RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5231
(148 letters)
>gnl|CDD|233345 TIGR01292, TRX_reduct, thioredoxin-disulfide reductase. This model
describes thioredoxin-disulfide reductase, a member of
the pyridine nucleotide-disulphide oxidoreductases
(pfam00070) [Energy metabolism, Electron transport].
Length = 299
Score = 119 bits (300), Expect = 1e-33
Identities = 60/173 (34%), Positives = 83/173 (47%), Gaps = 50/173 (28%)
Query: 12 KPVIIFTDVIGGGNTAVEEALYLSNIAKKVTLIHRNEKLRCEKILIDRLMQKVNEGKIDI 71
K V V+GGG++A+EEALYL+ IAKKVTL+HR +K R EKIL+DRL + I+
Sbjct: 141 KEVA----VVGGGDSAIEEALYLTRIAKKVTLVHRRDKFRAEKILLDRLKKNPK---IEF 193
Query: 72 KLKHIVHKIIGNNTVTG----------------------------------QLEMN-DGY 96
V +I+G+N V G LE++ +GY
Sbjct: 194 LWNSTVKEIVGDNKVEGVKIKNTVTGEEEELEVDGVFIAIGHEPNTELLKGLLELDENGY 253
Query: 97 IKTKLNKKTGYTSTNISGVFCRWRCTRLYFIDKQLL-ALGSGCMAALDAQRYL 148
I T T++ GVF + +Q + A G GC+AAL A+RYL
Sbjct: 254 IVTD-----EGMRTSVPGVFAAGDVRDKGY--RQAVTAAGDGCIAALSAERYL 299
>gnl|CDD|182343 PRK10262, PRK10262, thioredoxin reductase; Provisional.
Length = 321
Score = 103 bits (257), Expect = 3e-27
Identities = 66/165 (40%), Positives = 83/165 (50%), Gaps = 37/165 (22%)
Query: 20 VIGGGNTAVEEALYLSNIAKKVTLIHRNEKLRCEKILIDRLMQKVNEGKIDIKLKHIVHK 79
VIGGGNTAVEEALYLSNIA +V LIHR + R EKILI RLM KV G I + + +
Sbjct: 151 VIGGGNTAVEEALYLSNIASEVHLIHRRDGFRAEKILIKRLMDKVENGNIILHTNRTLEE 210
Query: 80 IIGN----------------------------------NTVT--GQLEMNDGYIKTKLNK 103
+ G+ NT GQLE+ +GYIK +
Sbjct: 211 VTGDQMGVTGVRLRDTQNSDNIESLDVAGLFVAIGHSPNTAIFEGQLELENGYIKVQSGI 270
Query: 104 KTGYTSTNISGVFCRWRCTRLYFIDKQLLALGSGCMAALDAQRYL 148
T T+I GVF + + + + G+GCMAALDA+RYL
Sbjct: 271 HGNATQTSIPGVFAAGDVMD-HIYRQAITSAGTGCMAALDAERYL 314
>gnl|CDD|223566 COG0492, TrxB, Thioredoxin reductase [Posttranslational
modification, protein turnover, chaperones].
Length = 305
Score = 95.8 bits (239), Expect = 1e-24
Identities = 53/166 (31%), Positives = 77/166 (46%), Gaps = 50/166 (30%)
Query: 20 VIGGGNTAVEEALYLSNIAKKVTLIHRNEKLRCEKILIDRLMQKVNEGKIDIKLKHIVHK 79
VIGGG++AVEEALYLS IAKKVTL+HR ++ R E+IL++RL + V KI++ +V +
Sbjct: 148 VIGGGDSAVEEALYLSKIAKKVTLVHRRDEFRAEEILVERLKKNV---KIEVLTNTVVKE 204
Query: 80 IIGNNTVTGQLE---------------------------------MNDGYIKTKLNKKTG 106
I+G++ L+ +GYI
Sbjct: 205 ILGDDVEGVVLKNVKGEEKELPVDGVFIAIGHLPNTELLKGLGVLDENGYIVV-----DE 259
Query: 107 YTSTNISGVF----CRWRCTRLYFIDKQLLALGSGCMAALDAQRYL 148
T++ G+F + R A G G +AAL A+RYL
Sbjct: 260 EMETSVPGIFAAGDVADKNGRQI-----ATAAGDGAIAALSAERYL 300
>gnl|CDD|215691 pfam00070, Pyr_redox, Pyridine nucleotide-disulphide
oxidoreductase. This family includes both class I and
class II oxidoreductases and also NADH oxidases and
peroxidases. This domain is actually a small NADH
binding domain within a larger FAD binding domain.
Length = 82
Score = 56.1 bits (136), Expect = 2e-11
Identities = 26/83 (31%), Positives = 42/83 (50%), Gaps = 11/83 (13%)
Query: 20 VIGGGNTAVEEALYLSNIAKKVTLIHRNEKLR------CEKILIDRLMQKVNEGKIDIKL 73
V+GGG +E A L+ + KVT++ R ++L KIL ++L + I++ L
Sbjct: 4 VVGGGYIGLEFASALAKLGSKVTVVERRDRLLRGFDEEIAKILQEKLEKN----GIEVLL 59
Query: 74 KHIVHKIIGNNT-VTGQLEMNDG 95
V +I GN V +L+ DG
Sbjct: 60 NTTVEEIEGNGDGVVVKLKTGDG 82
>gnl|CDD|237942 PRK15317, PRK15317, alkyl hydroperoxide reductase subunit F;
Provisional.
Length = 517
Score = 58.2 bits (142), Expect = 9e-11
Identities = 48/163 (29%), Positives = 76/163 (46%), Gaps = 41/163 (25%)
Query: 20 VIGGGNTAVEEALYLSNIAKKVTLIHRNEKLRCEKILIDRLMQKVNEGKIDIKLKHIVHK 79
VIGGGN+ VE A+ L+ I K VT++ +L+ +++L D+L N + I +
Sbjct: 356 VIGGGNSGVEAAIDLAGIVKHVTVLEFAPELKADQVLQDKLRSLPN---VTIITNAQTTE 412
Query: 80 IIGNNT-VTG------------QLEM-----------NDGYIK--TKLNK-------KTG 106
+ G+ VTG LE+ N ++K +LN+ G
Sbjct: 413 VTGDGDKVTGLTYKDRTTGEEHHLELEGVFVQIGLVPNTEWLKGTVELNRRGEIIVDARG 472
Query: 107 YTSTNISGVFCRWRCTRLYFIDKQLL-ALGSGCMAALDAQRYL 148
+T++ GVF CT + + KQ++ A+G G AAL A YL
Sbjct: 473 --ATSVPGVFAAGDCTTVPY--KQIIIAMGEGAKAALSAFDYL 511
>gnl|CDD|234119 TIGR03140, AhpF, alkyl hydroperoxide reductase subunit F. This
enzyme is the partner of the peroxiredoxin (alkyl
hydroperoxide reductase) AhpC which contains the
peroxide-reactive cysteine. AhpF contains the reductant
(NAD(P)H) binding domain (pfam00070) and presumably acts
to resolve the disulfide which forms after oxidation of
the active site cysteine in AphC. This proteins contains
two paired conserved cysteine motifs, CxxCP and CxHCDGP
[Cellular processes, Detoxification, Cellular processes,
Adaptations to atypical conditions].
Length = 515
Score = 56.2 bits (136), Expect = 5e-10
Identities = 45/161 (27%), Positives = 75/161 (46%), Gaps = 37/161 (22%)
Query: 20 VIGGGNTAVEEALYLSNIAKKVTLIHRNEKLRCEKILIDRLMQKVNEGKIDIKLKHIVHK 79
VIGGGN+ +E A+ L+ I + VT++ ++L+ +K+L D+L N +DI +
Sbjct: 357 VIGGGNSGIEAAIDLAGIVRHVTVLEFADELKADKVLQDKLKSLPN---VDILTSAQTTE 413
Query: 80 IIGN-NTVTG--QLEMNDGYIKT-----------------------KLNKK-----TGYT 108
I+G+ + VTG + N G K +LN++
Sbjct: 414 IVGDGDKVTGIRYQDRNSGEEKQLDLDGVFVQIGLVPNTEWLKDAVELNRRGEIVIDERG 473
Query: 109 STNISGVFCRWRCTRLYFIDKQL-LALGSGCMAALDAQRYL 148
T++ G+F T + + KQ+ +A+G G AAL A YL
Sbjct: 474 RTSVPGIFAAGDVTTVPY--KQIIIAMGEGAKAALSAFDYL 512
>gnl|CDD|132187 TIGR03143, AhpF_homolog, putative alkyl hydroperoxide reductase F
subunit. This family of thioredoxin reductase homologs
is found adjacent to alkylhydroperoxide reductase C
subunit predominantly in cases where there is only one C
subunit in the genome and that genome is lacking the F
subunit partner (also a thioredcxin reductase homolog)
that is usually found (TIGR03140).
Length = 555
Score = 54.4 bits (131), Expect = 2e-09
Identities = 48/168 (28%), Positives = 75/168 (44%), Gaps = 46/168 (27%)
Query: 20 VIGGGNTAVEEALYLSNIAKKVTLIHRNEKLRCEKILIDRLMQKVNEGKIDIKLKHIVHK 79
VIGGG A EEA++L+ A KVT+I R C K++ +++ N KI++K + +
Sbjct: 148 VIGGGFAAAEEAVFLTRYASKVTVIVREPDFTCAKLIAEKVK---NHPKIEVKFNTELKE 204
Query: 80 IIGN---------NTVTGQLEMND--------------GYI-KTKLNK------KTGYT- 108
G+ N VTG++ GY ++L K K GY
Sbjct: 205 ATGDDGLRYAKFVNNVTGEITEYKAPKDAGTFGVFVFVGYAPSSELFKGVVELDKRGYIP 264
Query: 109 -----STNISGVFCR--WRCTRLYFIDKQLL-ALGSGCMAALDAQRYL 148
TN+ GV+ R L +Q++ A+ G +AA A+RY+
Sbjct: 265 TNEDMETNVPGVYAAGDLRPKEL----RQVVTAVADGAIAATSAERYV 308
>gnl|CDD|226160 COG3634, AhpF, Alkyl hydroperoxide reductase, large subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 520
Score = 52.8 bits (127), Expect = 7e-09
Identities = 45/161 (27%), Positives = 71/161 (44%), Gaps = 37/161 (22%)
Query: 20 VIGGGNTAVEEALYLSNIAKKVTLIHRNEKLRCEKILIDRLMQKVNEGKIDIKLKHIVHK 79
VIGGGN+ VE A+ L+ I + VTL+ +L+ + +L D+L N + I +
Sbjct: 359 VIGGGNSGVEAAIDLAGIVEHVTLLEFAPELKADAVLQDKLRSLPN---VTIITNAQTTE 415
Query: 80 IIGNNT-VTG------------QLEMNDGYIKTKLNKKTGYT------------------ 108
+ G+ VTG LE+ +++ L T +
Sbjct: 416 VKGDGDKVTGLEYRDRVSGEEHHLELEGVFVQIGLLPNTEWLKGAVELNRRGEIIVDARG 475
Query: 109 STNISGVFCRWRCTRLYFIDKQL-LALGSGCMAALDAQRYL 148
TN+ GVF CT + + KQ+ +A+G G A+L A YL
Sbjct: 476 ETNVPGVFAAGDCTTVPY--KQIIIAMGEGAKASLSAFDYL 514
>gnl|CDD|219686 pfam07992, Pyr_redox_2, Pyridine nucleotide-disulphide
oxidoreductase. This family includes both class I and
class II oxidoreductases and also NADH oxidases and
peroxidases. This domain is actually a small NADH
binding domain within a larger FAD binding domain.
Length = 283
Score = 51.2 bits (123), Expect = 2e-08
Identities = 16/88 (18%), Positives = 33/88 (37%), Gaps = 6/88 (6%)
Query: 20 VIGGGNTAVEEALYLSNIAKKVTLIHRNEKLRCEKILIDRLMQKVNEGKIDIKLKHIVHK 79
V+GGG +E A L+ + K+VT++ R ++L K+ + + ++
Sbjct: 147 VVGGGYIGLELAAALAKLGKEVTVVERRDRLLARADDEISAALLEKLEKLLLGVTVLL-- 204
Query: 80 IIGNNTVTGQLEMNDGYIKTKLNKKTGY 107
V + ++ KL
Sbjct: 205 ----VVVVVVKVGDGKVVEVKLGDGEEL 228
>gnl|CDD|188533 TIGR04018, Bthiol_YpdA, putative bacillithiol system
oxidoreductase, YpdA family. Members of this protein
family, including YpdA from Bacillus subtilis, are
apparent oxidoreductases present only in species with an
active bacillithiol system. They have been suggested
actually to be thiol disulfide oxidoreductases (TDOR),
although the evidence is incomplete [Unknown function,
Enzymes of unknown specificity].
Length = 316
Score = 44.5 bits (106), Expect = 5e-06
Identities = 25/83 (30%), Positives = 43/83 (51%), Gaps = 7/83 (8%)
Query: 20 VIGGGNTAVEEALYLSNIAKKVTLIHRNEKLRCEKI---LIDRLMQKVNEGKIDIKLKHI 76
V+GG N+AV+ AL L +VT++HR +++ + + + ++ EG I
Sbjct: 157 VVGGSNSAVDAALELYRKGAEVTMVHRGDEVS-SSVKYWVRPDIENRIKEGSIKAYFNSR 215
Query: 77 VHKIIGNNTVTGQLEMNDGYIKT 99
V + I ++VT LE DG + T
Sbjct: 216 VKE-ITEDSVT--LETPDGEVHT 235
>gnl|CDD|222355 pfam13738, Pyr_redox_3, Pyridine nucleotide-disulphide
oxidoreductase.
Length = 202
Score = 37.3 bits (87), Expect = 0.001
Identities = 15/29 (51%), Positives = 20/29 (68%)
Query: 20 VIGGGNTAVEEALYLSNIAKKVTLIHRNE 48
VIGGG+TA++ AL L ++ K VT I R
Sbjct: 171 VIGGGHTAIDAALNLLDLGKDVTWITRRP 199
>gnl|CDD|224169 COG1249, Lpd, Pyruvate/2-oxoglutarate dehydrogenase complex,
dihydrolipoamide dehydrogenase (E3) component, and
related enzymes [Energy production and conversion].
Length = 454
Score = 37.2 bits (87), Expect = 0.002
Identities = 14/67 (20%), Positives = 33/67 (49%), Gaps = 2/67 (2%)
Query: 20 VIGGGNTAVEEALYLSNIAKKVTLIHRNEKL--RCEKILIDRLMQKVNEGKIDIKLKHIV 77
++GGG +E A + + KVT++ R +++ + + L +++ +G + I L V
Sbjct: 178 IVGGGYIGLEFASVFAALGSKVTVVERGDRILPGEDPEISKELTKQLEKGGVKILLNTKV 237
Query: 78 HKIIGNN 84
+ +
Sbjct: 238 TAVEKKD 244
>gnl|CDD|163244 TIGR03385, CoA_CoA_reduc, CoA-disulfide reductase. Members of this
protein family are CoA-disulfide reductase (EC
1.8.1.14), as characterized in Staphylococcus aureus,
Pyrococcus horikoshii, and Borrelia burgdorferi, and
inferred in several other species on the basis of high
levels of CoA and an absence of glutathione as a
protective thiol [Cellular processes, Detoxification].
Length = 427
Score = 35.5 bits (82), Expect = 0.006
Identities = 21/70 (30%), Positives = 37/70 (52%), Gaps = 3/70 (4%)
Query: 20 VIGGGNTAVEEALYLSNIAKKVTLIHRNEKLRCEKI---LIDRLMQKVNEGKIDIKLKHI 76
+IGGG +E A L K VTLIHR+E++ + + + +++ + +I+++L
Sbjct: 142 IIGGGYIGIEMAEALRERGKNVTLIHRSERILNKLFDEEMNQIVEEELKKHEINLRLNEE 201
Query: 77 VHKIIGNNTV 86
V I G V
Sbjct: 202 VDSIEGEERV 211
>gnl|CDD|181958 PRK09564, PRK09564, coenzyme A disulfide reductase; Reviewed.
Length = 444
Score = 33.5 bits (77), Expect = 0.028
Identities = 15/72 (20%), Positives = 34/72 (47%), Gaps = 3/72 (4%)
Query: 20 VIGGGNTAVEEALYLSNIAKKVTLIHRNEKLRCEKI---LIDRLMQKVNEGKIDIKLKHI 76
+IG G +E ++ K V +I +++ + + D + +++ E +++ L
Sbjct: 154 IIGAGFIGLEAVEAAKHLGKNVRIIQLEDRILPDSFDKEITDVMEEELRENGVELHLNEF 213
Query: 77 VHKIIGNNTVTG 88
V +IG + V G
Sbjct: 214 VKSLIGEDKVEG 225
>gnl|CDD|224983 COG2072, TrkA, Predicted flavoprotein involved in K+ transport
[Inorganic ion transport and metabolism].
Length = 443
Score = 32.0 bits (73), Expect = 0.079
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 20 VIGGGNTAVEEALYLSNIAKKVTLIHRN 47
VIG G +AV+ A L+ + VTL R+
Sbjct: 180 VIGAGASAVDIAPELAEVGASVTLSQRS 207
>gnl|CDD|184103 PRK13512, PRK13512, coenzyme A disulfide reductase; Provisional.
Length = 438
Score = 31.3 bits (71), Expect = 0.18
Identities = 21/73 (28%), Positives = 34/73 (46%), Gaps = 9/73 (12%)
Query: 20 VIGGGNTAVEEALYLSNIAKKVTLIHRNEKLRCEKILIDRLMQKV-----NEGKIDIKLK 74
V+G G ++E L TLIHR++K+ L+D M + ++ +I +L
Sbjct: 153 VVGAGYISLEVLENLYERGLHPTLIHRSDKI---NKLMDADMNQPILDELDKREIPYRLN 209
Query: 75 HIVHKIIGNNTVT 87
+ I G N VT
Sbjct: 210 EEIDAING-NEVT 221
>gnl|CDD|235701 PRK06116, PRK06116, glutathione reductase; Validated.
Length = 450
Score = 30.9 bits (71), Expect = 0.21
Identities = 18/78 (23%), Positives = 36/78 (46%), Gaps = 2/78 (2%)
Query: 20 VIGGGNTAVEEALYLSNIAKKVTLIHRNEK-LRC-EKILIDRLMQKVNEGKIDIKLKHIV 77
V+G G AVE A L+ + + L R + LR + + + L++++ + I + +
Sbjct: 172 VVGAGYIAVEFAGVLNGLGSETHLFVRGDAPLRGFDPDIRETLVEEMEKKGIRLHTNAVP 231
Query: 78 HKIIGNNTVTGQLEMNDG 95
+ N + L + DG
Sbjct: 232 KAVEKNADGSLTLTLEDG 249
>gnl|CDD|132493 TIGR03452, mycothione_red, mycothione reductase. Mycothiol, a
glutathione analog in Mycobacterium tuberculosis and
related species, can form a disulfide-linked dimer
called mycothione. This enzyme can reduce mycothione to
regenerate two mycothiol molecules. The enzyme shows
some sequence similarity to glutathione-disulfide
reductase, trypanothione-disulfide reductase, and
dihydrolipoamide dehydrogenase. The characterized
protein from M. tuberculosis, a homodimer, has FAD as a
cofactor, one per monomer, and uses NADPH as a
substrate.
Length = 452
Score = 30.5 bits (69), Expect = 0.31
Identities = 23/79 (29%), Positives = 40/79 (50%), Gaps = 6/79 (7%)
Query: 20 VIGGGNTAVEEALYLSNIAKKVTLIHRNEKL--RCEKILIDRLMQKVNEGKIDIKLKHIV 77
++GGG A E A S + +VT+++R+ KL ++ + DR + + + K DI+L V
Sbjct: 174 IVGGGYIAAEFAHVFSALGTRVTIVNRSTKLLRHLDEDISDRFTE-IAKKKWDIRLGRNV 232
Query: 78 HKIIGNNTVTG-QLEMNDG 95
G L ++DG
Sbjct: 233 --TAVEQDGDGVTLTLDDG 249
>gnl|CDD|183740 PRK12779, PRK12779, putative bifunctional glutamate synthase
subunit beta/2-polyprenylphenol hydroxylase;
Provisional.
Length = 944
Score = 30.2 bits (68), Expect = 0.44
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 20 VIGGGNTAVEEALYLSNIAKKVTLIHRNEK 49
VIGGGNTA++ A + VT+++R K
Sbjct: 452 VIGGGNTAMDAARTAKRLGGNVTIVYRRTK 481
>gnl|CDD|139246 PRK12814, PRK12814, putative NADPH-dependent glutamate synthase
small subunit; Provisional.
Length = 652
Score = 30.1 bits (68), Expect = 0.49
Identities = 15/30 (50%), Positives = 21/30 (70%), Gaps = 5/30 (16%)
Query: 20 VIGGGNTAVE---EALYLSNIAKKVTLIHR 46
VIGGGNTA++ AL L A+ VT+++R
Sbjct: 328 VIGGGNTAIDAARTALRLG--AESVTILYR 355
>gnl|CDD|235774 PRK06292, PRK06292, dihydrolipoamide dehydrogenase; Validated.
Length = 460
Score = 29.0 bits (66), Expect = 1.00
Identities = 20/62 (32%), Positives = 30/62 (48%), Gaps = 1/62 (1%)
Query: 20 VIGGGNTAVEEALYLSNIAKKVTLIHRNEK-LRCEKILIDRLMQKVNEGKIDIKLKHIVH 78
VIGGG +E LS + KVT+ R ++ L E + + QK+ + IKL V
Sbjct: 174 VIGGGVIGLELGQALSRLGVKVTVFERGDRILPLEDPEVSKQAQKILSKEFKIKLGAKVT 233
Query: 79 KI 80
+
Sbjct: 234 SV 235
>gnl|CDD|131863 TIGR02816, pfaB_fam, PfaB family protein. The protein PfaB is part
of four gene locus, similar to polyketide biosynthesis
systems, responsible for omega-3 polyunsaturated fatty
acid biosynthesis in several high pressure and/or
cold-adapted bacteria. The fairly permissive trusted
cutoff set for this model allows detection of homologs
encoded near homologs to other proteins of the locus:
PfaA, PfaC, and/or PfaD. The likely role in every case
is either polyunsaturated fatty acid or polyketide
biosynthesis.
Length = 538
Score = 28.9 bits (64), Expect = 1.2
Identities = 17/47 (36%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 16 IFTDVIGGGNTAVEEALYLSNIAKKVTLIHRNEKLRCEKILIDRLMQ 62
IFT I G TAV EA L + A ++ + +RCE I+ L++
Sbjct: 301 IFTSAISGKLTAVREAWQLDDTAAEIQW--NSFVVRCEAAPIEALLK 345
>gnl|CDD|181142 PRK07846, PRK07846, mycothione reductase; Reviewed.
Length = 451
Score = 28.8 bits (65), Expect = 1.2
Identities = 11/31 (35%), Positives = 20/31 (64%)
Query: 20 VIGGGNTAVEEALYLSNIAKKVTLIHRNEKL 50
++GGG A E A S + +VT+++R+ +L
Sbjct: 171 IVGGGFIAAEFAHVFSALGVRVTVVNRSGRL 201
>gnl|CDD|179902 PRK04965, PRK04965, NADH:flavorubredoxin oxidoreductase;
Provisional.
Length = 377
Score = 28.7 bits (65), Expect = 1.2
Identities = 12/31 (38%), Positives = 15/31 (48%)
Query: 20 VIGGGNTAVEEALYLSNIAKKVTLIHRNEKL 50
V+GGG E A+ L K VTL+ L
Sbjct: 146 VVGGGLIGTELAMDLCRAGKAVTLVDNAASL 176
>gnl|CDD|236541 PRK09496, trkA, potassium transporter peripheral membrane
component; Reviewed.
Length = 453
Score = 28.5 bits (65), Expect = 1.2
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 5/45 (11%)
Query: 11 IKPVIIFTDVIGGGNTAVEEALYLSNIAKKVTLIHRNEKLRCEKI 55
+K V+I +GGGN A L V LI R+ + R E++
Sbjct: 231 VKRVMI----VGGGNIGYYLAKLLEKEGYSVKLIERDPE-RAEEL 270
>gnl|CDD|237197 PRK12770, PRK12770, putative glutamate synthase subunit beta;
Provisional.
Length = 352
Score = 28.4 bits (64), Expect = 1.3
Identities = 20/50 (40%), Positives = 27/50 (54%), Gaps = 9/50 (18%)
Query: 20 VIGGGNTAV---EEALYLSNIAKKVTLIHR---NEKLRCEKILIDRLMQK 63
V+G G TAV EA+ L A+KV L +R NE K I+RL+ +
Sbjct: 177 VVGAGLTAVDAALEAVLLG--AEKVYLAYRRTINEA-PAGKYEIERLIAR 223
>gnl|CDD|237198 PRK12771, PRK12771, putative glutamate synthase (NADPH) small
subunit; Provisional.
Length = 564
Score = 28.3 bits (64), Expect = 1.6
Identities = 24/75 (32%), Positives = 38/75 (50%), Gaps = 12/75 (16%)
Query: 20 VIGGGNTAVE---EALYLSNIAKKVTLIHRN--EKLRCEKILIDRLMQKVNEGKIDIK-L 73
VIGGGNTA++ A L A++VT+++R E + I+ ++ EG ++I L
Sbjct: 272 VIGGGNTAMDAARTARRLG--AEEVTIVYRRTREDMPAHDEEIEEALR---EG-VEINWL 325
Query: 74 KHIVHKIIGNNTVTG 88
+ V N TG
Sbjct: 326 RTPVEIEGDENGATG 340
>gnl|CDD|233700 TIGR02053, MerA, mercuric reductase. This model represents the
mercuric reductase found in the mer operon for the
detoxification of mercury compounds. MerA is a
FAD-containing flavoprotein which reduces Hg(II) to
Hg(0) utilizing NADPH [Cellular processes,
Detoxification].
Length = 463
Score = 28.2 bits (63), Expect = 1.8
Identities = 12/31 (38%), Positives = 20/31 (64%)
Query: 20 VIGGGNTAVEEALYLSNIAKKVTLIHRNEKL 50
VIGGG VE A + + +VT++ R+++L
Sbjct: 171 VIGGGAIGVELAQAFARLGSEVTILQRSDRL 201
>gnl|CDD|224070 COG1148, HdrA, Heterodisulfide reductase, subunit A and related
polyferredoxins [Energy production and conversion].
Length = 622
Score = 28.2 bits (63), Expect = 1.9
Identities = 11/31 (35%), Positives = 18/31 (58%)
Query: 20 VIGGGNTAVEEALYLSNIAKKVTLIHRNEKL 50
VIGGG + AL L+++ KV L+ + +
Sbjct: 129 VIGGGVAGITAALELADMGFKVYLVEKEPSI 159
>gnl|CDD|182346 PRK10265, PRK10265, chaperone-modulator protein CbpM;
Provisional.
Length = 101
Score = 27.0 bits (60), Expect = 2.2
Identities = 13/38 (34%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 29 EEALYLSNIAKKVTLIHRNEKLRCE-KILIDRLMQKVN 65
E AL IA +TL+ L+ E ++L RL + V
Sbjct: 62 ELALDWPGIAVALTLLDEIAHLKQENRLLRQRLSRFVA 99
>gnl|CDD|213618 TIGR01424, gluta_reduc_2, glutathione-disulfide reductase, plant.
The tripeptide glutathione is an important reductant,
e.g., for maintaining the cellular thiol/disulfide
status and for protecting against reactive oxygen
species such as hydrogen peroxide. Glutathione-disulfide
reductase regenerates reduced glutathione from oxidized
glutathione (glutathione disulfide) + NADPH. This model
represents one of two closely related subfamilies of
glutathione-disulfide reductase. Both are closely
related to trypanothione reductase, and separate models
are built so each of the three can describe proteins
with conserved function. This model describes
glutathione-disulfide reductases of plants and some
bacteria, including cyanobacteria [Energy metabolism,
Electron transport].
Length = 446
Score = 27.9 bits (62), Expect = 2.3
Identities = 18/63 (28%), Positives = 29/63 (46%), Gaps = 2/63 (3%)
Query: 20 VIGGGNTAVEEALYLSNIAKKVTLIHRNEK-LRCEKILIDRLMQKVNEGK-IDIKLKHIV 77
+ GGG AVE A + + TLI+R ++ LR + R + E + I I + +
Sbjct: 171 IAGGGYIAVEFAGIFRGLGVQTTLIYRGKEILRGFDDDMRRGLAAALEERGIRILPEDSI 230
Query: 78 HKI 80
I
Sbjct: 231 TSI 233
>gnl|CDD|201664 pfam01210, NAD_Gly3P_dh_N, NAD-dependent glycerol-3-phosphate
dehydrogenase N-terminus. NAD-dependent
glycerol-3-phosphate dehydrogenase (GPDH) catalyzes the
interconversion of dihydroxyacetone phosphate and
L-glycerol-3-phosphate. This family represents the
N-terminal NAD-binding domain.
Length = 157
Score = 27.2 bits (61), Expect = 2.9
Identities = 12/34 (35%), Positives = 19/34 (55%), Gaps = 4/34 (11%)
Query: 20 VIGGGN--TAVEEALYLSNIAKKVTLIHRNEKLR 51
V+G G+ TA+ A L+ +V L R+E+L
Sbjct: 4 VLGAGSWGTAL--AKVLARNGHEVRLWGRDEELI 35
>gnl|CDD|233583 TIGR01813, flavo_cyto_c, flavocytochrome c. This model describes a
family of redox proteins related to the succinate
dehydrogenases and fumarate reductases of E. coli,
mitochondria, and other well-characterized systems. A
member of this family from Shewanella frigidimarina
NCIMB400 is characterized as a water-soluble periplasmic
protein with four heme groups, a non-covalently bound
FAD, and essentially unidirectional fumarate reductase
activity. At least seven distinct members of this family
are found in Shewanella oneidensis, a species able to
use a wide variety of pathways for respiraton [Energy
metabolism, Electron transport].
Length = 439
Score = 27.3 bits (61), Expect = 3.0
Identities = 13/51 (25%), Positives = 24/51 (47%), Gaps = 3/51 (5%)
Query: 56 LIDRLMQKVNEGKIDIKLKHIVHKIIGNN--TVTG-QLEMNDGYIKTKLNK 103
++ +L +K + ID +L V +I ++ TV G ++ I K K
Sbjct: 132 IVQKLYKKAKKEGIDTRLNSKVEDLIQDDQGTVVGVVVKGKGKGIYIKAAK 182
>gnl|CDD|236630 PRK09853, PRK09853, putative selenate reductase subunit YgfK;
Provisional.
Length = 1019
Score = 27.2 bits (61), Expect = 3.4
Identities = 14/33 (42%), Positives = 23/33 (69%), Gaps = 4/33 (12%)
Query: 20 VIGGGNTAVE---EALYLSNIAKKVTLIHRNEK 49
V+GGGNTA++ AL + + +KVT+++R K
Sbjct: 673 VVGGGNTAMDAARAALRVPGV-EKVTVVYRRTK 704
>gnl|CDD|223523 COG0446, HcaD, Uncharacterized NAD(FAD)-dependent dehydrogenases
[General function prediction only].
Length = 415
Score = 27.2 bits (60), Expect = 4.4
Identities = 16/72 (22%), Positives = 31/72 (43%), Gaps = 5/72 (6%)
Query: 20 VIGGGNTAVEEALYLSNIAKKVTLIHRNEK----LRCEKILIDRLMQKVNEGKIDIKLKH 75
V+G G +E A + KKVTLI ++ L ++ + L + + + +++ L
Sbjct: 141 VVGAGPIGLEAAEAAAKRGKKVTLIEAADRLGGQLLDPEVA-EELAELLEKYGVELLLGT 199
Query: 76 IVHKIIGNNTVT 87
V + G
Sbjct: 200 KVVGVEGKGNTL 211
>gnl|CDD|130779 TIGR01718, Uridine-psphlse, uridine phosphorylase. This model
represents a family of bacterial and archaeal uridine
phosphorylases unrelated to the mammalian enzymes of
the same name. The E. coli , Salmonella and Klebsiella
genes have been characterized. Sequences from
Clostridium, Streptomyces, Treponema, Halobacterium and
Pyrobaculum were included above trusted on the basis of
sequence homology and a PAM-based neighbor-joining
tree. A clade including second sequences from
Halobacterium and Vibrio was somewhat more distantly
related and may represent a slightly different
substrate specificity - these were placed below the
noise cutoff. More distantly related is a clade of
archaeal sequences which as related to the DeoD family
of inosine phosphorylases (TIGR00107) as they are to
these uridine phosphorylases. This clade includes a
characterized protein from Sulfolobus solfataricus
which has been mis-named as a methylthioadenosine
phosphorylase, but which acts on inosine and guanosine
- it is unclear whether uridine has been evaluated as a
substrate [Purines, pyrimidines, nucleosides, and
nucleotides, Salvage of nucleosides and nucleotides].
Length = 245
Score = 26.8 bits (59), Expect = 4.4
Identities = 13/25 (52%), Positives = 16/25 (64%), Gaps = 2/25 (8%)
Query: 12 KPVIIFTDVIGGGNTA--VEEALYL 34
KPVI+ + IGG +TA VEE L
Sbjct: 53 KPVIVCSTGIGGPSTAIAVEELAQL 77
>gnl|CDD|130383 TIGR01316, gltA, glutamate synthase (NADPH), homotetrameric. This
protein is homologous to the small subunit of NADPH and
NADH forms of glutamate synthase as found in eukaryotes
and some bacteria. This protein is found in numerous
species having no homolog of the glutamate synthase
large subunit. The prototype of the family, from
Pyrococcus sp. KOD1, was shown to be active as a
homotetramer and to require NADPH [Amino acid
biosynthesis, Glutamate family].
Length = 449
Score = 26.8 bits (59), Expect = 5.7
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 20 VIGGGNTAVEEALYLSNIAKKVTLIHR 46
VIGGGNTAV+ A + +V ++R
Sbjct: 277 VIGGGNTAVDSARTALRLGAEVHCLYR 303
>gnl|CDD|187704 cd09280, RNase_HI_eukaryote_like, Eukaryotic RNase H is longer and
more complex than their prokaryotic counterparts and
unlike prokaryote, RNase H are essential in higher
eukaryote. Ribonuclease H (RNase H) is classified into
two families, type 1 (prokaryotic RNase HI, eukaryotic
RNase H1 and viral RNase H) and type 2 (prokaryotic
RNase HII and HIII, and eukaryotic RNase H2). RNase H is
an endonuclease that cleaves the RNA strand of an
RNA/DNA hybrid in a sequence non-specific manner. RNase
H is involved in DNA replication, repair and
transcription. One of the important functions of RNase H
is to remove Okazaki fragments during DNA replication.
RNase H is widely present in various organisms,
including bacteria, archaea and eukaryote and most
prokaryotic and eukaryotic genomes contain multiple
RNase H genes. Despite the lack of amino acid sequence
homology, Type 1 and type 2 RNase H share a main-chain
fold and steric configurations of the four acidic
active-site (DEDD) residues and have the same catalytic
mechanism and functions in cells. Eukaryotic RNase H is
longer and more complex than in prokaryotes. Almost all
eukaryotic RNase HI have highly conserved regions at the
N-terminal called hybrid binding domain (HBD). It is
speculated that the HBD contributes to binding the
RNA/DNA hybrid. Prokaryotes and some single-cell
eukaryotes do not require RNase H for viability, but
RNase H is essential in higher eukaryotes. RNase H
knockout mice lack mitochondrial DNA replication and die
as embryos.
Length = 150
Score = 26.0 bits (58), Expect = 6.4
Identities = 9/30 (30%), Positives = 17/30 (56%), Gaps = 2/30 (6%)
Query: 57 IDRLMQKVNEGKIDIKLKHI--VHKIIGNN 84
+D+L++++ E I +K H+ I GN
Sbjct: 110 LDKLLEELEERGIRVKFWHVPGHSGIYGNE 139
>gnl|CDD|233412 TIGR01438, TGR, thioredoxin and glutathione reductase
selenoprotein. This homodimeric, FAD-containing member
of the pyridine nucleotide disulfide oxidoreductase
family contains a C-terminal motif Cys-SeCys-Gly, where
SeCys is selenocysteine encoded by TGA (in some sequence
reports interpreted as a stop codon). In some members of
this subfamily, Cys-SeCys-Gly is replaced by
Cys-Cys-Gly. The reach of the selenium atom at the
C-term arm of the protein is proposed to allow broad
substrate specificity.
Length = 484
Score = 26.4 bits (58), Expect = 6.5
Identities = 30/132 (22%), Positives = 55/132 (41%), Gaps = 33/132 (25%)
Query: 18 TDVIGGGNTAVEEALYLSNIAKKVTLIHRNEKLR-----CEKILIDRLMQ---KVNEGKI 69
T V+G A+E A +L+ I VT++ R+ LR C + + + + K +
Sbjct: 183 TLVVGASYVALECAGFLAGIGLDVTVMVRSILLRGFDQDCANKVGEHMEEHGVKFKRQFV 242
Query: 70 DIKLKHIVHKII---GNNTVTGQLEMN--------DGYIKT--------KLNKKTG---- 106
IK++ I K++ ++T + E + D + K+NKKTG
Sbjct: 243 PIKVEQIEAKVLVEFTDSTNGIEEEYDTVLLAIGRDACTRKLNLENVGVKINKKTGKIPA 302
Query: 107 --YTSTNISGVF 116
TN+ ++
Sbjct: 303 DEEEQTNVPYIY 314
>gnl|CDD|132358 TIGR03315, Se_ygfK, putative selenate reductase, YgfK subunit.
Members of this protein family are YgfK, predicted to be
one subunit of a three-subunit, molybdopterin-containing
selenate reductase. This enzyme is found, typically, in
genomic regions associated with xanthine dehydrogenase
homologs predicted to belong to the selenium-dependent
molybdenum hydroxylases (SDMH). Therefore, the selenate
reductase is suggested to play a role in furnishing
selenide for SelD, the selenophosphate synthase.
Length = 1012
Score = 26.3 bits (58), Expect = 7.2
Identities = 14/33 (42%), Positives = 23/33 (69%), Gaps = 4/33 (12%)
Query: 20 VIGGGNTAVE---EALYLSNIAKKVTLIHRNEK 49
V+GGGNTA++ AL + + +KVT+++R K
Sbjct: 671 VVGGGNTAMDAARAALRVPGV-EKVTVVYRRTK 702
>gnl|CDD|235787 PRK06370, PRK06370, mercuric reductase; Validated.
Length = 463
Score = 26.3 bits (59), Expect = 7.3
Identities = 11/31 (35%), Positives = 16/31 (51%)
Query: 20 VIGGGNTAVEEALYLSNIAKKVTLIHRNEKL 50
+IGGG +E A +VT+I R +L
Sbjct: 176 IIGGGYIGLEFAQMFRRFGSEVTVIERGPRL 206
>gnl|CDD|109787 pfam00743, FMO-like, Flavin-binding monooxygenase-like. This
family includes FMO proteins, cyclohexanone
mono-oxygenase and a number of different
mono-oxygenases.
Length = 532
Score = 26.3 bits (58), Expect = 8.1
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 20 VIGGGNTAVEEALYLSNIAKKVTLIHRN 47
VIG GN+ + A+ LS A +V L R
Sbjct: 188 VIGLGNSGGDIAVELSRTAAQVFLSTRT 215
>gnl|CDD|236967 PRK11749, PRK11749, dihydropyrimidine dehydrogenase subunit A;
Provisional.
Length = 457
Score = 25.9 bits (58), Expect = 8.8
Identities = 14/30 (46%), Positives = 18/30 (60%), Gaps = 5/30 (16%)
Query: 20 VIGGGNTA---VEEALYLSNIAKKVTLIHR 46
VIGGGNTA A L A+ VT+++R
Sbjct: 278 VIGGGNTAMDAARTAKRLG--AESVTIVYR 305
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
0.324 0.140 0.409
Gapped
Lambda K H
0.267 0.0733 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,598,693
Number of extensions: 687334
Number of successful extensions: 676
Number of sequences better than 10.0: 1
Number of HSP's gapped: 671
Number of HSP's successfully gapped: 66
Length of query: 148
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 60
Effective length of database: 7,034,450
Effective search space: 422067000
Effective search space used: 422067000
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 54 (24.6 bits)