLITARDLENR---DFGREIEVALL 345
>gnl|CDD|213224 cd03257, ABC_NikE_OppD_transporters, ATP-binding cassette domain
of nickel/oligopeptides specific transporters. The ABC
transporter subfamily specific for the transport of
dipeptides, oligopeptides (OppD), and nickel (NikDE).
The NikABCDE system of E. coli belongs to this family
and is composed of the periplasmic binding protein
NikA, two integral membrane components (NikB and NikC),
and two ATPase (NikD and NikE). The NikABCDE
transporter is synthesized under anaerobic conditions
to meet the increased demand for nickel resulting from
hydrogenase synthesis. The molecular mechanism of
nickel uptake in many bacteria and most archaea is not
known. Many other members of this ABC family are also
involved in the uptake of dipeptides and oligopeptides.
The oligopeptide transport system (Opp) is a
five-component ABC transport composed of a
membrane-anchored substrate binding proteins (SRP),
OppA, two transmembrane proteins, OppB and OppC, and
two ATP-binding domains, OppD and OppF.
Length = 228
Score = 29.4 bits (67), Expect = 3.1
Identities = 8/20 (40%), Positives = 13/20 (65%)
Query: 40 VFVIMGVSGSGKSTIGESLA 59
++G SGSGKST+ ++
Sbjct: 33 TLGLVGESGSGKSTLARAIL 52
>gnl|CDD|197753 smart00481, POLIIIAc, DNA polymerase alpha chain like domain. DNA
polymerase alpha chain like domain, incl. family of
hypothetical proteins.
Length = 67
Score = 27.2 bits (61), Expect = 3.5
Identities = 11/23 (47%), Positives = 17/23 (73%)
Query: 322 LVQRAEKAGYKALVLTVDTNVFG 344
LV+RA++ G KA+ +T N+FG
Sbjct: 20 LVKRAKELGLKAIAITDHGNLFG 42
Score = 27.2 bits (61), Expect = 3.5
Identities = 11/23 (47%), Positives = 17/23 (73%)
Query: 390 LVQRAEKAGYKALVLTVDTNVFG 412
LV+RA++ G KA+ +T N+FG
Sbjct: 20 LVKRAKELGLKAIAITDHGNLFG 42
>gnl|CDD|238988 cd02030, NDUO42, NADH:Ubiquinone oxioreductase, 42 kDa (NDUO42)
is a family of proteins that are highly similar to
deoxyribonucleoside kinases (dNK). Members of this
family have been identified as one of the subunits of
NADH:Ubiquinone oxioreductase (complex I), a
multi-protein complex located in the inner
mitochondrial membrane. The main function of the
complex is to transport electrons from NADH to
ubiquinone, which is accompanied by the translocation
of protons from the mitochondrial matrix to the inter
membrane space.
Length = 219
Score = 29.2 bits (66), Expect = 3.6
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 40 VFVIMGVSGSGKSTIGESLATRLGVKF 66
V + G SGK + + LA +LG+K+
Sbjct: 1 VITVDGNIASGKGKLAKELAEKLGMKY 27
>gnl|CDD|181235 PRK08118, PRK08118, topology modulation protein; Reviewed.
Length = 167
Score = 28.8 bits (65), Expect = 3.7
Identities = 11/31 (35%), Positives = 17/31 (54%), Gaps = 3/31 (9%)
Query: 42 VIMGVSGSGKSTIGESLATRLGVKFIDGDHL 72
+++G GSGKST+ L +L + HL
Sbjct: 5 ILIGSGGSGKSTLARQLGEKLNIPVH---HL 32
>gnl|CDD|221957 pfam13175, AAA_15, AAA ATPase domain. This family of domains
contain a P-loop motif that is characteristic of the
AAA superfamily.
Length = 320
Score = 29.3 bits (66), Expect = 3.8
Identities = 16/47 (34%), Positives = 25/47 (53%)
Query: 42 VIMGVSGSGKSTIGESLATRLGVKFIDGDHLHPQSNIDKMSAKQPLN 88
VI+G +GSGK+TI E+L K I +++IDK + +
Sbjct: 26 VIIGENGSGKTTILEALDNLKEKKKIYISISDNKADIDKENLNKKSK 72
>gnl|CDD|224026 COG1101, PhnK, ABC-type uncharacterized transport system, ATPase
component [General function prediction only].
Length = 263
Score = 29.2 bits (66), Expect = 3.9
Identities = 14/48 (29%), Positives = 24/48 (50%), Gaps = 10/48 (20%)
Query: 42 VIMGVSGSGKSTIGESLATRL----GVKFIDGDHLHPQSNIDKMSAKQ 85
++G +G+GKST+ ++A L G IDG ++ K S +
Sbjct: 36 TVIGSNGAGKSTLLNAIAGDLKPTSGQILIDG------VDVTKKSVAK 77
>gnl|CDD|161676 TIGR00041, DTMP_kinase, thymidylate kinase. Function:
phosphorylation of DTMP to form DTDP in both de novo
and salvage pathways of DTTP synthesis. Catalytic
activity: ATP + thymidine 5'-phosphate = ADP +
thymidine 5'-diphosphate [Purines, pyrimidines,
nucleosides, and nucleotides, Nucleotide and nucleoside
interconversions].
Length = 195
Score = 28.9 bits (65), Expect = 4.0
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 42 VIMGVSGSGKSTIGESLATRL 62
VI G+ G+GK+T L L
Sbjct: 7 VIEGIDGAGKTTQANLLKKLL 27
>gnl|CDD|217424 pfam03205, MobB, Molybdopterin guanine dinucleotide synthesis
protein B. This protein contains a P-loop.
Length = 126
Score = 28.1 bits (63), Expect = 4.1
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 4/45 (8%)
Query: 40 VFVIMGVSGSGKSTIGESL---ATRLGVKFIDGDHL-HPQSNIDK 80
+ +++G SGK+T+ L R G + HL H Q IDK
Sbjct: 2 IVLVVGPKDSGKTTLIRKLLNYLKRRGYRVAVVKHLDHGQGEIDK 46
>gnl|CDD|213264 cd03297, ABC_ModC_molybdenum_transporter, ATP-binding cassette
domain of the molybdenum transport system. ModC is an
ABC-type transporter and the ATPase component of a
molybdate transport system that also includes the
periplasmic binding protein ModA and the membrane
protein ModB. 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 = 214
Score = 28.8 bits (65), Expect = 4.1
Identities = 13/36 (36%), Positives = 19/36 (52%), Gaps = 3/36 (8%)
Query: 37 PSTVFVIMGVSGSGKSTIGESLATRLGVKFIDGDHL 72
V I G SG+GKST+ +A G++ DG +
Sbjct: 22 NEEVTGIFGASGAGKSTLLRCIA---GLEKPDGGTI 54
>gnl|CDD|234620 PRK00081, coaE, dephospho-CoA kinase; Reviewed.
Length = 194
Score = 28.5 bits (65), Expect = 4.4
Identities = 21/85 (24%), Positives = 27/85 (31%), Gaps = 31/85 (36%)
Query: 48 GSGKSTIGESLATRLGVKFIDGDH------------------------LHPQSNID--KM 81
GSGKST+ A LG ID D L +D K+
Sbjct: 12 GSGKSTVANLFA-ELGAPVIDADAIAHEVVEPGGPALQAIVEAFGPEILDADGELDRAKL 70
Query: 82 SAKQPLNDEDRRPWLNNINRIIHQL 106
+D + R L I+H L
Sbjct: 71 RELV-FSDPEARKKLEA---ILHPL 91
>gnl|CDD|222194 pfam13521, AAA_28, AAA domain.
Length = 162
Score = 28.3 bits (64), Expect = 4.5
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 41 FVIMGVSGSGKSTIGESLATR 61
VI G +GK+T+ E+LA R
Sbjct: 2 IVITGGPSTGKTTLLEALAAR 22
>gnl|CDD|213207 cd03240, ABC_Rad50, ATP-binding cassette domain of Rad50. The
catalytic domains of Rad50 are similar to the
ATP-binding cassette of ABC transporters, but are not
associated with membrane-spanning domains. The
conserved ATP-binding motifs common to Rad50 and the
ABC transporter family include the Walker A and Walker
B motifs, the Q loop, a histidine residue in the switch
region, a D-loop, and a conserved LSGG sequence. This
conserved sequence, LSGG, is the most specific and
characteristic motif of this family and is thus known
as the ABC signature sequence.
Length = 204
Score = 28.7 bits (65), Expect = 4.7
Identities = 9/19 (47%), Positives = 16/19 (84%)
Query: 40 VFVIMGVSGSGKSTIGESL 58
+ +I+G +G+GK+TI E+L
Sbjct: 24 LTLIVGQNGAGKTTIIEAL 42
>gnl|CDD|226986 COG4639, COG4639, Predicted kinase [General function prediction
only].
Length = 168
Score = 28.6 bits (64), Expect = 4.8
Identities = 28/157 (17%), Positives = 57/157 (36%), Gaps = 14/157 (8%)
Query: 39 TVFVIMGVSGSGKSTIGESLATRLGVKF--IDGDHLHPQSNIDKMSAKQPLNDEDRRPWL 96
+ V+ G SGSGKST A ++ + D L + + ++K+ D W
Sbjct: 3 ILVVLRGASGSGKST----FAKENFLQNYVLSLDDL--RLLLGVSASKENSQKNDELVWD 56
Query: 97 NNINRIIHQLNVDNLT---GVLVCSALRRNYRDIIRNNN-RVVFIYLKAEFGVILSRLQK 152
++ +L T + RR D+ + ++ I + L+R +
Sbjct: 57 ILYKQLEQRLRRGKFTIIDATNLRREDRRKLIDLAKAYGYKIYAIVFDTPLELCLARNKL 116
Query: 153 RAEHFMPADLLESQFQTLEEPDPLVEPDVRTVSVNEP 189
R P +++ + + EP +++ P
Sbjct: 117 RERQV-PEEVIPRMLRETIDLLEK-EPFRYVWTLSSP 151
>gnl|CDD|188317 TIGR03415, ABC_choXWV_ATP, choline ABC transporter, ATP-binding
protein. Members of this protein family are the
ATP-binding subunit of a three-protein transporter.
This family belongs, more broadly, to the family of
proline and glycine-betaine transporters, but members
have been identified by direct characterization and by
bioinformatic means as choline transporters. Many
species have several closely-related members of this
family, probably with variable abilities to act
additionally on related quaternary amines [Transport
and binding proteins, Amino acids, peptides and
amines].
Length = 382
Score = 29.0 bits (65), Expect = 4.8
Identities = 10/13 (76%), Positives = 13/13 (100%)
Query: 42 VIMGVSGSGKSTI 54
V+MG+SGSGKST+
Sbjct: 54 VLMGLSGSGKSTL 66
>gnl|CDD|232797 TIGR00045, TIGR00045, glycerate kinase. The only characterized
member of this family so far is the glycerate kinase
GlxK (EC 2.7.1.31) of E. coli. This enzyme acts after
glyoxylate carboligase and 2-hydroxy-3-oxopropionate
reductase (tartronate semialdehyde reductase) in the
conversion of glyoxylate to 3-phosphoglycerate (the
D-glycerate pathway) as a part of allantoin degradation
[Energy metabolism, Other].
Length = 375
Score = 29.2 bits (66), Expect = 4.9
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 42 VIMGVSGSGKSTIGESLATRLGVKFIDGD 70
+I+G+ GS + G + LGV+F+D D
Sbjct: 128 IILGIGGSATNDGGAGMLQALGVRFLDAD 156
>gnl|CDD|110723 pfam01745, IPT, Isopentenyl transferase. Isopentenyl transferase /
dimethylallyl transferase synthesises
isopentenyladensosine 5'-monophosphate, a cytokinin that
induces shoot formation on host plants infected with the
Ti plasmid.
Length = 232
Score = 28.9 bits (65), Expect = 5.1
Identities = 29/111 (26%), Positives = 46/111 (41%), Gaps = 21/111 (18%)
Query: 40 VFVIMGVSGSGKSTIGESLATRLGVKFIDGDHLHPQSNIDKMSAKQPLNDE---DRRPWL 96
+++I G + +GK+ +LA G I D + S + S + PL E RR +L
Sbjct: 3 LYLIWGATCTGKTAEAIALAKETGWPVIVLDRVQCCSQLATGSGR-PLPAELQGTRRIYL 61
Query: 97 NNINRIIHQLNVDNLTGVLVCSALRRNYRDIIRNNNRVVFIYLKAEFGVIL 147
NR + + G++ A + R I + K E GVIL
Sbjct: 62 --DNRPLSE-------GII--DAEEAHDRLIAEVTSH------KDEGGVIL 95
>gnl|CDD|131368 TIGR02315, ABC_phnC, phosphonate ABC transporter, ATP-binding
protein. Phosphonates are a class of
phosphorus-containing organic compound with a stable
direct C-P bond rather than a C-O-P linkage. A number of
bacterial species have operons, typically about 14 genes
in size, with genes for ATP-dependent transport of
phosphonates, degradation, and regulation of the
expression of the system. Members of this protein family
are the ATP-binding cassette component of tripartite ABC
transporters of phosphonates [Transport and binding
proteins, Anions].
Length = 243
Score = 28.8 bits (65), Expect = 5.4
Identities = 22/83 (26%), Positives = 34/83 (40%), Gaps = 19/83 (22%)
Query: 36 SPSTVFVIMGVSGSGKSTIGESLATRL-----GVKFIDGDHLHPQSNIDKMSAKQPLNDE 90
+P I+G SG+GKST+ + RL G ++G ++I K+ K
Sbjct: 26 NPGEFVAIIGPSGAGKSTLLRCI-NRLVEPSSGSILLEG------TDITKLRGK------ 72
Query: 91 DRRPWLNNINRIIHQLN-VDNLT 112
R I I N ++ LT
Sbjct: 73 KLRKLRRRIGMIFQHYNLIERLT 95
>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 = 28.4 bits (64), Expect = 5.4
Identities = 11/21 (52%), Positives = 15/21 (71%)
Query: 42 VIMGVSGSGKSTIGESLATRL 62
V G+ G+GK+T+ E LA RL
Sbjct: 4 VFEGIDGAGKTTLIELLAERL 24
>gnl|CDD|180543 PRK06361, PRK06361, hypothetical protein; Provisional.
Length = 212
Score = 28.4 bits (64), Expect = 5.5
Identities = 12/27 (44%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 312 IYRDREITKS-LVQRAEKAGYKALVLT 337
I+ D E+ S LV+RA GY+A+ +T
Sbjct: 4 IFSDGELIPSELVRRARVLGYRAIAIT 30
Score = 28.4 bits (64), Expect = 5.5
Identities = 12/27 (44%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 380 IYRDREITKS-LVQRAEKAGYKALVLT 405
I+ D E+ S LV+RA GY+A+ +T
Sbjct: 4 IFSDGELIPSELVRRARVLGYRAIAIT 30
>gnl|CDD|223660 COG0587, DnaE, DNA polymerase III, alpha subunit [DNA replication,
recombination, and repair].
Length = 1139
Score = 29.2 bits (66), Expect = 5.7
Identities = 10/25 (40%), Positives = 17/25 (68%)
Query: 320 KSLVQRAEKAGYKALVLTVDTNVFG 344
+ LV++A++ G AL LT N++G
Sbjct: 23 EELVKKAKELGMPALALTDHNNLYG 47
Score = 29.2 bits (66), Expect = 5.7
Identities = 10/25 (40%), Positives = 17/25 (68%)
Query: 388 KSLVQRAEKAGYKALVLTVDTNVFG 412
+ LV++A++ G AL LT N++G
Sbjct: 23 EELVKKAKELGMPALALTDHNNLYG 47
>gnl|CDD|223645 COG0572, Udk, Uridine kinase [Nucleotide transport and
metabolism].
Length = 218
Score = 28.4 bits (64), Expect = 5.7
Identities = 14/34 (41%), Positives = 22/34 (64%), Gaps = 2/34 (5%)
Query: 36 SPSTVFV--IMGVSGSGKSTIGESLATRLGVKFI 67
P V + I G SGSGK+T+ + L+ +LGV+ +
Sbjct: 4 KPEKVIIIGIAGGSGSGKTTVAKELSEQLGVEKV 37
>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 = 28.8 bits (65), Expect = 6.5
Identities = 10/13 (76%), Positives = 11/13 (84%)
Query: 42 VIMGVSGSGKSTI 54
I GVSGSGKST+
Sbjct: 638 CITGVSGSGKSTL 650
Score = 28.8 bits (65), Expect = 7.2
Identities = 21/64 (32%), Positives = 28/64 (43%), Gaps = 25/64 (39%)
Query: 42 VIMGVSGSGKSTIG-------------ESL----ATRLG------VKFIDGDHLHPQSNI 78
VI G+SGSGKS++ ESL LG V I+G L P +I
Sbjct: 26 VITGLSGSGKSSLAFDTIYAEGQRRYVESLSAYARQFLGVMDKPDVDSIEG--LSPAISI 83
Query: 79 DKMS 82
D+ +
Sbjct: 84 DQKT 87
>gnl|CDD|223521 COG0444, DppD, ABC-type dipeptide/oligopeptide/nickel transport
system, ATPase component [Amino acid transport and
metabolism / Inorganic ion transport and metabolism].
Length = 316
Score = 28.7 bits (65), Expect = 6.8
Identities = 13/47 (27%), Positives = 25/47 (53%), Gaps = 5/47 (10%)
Query: 43 IMGVSGSGKSTIGESLATRL----GVKFIDGDHLHPQSNIDKMSAKQ 85
I+G SGSGKS + +++ L + + G+ L ++ +S K+
Sbjct: 36 IVGESGSGKSVLAKAI-MGLLPKPNARIVGGEILFDGKDLLSLSEKE 81
>gnl|CDD|223786 COG0714, COG0714, MoxR-like ATPases [General function prediction
only].
Length = 329
Score = 28.6 bits (64), Expect = 6.9
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 45 GVSGSGKSTIGESLATRLGVKFI 67
G G GK+ + +LA LG+ F+
Sbjct: 50 GPPGVGKTLLARALARALGLPFV 72
>gnl|CDD|226967 COG4608, AppF, ABC-type oligopeptide transport system, ATPase
component [Amino acid transport and metabolism].
Length = 268
Score = 28.3 bits (64), Expect = 7.0
Identities = 10/24 (41%), Positives = 15/24 (62%), Gaps = 2/24 (8%)
Query: 39 TVFVIMGVSGSGKSTIGESLATRL 62
T+ ++ G SG GKST+G + L
Sbjct: 41 TLGLV-GESGCGKSTLGRLI-LGL 62
>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 = 28.2 bits (64), Expect = 7.1
Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 15/59 (25%)
Query: 31 PSGEGSPSTVFVIMGVSGSGKSTIGESLATRL----GVKFIDGDHLHPQSNIDKMSAKQ 85
+GE + I+G +G+GKST+ ++LA L G +DG ++ +S K+
Sbjct: 23 EAGE-----IVGILGPNGAGKSTLLKTLAGLLKPSSGEILLDGK------DLASLSPKE 70
>gnl|CDD|237531 PRK13850, PRK13850, type IV secretion system protein VirD4;
Provisional.
Length = 670
Score = 28.7 bits (64), Expect = 7.2
Identities = 16/83 (19%), Positives = 27/83 (32%), Gaps = 16/83 (19%)
Query: 162 LLESQFQTLEEPDPLVEPDVRTVSVNEPLEGIVSKSAIMPPTRAP------PNYSDFV-- 213
+ E+Q +L EP L+ PD + + A +AP P+ +
Sbjct: 539 IFEAQTGSLPEPASLMLPD-----DTNARRKHLPQPAASSTDQAPAKIALIPDPDEPASP 593
Query: 214 ---CVDDFEQFALKVLRIRPRVM 233
V D + K + R
Sbjct: 594 QNRTVADVPKPLSKGMDAPARAK 616
>gnl|CDD|225183 COG2274, SunT, ABC-type bacteriocin/lantibiotic exporters, contain
an N-terminal double-glycine peptidase domain [Defense
mechanisms].
Length = 709
Score = 28.7 bits (65), Expect = 7.2
Identities = 16/48 (33%), Positives = 22/48 (45%), Gaps = 7/48 (14%)
Query: 37 PSTVFVIMGVSGSGKSTIGESLATRL----GVKFIDGDHLHPQSNIDK 80
P I+G SGSGKST+ + L G +DG ++ID
Sbjct: 498 PGEKVAIVGRSGSGKSTLLKLLLGLYKPQQGRILLDG---VDLNDIDL 542
>gnl|CDD|224281 COG1362, LAP4, Aspartyl aminopeptidase [Amino acid transport and
metabolism].
Length = 437
Score = 28.4 bits (64), Expect = 7.3
Identities = 16/35 (45%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 34 EGSPSTVFVIMGVSGSGKSTIGESLATRLGVKFID 68
G P VFV+ G STIG LA R G++ ID
Sbjct: 369 AGVPWQVFVLRNDVPCG-STIGPILAARTGIRTID 402
>gnl|CDD|184807 PRK14730, coaE, dephospho-CoA kinase; Provisional.
Length = 195
Score = 28.0 bits (63), Expect = 7.6
Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 3/33 (9%)
Query: 43 IMGVSG---SGKSTIGESLATRLGVKFIDGDHL 72
+G++G SGKST+G LA + G+ +D D
Sbjct: 3 RIGLTGGIASGKSTVGNYLAQQKGIPILDADIY 35
>gnl|CDD|219127 pfam06664, MIG-14_Wnt-bd, Wnt-binding factor required for Wnt
secretion. MIG-14 is a Wnt-binding factor. Newly
synthesised EGL-20/Wnt binds to MIG-14 in the Golgi,
targetting the Wnt to the cell membrane for secretion.
AP-2-mediated endocytosis and retromer retrieval at the
sorting endosome would recycle MIG-14 to the Golgi,
where it can bind to EGL-20/Wnt for next cycle of
secretion.
Length = 291
Score = 28.4 bits (64), Expect = 7.9
Identities = 8/23 (34%), Positives = 13/23 (56%)
Query: 334 LVLTVDTNVFGTRYADIRNKFNM 356
L++ V + + RY+ R KF M
Sbjct: 215 LIIKVFSELRTRRYSFYRYKFLM 237
Score = 28.4 bits (64), Expect = 7.9
Identities = 8/23 (34%), Positives = 13/23 (56%)
Query: 402 LVLTVDTNVFGTRYADIRNKFNM 424
L++ V + + RY+ R KF M
Sbjct: 215 LIIKVFSELRTRRYSFYRYKFLM 237
>gnl|CDD|140327 PTZ00306, PTZ00306, NADH-dependent fumarate reductase; Provisional.
Length = 1167
Score = 28.6 bits (64), Expect = 8.1
Identities = 15/36 (41%), Positives = 17/36 (47%), Gaps = 5/36 (13%)
Query: 55 GESLATRLGVKFIDGD--HLHPQSNIDKMSAKQPLN 88
G LA +LG +D D LHP ID K P N
Sbjct: 651 GVKLARKLGATLVDMDKVQLHPTGLID---PKDPSN 683
>gnl|CDD|213204 cd03237, ABC_RNaseL_inhibitor_domain2, The ATP-binding cassette
domain 2 of RNase L inhibitor. The ABC ATPase, RNase L
inhibitor (RLI), is a key enzyme in ribosomal
biogenesis, formation of translation preinitiation
complexes, and assembly of HIV capsids. RLI's are not
transport proteins and thus cluster with a group of
soluble proteins that lack the transmembrane components
commonly found in other members of the family.
Structurally, RLI's have an N-terminal Fe-S domain and
two nucleotide-binding domains which are arranged to
form two composite active sites in their interface
cleft. RLI is one of the most conserved enzymes between
archaea and eukaryotes with a sequence identity of more
than 48%. The high degree of evolutionary conservation
suggests that RLI performs a central role in archaeal
and eukaryotic physiology.
Length = 246
Score = 28.1 bits (63), Expect = 8.1
Identities = 13/30 (43%), Positives = 17/30 (56%)
Query: 33 GEGSPSTVFVIMGVSGSGKSTIGESLATRL 62
G S S V I+G +G GK+T + LA L
Sbjct: 20 GSISESEVIGILGPNGIGKTTFIKMLAGVL 49
>gnl|CDD|233234 TIGR01016, sucCoAbeta, succinyl-CoA synthetase, beta subunit. This
model is designated subfamily because it does not
discriminate the ADP-forming enzyme ((EC 6.2.1.5) from
the GDP_forming (EC 6.2.1.4) enzyme. The N-terminal half
is described by the CoA-ligases model (pfam00549). The
C-terminal half is described by the ATP-grasp model
(pfam02222). This family contains a split seen both in a
maximum parsimony tree (which ignores gaps) and in the
gap pattern near position 85 of the seed alignment.
Eukaryotic and most bacterial sequences are longer and
contain a region similar to TXQTXXXG. Sequences from
Deinococcus radiodurans, Mycobacterium tuberculosis,
Streptomyces coelicolor, and the Archaea are 6 amino
acids shorter in that region and contain a motif
resembling [KR]G [Energy metabolism, TCA cycle].
Length = 386
Score = 28.5 bits (64), Expect = 8.1
Identities = 30/120 (25%), Positives = 42/120 (35%), Gaps = 30/120 (25%)
Query: 215 VDDFEQFALKVLRIRPRVMRDLSKRTLVTDALGHPVQIPIGVSPAAMQKLAHEEGEIGNA 274
++ A K+L T TD LG PV + L E +I
Sbjct: 66 KEEARAAAEKLLGKE--------LVTNQTDPLGQPVN----------KILIEEATDIDKE 107
Query: 275 AAVGEV------GGIYILSTISTTSIEELAEKTPQ------TTKWFQLYIYRDREITKSL 322
+ V + + ST IEE+AEK+P+ L Y+ REI K L
Sbjct: 108 YYLSIVIDRSARCPVIMASTEGGVDIEEVAEKSPEKIIKYAIDPLTGLLPYQAREIAKKL 167
>gnl|CDD|223718 COG0645, COG0645, Predicted kinase [General function prediction
only].
Length = 170
Score = 27.8 bits (62), Expect = 8.2
Identities = 13/45 (28%), Positives = 19/45 (42%), Gaps = 4/45 (8%)
Query: 39 TVFVIMGVSGSGKSTIGESLATRLGVKFIDGD----HLHPQSNID 79
+ ++ G+ GSGKST+ LA LG + D L
Sbjct: 2 RLVLVGGLPGSGKSTLARGLAELLGAIRLRSDVIRKRLFGVPEET 46
>gnl|CDD|218854 pfam06012, DUF908, Domain of Unknown Function (DUF908).
Length = 309
Score = 28.1 bits (63), Expect = 8.4
Identities = 15/66 (22%), Positives = 29/66 (43%), Gaps = 7/66 (10%)
Query: 97 NNINRIIHQLNVDNLTGVLVCSALRRNYR-----DIIRNNNRVVFIYLKAEFGVILSRLQ 151
++ + LN NL +V +ALR I R ++ L+ ++ ++L +L
Sbjct: 26 SSSEHLSDLLNSTNLD--VVLAALRVLLVLAQRYVISRRSSYFSPRLLRKKYNILLEKLL 83
Query: 152 KRAEHF 157
K A +
Sbjct: 84 KLASSW 89
>gnl|CDD|224042 COG1117, PstB, ABC-type phosphate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 253
Score = 27.9 bits (63), Expect = 8.5
Identities = 8/17 (47%), Positives = 11/17 (64%)
Query: 37 PSTVFVIMGVSGSGKST 53
+ V ++G SG GKST
Sbjct: 32 KNKVTALIGPSGCGKST 48
>gnl|CDD|223401 COG0324, MiaA, tRNA delta(2)-isopentenylpyrophosphate transferase
[Translation, ribosomal structure and biogenesis].
Length = 308
Score = 28.4 bits (64), Expect = 8.6
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 39 TVFVIMGVSGSGKSTIGESLATRLGVKFIDGD 70
+ VI G + SGK+ + +LA RLG + I D
Sbjct: 4 KLIVIAGPTASGKTALAIALAKRLGGEIISLD 35
>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication,
recombination, and repair].
Length = 908
Score = 28.6 bits (64), Expect = 8.7
Identities = 8/15 (53%), Positives = 14/15 (93%)
Query: 40 VFVIMGVSGSGKSTI 54
+F+I+G +G+GKS+I
Sbjct: 27 IFLIVGPNGAGKSSI 41
>gnl|CDD|223203 COG0125, Tmk, Thymidylate kinase [Nucleotide transport and
metabolism].
Length = 208
Score = 28.0 bits (63), Expect = 8.7
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 42 VIMGVSGSGKSTIGESLATRL 62
VI G+ G+GK+T E L RL
Sbjct: 7 VIEGIDGAGKTTQAELLKERL 27
>gnl|CDD|217238 pfam02811, PHP, PHP domain. The PHP (Polymerase and Histidinol
Phosphatase) domain is a putative phosphoesterase
domain.
Length = 174
Score = 27.5 bits (61), Expect = 9.2
Identities = 9/27 (33%), Positives = 16/27 (59%)
Query: 322 LVQRAEKAGYKALVLTVDTNVFGTRYA 348
LV+ A++ G +A+ +T N+FG
Sbjct: 21 LVKAAKELGLEAIAITDHDNLFGAPEF 47
Score = 27.5 bits (61), Expect = 9.2
Identities = 9/27 (33%), Positives = 16/27 (59%)
Query: 390 LVQRAEKAGYKALVLTVDTNVFGTRYA 416
LV+ A++ G +A+ +T N+FG
Sbjct: 21 LVKAAKELGLEAIAITDHDNLFGAPEF 47
>gnl|CDD|227792 COG5505, COG5505, Predicted integral membrane protein [Function
unknown].
Length = 384
Score = 28.2 bits (63), Expect = 9.4
Identities = 9/28 (32%), Positives = 17/28 (60%)
Query: 120 LRRNYRDIIRNNNRVVFIYLKAEFGVIL 147
L+ + R I + R++FI+L + G +L
Sbjct: 75 LQCDVRKIFKLGRRLLFIFLISSVGTVL 102
>gnl|CDD|226359 COG3839, MalK, ABC-type sugar transport systems, ATPase
components [Carbohydrate transport and metabolism].
Length = 338
Score = 28.0 bits (63), Expect = 9.5
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 41 FVIMGVSGSGKST 53
V++G SG GKST
Sbjct: 32 VVLLGPSGCGKST 44
>gnl|CDD|181906 PRK09493, glnQ, glutamine ABC transporter ATP-binding protein;
Reviewed.
Length = 240
Score = 27.7 bits (62), Expect = 9.9
Identities = 11/15 (73%), Positives = 13/15 (86%)
Query: 40 VFVIMGVSGSGKSTI 54
V VI+G SGSGKST+
Sbjct: 29 VVVIIGPSGSGKSTL 43
>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 = 28.5 bits (64), Expect = 9.9
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 42 VIMGVSGSGKSTIGESLATRLGVKFIDG 69
VI G +GSGKS IG+++ LG+
Sbjct: 27 VISGPNGSGKSNIGDAILFALGLSSSKA 54
>gnl|CDD|237393 PRK13477, PRK13477, bifunctional pantoate ligase/cytidylate kinase;
Provisional.
Length = 512
Score = 28.3 bits (64), Expect = 9.9
Identities = 11/26 (42%), Positives = 20/26 (76%)
Query: 43 IMGVSGSGKSTIGESLATRLGVKFID 68
I G +G+GKST+ ++A +LG+ ++D
Sbjct: 289 IDGPAGAGKSTVTRAVAKKLGLLYLD 314
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
0.318 0.135 0.394
Gapped
Lambda K H
0.267 0.0752 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 22,433,781
Number of extensions: 2222603
Number of successful extensions: 3383
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3352
Number of HSP's successfully gapped: 281
Length of query: 433
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 333
Effective length of database: 6,502,202
Effective search space: 2165233266
Effective search space used: 2165233266
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 60 (26.8 bits)