RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3942
(160 letters)
>gnl|CDD|202367 pfam02737, 3HCDH_N, 3-hydroxyacyl-CoA dehydrogenase, NAD binding
domain. This family also includes lambda crystallin.
Length = 180
Score = 180 bits (460), Expect = 7e-59
Identities = 74/166 (44%), Positives = 102/166 (61%), Gaps = 13/166 (7%)
Query: 1 VAAQAGNQ-----------EEGEKLIDSTLSRIKGSSKEEGEKLIDLTLSRIKGSSKVED 49
V A+AG + E+ I+ +L+R+ + E D L+RI ++ + D
Sbjct: 17 VFARAGLEVVLVDISEEALEKARARIEKSLARLVEKGRITEED-ADAVLARISFTTDLAD 75
Query: 50 SVSQSDLVIEAIVENMDIKHKLFTSVDKIAPASAILASNTSSLSITEIASVTNRKDKFVG 109
+V +DLVIEA+ EN+D+K +LF +D IAP AILASNTSSLSITE+A+ T R ++F+G
Sbjct: 76 AVD-ADLVIEAVPENLDLKRELFAELDAIAPPDAILASNTSSLSITELAAATKRPERFIG 134
Query: 110 LHFFNPVPMMKLLEVIRTNDTSDATYNAVTEWGKSIGKTTIVCKDT 155
LHFFNP P+M L+EV+R TS T V K IGKT +V KD
Sbjct: 135 LHFFNPPPLMPLVEVVRGEKTSPETVATVVALAKKIGKTPVVVKDV 180
>gnl|CDD|180269 PRK05808, PRK05808, 3-hydroxybutyryl-CoA dehydrogenase; Validated.
Length = 282
Score = 180 bits (460), Expect = 1e-57
Identities = 76/151 (50%), Positives = 103/151 (68%), Gaps = 4/151 (2%)
Query: 9 EEGEKLIDSTLSR-IKGSSKEEGEKLIDLTLSRIKGSSKVEDSVSQSDLVIEAIVENMDI 67
+ G I +L R +K E +K + L+RI G++ ++D + +DLVIEA ENMD+
Sbjct: 40 DRGLATITKSLDRLVKKGKMTEADK--EAALARITGTTDLDD-LKDADLVIEAATENMDL 96
Query: 68 KHKLFTSVDKIAPASAILASNTSSLSITEIASVTNRKDKFVGLHFFNPVPMMKLLEVIRT 127
K K+F +D+IA AILA+NTSSLSITE+A+ T R DK +G+HFFNPVP+MKL+E+IR
Sbjct: 97 KKKIFAQLDEIAKPEAILATNTSSLSITELAAATKRPDKVIGMHFFNPVPVMKLVEIIRG 156
Query: 128 NDTSDATYNAVTEWGKSIGKTTIVCKDTPGF 158
TSDAT+ AV K IGKT + K+ PGF
Sbjct: 157 LATSDATHEAVEALAKKIGKTPVEVKNAPGF 187
>gnl|CDD|215300 PLN02545, PLN02545, 3-hydroxybutyryl-CoA dehydrogenase.
Length = 295
Score = 173 bits (440), Expect = 1e-54
Identities = 71/153 (46%), Positives = 101/153 (66%), Gaps = 8/153 (5%)
Query: 9 EEGEKLIDSTLSRI--KGS-SKEEGEKLIDLTLSRIKGSSKVEDSVSQSDLVIEAIVENM 65
G I S+L+R+ KG S+EE D TL RI+ ++ +E+ + +D +IEAIVE+
Sbjct: 41 SRGLDSISSSLARLVKKGKMSQEEA----DATLGRIRCTTNLEE-LRDADFIIEAIVESE 95
Query: 66 DIKHKLFTSVDKIAPASAILASNTSSLSITEIASVTNRKDKFVGLHFFNPVPMMKLLEVI 125
D+K KLF+ +D+I SAILASNTSS+SIT +AS T R + +G+HF NP P+MKL+E+I
Sbjct: 96 DLKKKLFSELDRICKPSAILASNTSSISITRLASATQRPQQVIGMHFMNPPPIMKLVEII 155
Query: 126 RTNDTSDATYNAVTEWGKSIGKTTIVCKDTPGF 158
R DTSD ++A + GKT + +D PGF
Sbjct: 156 RGADTSDEVFDATKALAERFGKTVVCSQDYPGF 188
>gnl|CDD|224170 COG1250, FadB, 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism].
Length = 307
Score = 173 bits (441), Expect = 2e-54
Identities = 69/150 (46%), Positives = 97/150 (64%), Gaps = 2/150 (1%)
Query: 9 EEGEKLIDSTLSRIKGSSKEEGEKLIDLTLSRIKGSSKVEDSVSQSDLVIEAIVENMDIK 68
E I+ L ++ K E+ D L+RI ++ + + +DLVIEA+VE++++K
Sbjct: 40 ERALAYIEKNLEKLVEKGKLTEEEA-DAALARITPTTDLAA-LKDADLVIEAVVEDLELK 97
Query: 69 HKLFTSVDKIAPASAILASNTSSLSITEIASVTNRKDKFVGLHFFNPVPMMKLLEVIRTN 128
++F ++ +A AILASNTSSLSITE+A R ++F+GLHFFNPVP+M L+EVIR
Sbjct: 98 KQVFAELEALAKPDAILASNTSSLSITELAEALKRPERFIGLHFFNPVPLMPLVEVIRGE 157
Query: 129 DTSDATYNAVTEWGKSIGKTTIVCKDTPGF 158
TSD T V E+ K IGKT +V KD PGF
Sbjct: 158 KTSDETVERVVEFAKKIGKTPVVVKDVPGF 187
>gnl|CDD|236211 PRK08268, PRK08268, 3-hydroxy-acyl-CoA dehydrogenase; Validated.
Length = 507
Score = 158 bits (403), Expect = 5e-47
Identities = 66/169 (39%), Positives = 95/169 (56%), Gaps = 13/169 (7%)
Query: 1 VAAQAGNQ-----------EEGEKLIDSTLSRIKGSSKEEGEKLIDLTLSRIKGSSKVED 49
VAAQAG+ I + L+++ K E+ D L+R++ + D
Sbjct: 25 VAAQAGHTVLLYDARAGAAAAARDGIAARLAKLVEKGKLTAEQA-DAALARLRPVEALAD 83
Query: 50 SVSQSDLVIEAIVENMDIKHKLFTSVDKIAPASAILASNTSSLSITEIASVTNRKDKFVG 109
++ DLV+EAIVE +D+K LF ++ I ILA+NTSSLSIT IA+ ++ G
Sbjct: 84 -LADCDLVVEAIVERLDVKQALFAQLEAIVSPDCILATNTSSLSITAIAAALKHPERVAG 142
Query: 110 LHFFNPVPMMKLLEVIRTNDTSDATYNAVTEWGKSIGKTTIVCKDTPGF 158
LHFFNPVP+MKL+EV+ T A +A+ ++ GKT + KDTPGF
Sbjct: 143 LHFFNPVPLMKLVEVVSGLATDPAVADALYALARAWGKTPVRAKDTPGF 191
>gnl|CDD|181018 PRK07530, PRK07530, 3-hydroxybutyryl-CoA dehydrogenase; Validated.
Length = 292
Score = 145 bits (368), Expect = 1e-43
Identities = 64/168 (38%), Positives = 99/168 (58%), Gaps = 11/168 (6%)
Query: 1 VAAQAGNQ----EEGEKLIDSTLSRIKG------SSKEEGEKLIDLTLSRIKGSSKVEDS 50
V A AG + +++ L+ I G + + E+ L+RI ++ +ED
Sbjct: 22 VCALAGYDVLLNDVSADRLEAGLATINGNLARQVAKGKISEEARAAALARISTATDLED- 80
Query: 51 VSQSDLVIEAIVENMDIKHKLFTSVDKIAPASAILASNTSSLSITEIASVTNRKDKFVGL 110
++ DLVIEA E+ +K K+F + + AILA+NTSS+SIT +AS T+R ++F+G+
Sbjct: 81 LADCDLVIEAATEDETVKRKIFAQLCPVLKPEAILATNTSSISITRLASATDRPERFIGI 140
Query: 111 HFFNPVPMMKLLEVIRTNDTSDATYNAVTEWGKSIGKTTIVCKDTPGF 158
HF NPVP+MKL+E+IR T +AT+ A E+ +GKT V +D P F
Sbjct: 141 HFMNPVPVMKLVELIRGIATDEATFEAAKEFVTKLGKTITVAEDFPAF 188
>gnl|CDD|236434 PRK09260, PRK09260, 3-hydroxybutyryl-CoA dehydrogenase; Validated.
Length = 288
Score = 134 bits (339), Expect = 2e-39
Identities = 57/152 (37%), Positives = 91/152 (59%), Gaps = 5/152 (3%)
Query: 8 QEEGEKLIDSTLSRIKGSSKEEGEKLIDLTLSRIKGSSKVEDSVSQSDLVIEAIVENMDI 67
Q+E + + ++R K + L+R+ S ++ +V+ +DLVIEA+ E +++
Sbjct: 41 QQEIASIFEQGVARGKLTEAARQA-----ALARLSYSLDLKAAVADADLVIEAVPEKLEL 95
Query: 68 KHKLFTSVDKIAPASAILASNTSSLSITEIASVTNRKDKFVGLHFFNPVPMMKLLEVIRT 127
K +F + D APA +A+NTS++S TEIAS T R ++ + +HFFNPV MKL+E+IR
Sbjct: 96 KKAVFETADAHAPAECYIATNTSTMSPTEIASFTKRPERVIAMHFFNPVHKMKLVELIRG 155
Query: 128 NDTSDATYNAVTEWGKSIGKTTIVCKDTPGFT 159
+TSD T E + +GK T+V + PGF
Sbjct: 156 LETSDETVQVAKEVAEQMGKETVVVNEFPGFV 187
>gnl|CDD|183293 PRK11730, fadB, multifunctional fatty acid oxidation complex
subunit alpha; Reviewed.
Length = 715
Score = 140 bits (355), Expect = 2e-39
Identities = 58/149 (38%), Positives = 82/149 (55%), Gaps = 6/149 (4%)
Query: 10 EGEKLIDSTLSRIKGSSKEEGEKLIDLTLSRIKGSSKVEDSVSQSDLVIEAIVENMDIKH 69
E KL++ + R K +G K+ LS I+ + + D+V+EA+VEN +K
Sbjct: 355 EAAKLLNKQVER----GKIDGAKM-AGVLSSIRPTLDYAG-FERVDVVVEAVVENPKVKA 408
Query: 70 KLFTSVDKIAPASAILASNTSSLSITEIASVTNRKDKFVGLHFFNPVPMMKLLEVIRTND 129
+ V++ ILASNTS++SI+ +A R + F G+HFFNPV M L+EVIR
Sbjct: 409 AVLAEVEQKVREDTILASNTSTISISLLAKALKRPENFCGMHFFNPVHRMPLVEVIRGEK 468
Query: 130 TSDATYNAVTEWGKSIGKTTIVCKDTPGF 158
TSD T V + +GKT IV D PGF
Sbjct: 469 TSDETIATVVAYASKMGKTPIVVNDCPGF 497
>gnl|CDD|181133 PRK07819, PRK07819, 3-hydroxybutyryl-CoA dehydrogenase; Validated.
Length = 286
Score = 129 bits (327), Expect = 1e-37
Identities = 61/172 (35%), Positives = 99/172 (57%), Gaps = 17/172 (9%)
Query: 1 VAAQAGNQ----EEGEKLIDSTLSRI-----KGSSK---EEGEKLIDLTLSRIKGSSKVE 48
V A+AG E E+L + +RI + S+ E E+ D L+R++ ++ +
Sbjct: 23 VCARAGVDVLVFETTEELATAGRNRIEKSLERAVSRGKLTERER--DAALARLRFTTDLG 80
Query: 49 DSVSQSDLVIEAIVENMDIKHKLFTSVDKI-APASAILASNTSSLSITEIASVTNRKDKF 107
D + LVIEA+VE+ +K ++F +DK+ A+LASNTSS+ I ++A+ T R +
Sbjct: 81 D-FADRQLVIEAVVEDEAVKTEIFAELDKVVTDPDAVLASNTSSIPIMKLAAATKRPGRV 139
Query: 108 VGLHFFNPVPMMKLLEVIRTNDTSDATYNAVTEWGKSI-GKTTIVCKDTPGF 158
+GLHFFNPVP++ L+E++ T TS+AT E+ + GK + +D GF
Sbjct: 140 LGLHFFNPVPVLPLVELVPTLVTSEATVARAEEFASDVLGKQVVRAQDRSGF 191
>gnl|CDD|180361 PRK06035, PRK06035, 3-hydroxyacyl-CoA dehydrogenase; Validated.
Length = 291
Score = 128 bits (322), Expect = 5e-37
Identities = 55/128 (42%), Positives = 82/128 (64%), Gaps = 1/128 (0%)
Query: 31 EKLIDLTLSRIKGSSKVEDSVSQSDLVIEAIVENMDIKHKLFTSVDKIAPASAILASNTS 90
E ++RI+ S+ E S+S +D ++EA+ E +D+K K+F +++ I+ASNTS
Sbjct: 64 EDEAKAIMARIRTSTSYE-SLSDADFIVEAVPEKLDLKRKVFAELERNVSPETIIASNTS 122
Query: 91 SLSITEIASVTNRKDKFVGLHFFNPVPMMKLLEVIRTNDTSDATYNAVTEWGKSIGKTTI 150
+ I EIA+ RKD+F+G+H+FNP P+MKL+EV+R TS+ T+N E K IGK I
Sbjct: 123 GIMIAEIATALERKDRFIGMHWFNPAPVMKLIEVVRAALTSEETFNTTVELSKKIGKIPI 182
Query: 151 VCKDTPGF 158
D PGF
Sbjct: 183 EVADVPGF 190
>gnl|CDD|235707 PRK06130, PRK06130, 3-hydroxybutyryl-CoA dehydrogenase; Validated.
Length = 311
Score = 114 bits (287), Expect = 1e-31
Identities = 49/123 (39%), Positives = 72/123 (58%), Gaps = 1/123 (0%)
Query: 37 TLSRIKGSSKVEDSVSQSDLVIEAIVENMDIKHKLFTSVDKIAPASAILASNTSSLSITE 96
+ RI+ + + +VS +DLVIEA+ E +++K +F +D + I A+NTS L IT
Sbjct: 63 GMGRIRMEAGLAAAVSGADLVIEAVPEKLELKRDVFARLDGLCDPDTIFATNTSGLPITA 122
Query: 97 IASVTNRKDKFVGLHFFNPVPMMKLLEVIRTNDTSDATYNAVTEWGKSIGKTTI-VCKDT 155
IA R ++FVG HFF P ++ L+EV+R + TS T +SIGK + V KD
Sbjct: 123 IAQAVTRPERFVGTHFFTPADVIPLVEVVRGDKTSPQTVATTMALLRSIGKRPVLVKKDI 182
Query: 156 PGF 158
PGF
Sbjct: 183 PGF 185
>gnl|CDD|188207 TIGR02279, PaaC-3OHAcCoADH, 3-hydroxyacyl-CoA dehydrogenase PaaC.
This 3-hydroxyacyl-CoA dehydrogenase is involved in the
degradation of phenylacetic acid, presumably in steps
following the opening of the phenyl ring. The sequences
included in this model are all found in aparrent operons
with other related genes such as paaA, paaB, paaD, paaE,
paaF and paaN. Some genomes contain these other genes
without an apparent paaC in the same operon - possibly
in these cases a different dehydrogenase involved in
fatty acid degradation may fill in the needed activity.
This enzyme has domains which are members of the
pfam02737 and pfam00725 families.
Length = 503
Score = 114 bits (287), Expect = 2e-30
Identities = 62/169 (36%), Positives = 94/169 (55%), Gaps = 13/169 (7%)
Query: 1 VAAQAGNQ-----------EEGEKLIDSTLSRIKGSSKEEGEKLIDLTLSRIKGSSKVED 49
VAA AG+Q I++ L+ + K E+ + TL R+ + +
Sbjct: 23 VAASAGHQVLLYDIRAEALARAIAGIEARLNSLVTKGKLTAEEC-ERTLKRLIPVTDLH- 80
Query: 50 SVSQSDLVIEAIVENMDIKHKLFTSVDKIAPASAILASNTSSLSITEIASVTNRKDKFVG 109
+++ + LVIEAIVEN+++K LF ++++ PA I+ASNTSSLSIT IA+ R ++ G
Sbjct: 81 ALADAGLVIEAIVENLEVKKALFAQLEELCPADTIIASNTSSLSITAIAAGLARPERVAG 140
Query: 110 LHFFNPVPMMKLLEVIRTNDTSDATYNAVTEWGKSIGKTTIVCKDTPGF 158
LHFFNP P+M L+EV+ T+ + E + GK + C TPGF
Sbjct: 141 LHFFNPAPVMALVEVVSGLATAAEVAEQLYETALAWGKQPVHCHSTPGF 189
>gnl|CDD|131490 TIGR02437, FadB, fatty oxidation complex, alpha subunit FadB.
Members represent alpha subunit of multifunctional
enzyme complex of the fatty acid degradation cycle.
Activities include: enoyl-CoA hydratase (EC 4.2.1.17),
dodecenoyl-CoA delta-isomerase activity (EC 5.3.3.8),
3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35),
3-hydroxybutyryl-CoA epimerase (EC 5.1.2.3). A
representative is E. coli FadB. This model excludes the
FadJ family represented by SP:P77399 [Fatty acid and
phospholipid metabolism, Degradation].
Length = 714
Score = 113 bits (285), Expect = 7e-30
Identities = 55/149 (36%), Positives = 80/149 (53%), Gaps = 6/149 (4%)
Query: 10 EGEKLIDSTLSRIKGSSKEEGEKLIDLTLSRIKGSSKVEDSVSQSDLVIEAIVENMDIKH 69
E KL++ + R + K+ + L+ I + D+V+EA+VEN +K
Sbjct: 355 EAAKLLNKQVER----GRITPAKMAGV-LNGITPTLSYAG-FDNVDIVVEAVVENPKVKA 408
Query: 70 KLFTSVDKIAPASAILASNTSSLSITEIASVTNRKDKFVGLHFFNPVPMMKLLEVIRTND 129
+ V++ AILASNTS++SI+ +A R + F G+HFFNPV M L+EVIR
Sbjct: 409 AVLAEVEQHVREDAILASNTSTISISLLAKALKRPENFCGMHFFNPVHRMPLVEVIRGEK 468
Query: 130 TSDATYNAVTEWGKSIGKTTIVCKDTPGF 158
+SD T V + +GKT IV D PGF
Sbjct: 469 SSDETIATVVAYASKMGKTPIVVNDCPGF 497
>gnl|CDD|236864 PRK11154, fadJ, multifunctional fatty acid oxidation complex
subunit alpha; Reviewed.
Length = 708
Score = 111 bits (279), Expect = 4e-29
Identities = 46/124 (37%), Positives = 69/124 (55%), Gaps = 1/124 (0%)
Query: 35 DLTLSRIKGSSKVEDSVSQSDLVIEAIVENMDIKHKLFTSVDKIAPASAILASNTSSLSI 94
D ++ I G++ +D+VIEA+ E++ +K ++ V++ I ASNTSSL I
Sbjct: 372 DKQMALISGTTDY-RGFKHADVVIEAVFEDLALKQQMVAEVEQNCAPHTIFASNTSSLPI 430
Query: 95 TEIASVTNRKDKFVGLHFFNPVPMMKLLEVIRTNDTSDATYNAVTEWGKSIGKTTIVCKD 154
+IA+ R ++ +GLH+F+PV M L+EVI TS T K GKT IV +D
Sbjct: 431 GQIAAAAARPEQVIGLHYFSPVEKMPLVEVIPHAKTSAETIATTVALAKKQGKTPIVVRD 490
Query: 155 TPGF 158
GF
Sbjct: 491 GAGF 494
>gnl|CDD|181359 PRK08293, PRK08293, 3-hydroxybutyryl-CoA dehydrogenase; Validated.
Length = 287
Score = 105 bits (265), Expect = 2e-28
Identities = 44/148 (29%), Positives = 79/148 (53%), Gaps = 5/148 (3%)
Query: 12 EKLIDSTLSRIKGSSKEEGEKLIDLTLSRIKGSSKVEDSVSQSDLVIEAIVENMDIKHKL 71
KL D + ++ + + + L+RI ++ + ++V +DLVIEA+ E+ +IK
Sbjct: 47 AKLADRYVRDLEATKEAP----AEAALNRITLTTDLAEAVKDADLVIEAVPEDPEIKGDF 102
Query: 72 FTSVDKIAPASAILASNTSSLSITEIASVTNRKDKFVGLHFFNPVPMMKLLEVIRTNDTS 131
+ + K+AP I A+N+S+L ++ A T R +KF+ LHF N + E++ T
Sbjct: 103 YEELAKVAPEKTIFATNSSTLLPSQFAEATGRPEKFLALHFANEIWKNNTAEIMGHPGTD 162
Query: 132 DATYNAVTEWGKSIGKTTIVC-KDTPGF 158
++ V + K+IG IV K+ PG+
Sbjct: 163 PEVFDTVVAFAKAIGMVPIVLKKEQPGY 190
>gnl|CDD|131494 TIGR02441, fa_ox_alpha_mit, fatty acid oxidation complex, alpha
subunit, mitochondrial. Members represent alpha subunit
of mitochondrial multifunctional fatty acid degradation
enzyme complex. Subunit activities include: enoyl-CoA
hydratase (EC 4.2.1.17) & 3-hydroxyacyl-CoA
dehydrogenase (EC 1.1.1.35). Some characterization in
human , pig , and rat. The beta subunit has activity:
acetyl-CoA C-acyltransferase (EC 2.3.1.16).
Length = 737
Score = 105 bits (264), Expect = 4e-27
Identities = 47/106 (44%), Positives = 71/106 (66%)
Query: 53 QSDLVIEAIVENMDIKHKLFTSVDKIAPASAILASNTSSLSITEIASVTNRKDKFVGLHF 112
+D+VIEA+ E++ +KHK+ V+ + P I+ASNTS+L I +IA+V++R +K +G+H+
Sbjct: 414 NADMVIEAVFEDLSLKHKVIKEVEAVVPPHCIIASNTSALPIKDIAAVSSRPEKVIGMHY 473
Query: 113 FNPVPMMKLLEVIRTNDTSDATYNAVTEWGKSIGKTTIVCKDTPGF 158
F+PV M+LLE+I + TS T + G GK IV KD PGF
Sbjct: 474 FSPVDKMQLLEIITHDGTSKDTLASAVAVGLKQGKVVIVVKDGPGF 519
>gnl|CDD|131493 TIGR02440, FadJ, fatty oxidation complex, alpha subunit FadJ.
Members represent alpha subunit of multifunctional
enzyme complex of the fatty acid degradation cycle.
Plays a minor role in aerobic beta-oxidation of fatty
acids. FadJI complex is necessary for anaerobic growth
on short-chain acids with nitrate as an electron
acceptor. Activities include: enoyl-CoA hydratase (EC
4.2.1.17),3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35),
3-hydroxybutyryl-CoA epimerase (EC 5.1.2.3). A
representative is E. coli FadJ (aka YfcX). This model
excludes the FadB of TIGR02437 equivalog model [Fatty
acid and phospholipid metabolism, Degradation].
Length = 699
Score = 96.4 bits (240), Expect = 6e-24
Identities = 44/108 (40%), Positives = 63/108 (58%)
Query: 51 VSQSDLVIEAIVENMDIKHKLFTSVDKIAPASAILASNTSSLSITEIASVTNRKDKFVGL 110
D+VIEA+ E++ +KH++ +++ A I ASNTSSL I +IA+ +R + +GL
Sbjct: 382 FKDVDIVIEAVFEDLALKHQMVKDIEQECAAHTIFASNTSSLPIGQIAAAASRPENVIGL 441
Query: 111 HFFNPVPMMKLLEVIRTNDTSDATYNAVTEWGKSIGKTTIVCKDTPGF 158
H+F+PV M L+EVI TS+ T K GKT IV D GF
Sbjct: 442 HYFSPVEKMPLVEVIPHAGTSEQTIATTVALAKKQGKTPIVVADKAGF 489
>gnl|CDD|181340 PRK08269, PRK08269, 3-hydroxybutyryl-CoA dehydrogenase; Validated.
Length = 314
Score = 79.3 bits (196), Expect = 2e-18
Identities = 38/126 (30%), Positives = 67/126 (53%), Gaps = 2/126 (1%)
Query: 35 DLTLSRIK--GSSKVEDSVSQSDLVIEAIVENMDIKHKLFTSVDKIAPASAILASNTSSL 92
D L+RI D+++ +DLV EA+ E +D K + + + A AI+AS TS+
Sbjct: 59 DAVLARIAVVARDGAADALADADLVFEAVPEVLDAKREALRWLGRHVDADAIIASTTSTF 118
Query: 93 SITEIASVTNRKDKFVGLHFFNPVPMMKLLEVIRTNDTSDATYNAVTEWGKSIGKTTIVC 152
+T++ ++F+ H+ NP +M L+EV ++ T A + + + IGK +VC
Sbjct: 119 LVTDLQRHVAHPERFLNAHWLNPAYLMPLVEVSPSDATDPAVVDRLAALLERIGKVPVVC 178
Query: 153 KDTPGF 158
+PG+
Sbjct: 179 GPSPGY 184
>gnl|CDD|236044 PRK07531, PRK07531, bifunctional 3-hydroxyacyl-CoA
dehydrogenase/thioesterase; Validated.
Length = 495
Score = 69.0 bits (169), Expect = 2e-14
Identities = 25/107 (23%), Positives = 55/107 (51%)
Query: 40 RIKGSSKVEDSVSQSDLVIEAIVENMDIKHKLFTSVDKIAPASAILASNTSSLSITEIAS 99
R+ + + ++V+ +D + E++ E +D+K ++ +D A A++ S+TS +++
Sbjct: 67 RLTFCASLAEAVAGADWIQESVPERLDLKRRVLAEIDAAARPDALIGSSTSGFLPSDLQE 126
Query: 100 VTNRKDKFVGLHFFNPVPMMKLLEVIRTNDTSDATYNAVTEWGKSIG 146
++ H +NPV ++ L+E++ TS T E + IG
Sbjct: 127 GMTHPERLFVAHPYNPVYLLPLVELVGGGKTSPETIRRAKEILREIG 173
>gnl|CDD|235706 PRK06129, PRK06129, 3-hydroxyacyl-CoA dehydrogenase; Validated.
Length = 308
Score = 62.0 bits (151), Expect = 5e-12
Identities = 38/126 (30%), Positives = 69/126 (54%), Gaps = 3/126 (2%)
Query: 35 DLTLSRIKGSSKVEDSVSQSDLVIEAIVENMDIKHKLFTSVDKIAPASAILASNTSSLSI 94
D L+RI+ + + D+V+ +D V E+ EN+++K LF +D +AP AILAS+TS+L
Sbjct: 64 DAVLARIRVTDSLADAVADADYVQESAPENLELKRALFAELDALAPPHAILASSTSALLA 123
Query: 95 TEIA-SVTNRKDKFVGLHFFNPVPMMKLLEVIRTNDTSDATYNAVTEWGKSIGKTTIVC- 152
+ + R+ V H NP ++ ++EV+ T+ AT ++ G++ +
Sbjct: 124 SAFTEHLAGRERCLVA-HPINPPYLIPVVEVVPAPWTAPATLARAEALYRAAGQSPVRLR 182
Query: 153 KDTPGF 158
++ GF
Sbjct: 183 REIDGF 188
>gnl|CDD|168796 PRK07066, PRK07066, 3-hydroxybutyryl-CoA dehydrogenase; Validated.
Length = 321
Score = 59.8 bits (145), Expect = 3e-11
Identities = 37/122 (30%), Positives = 66/122 (54%), Gaps = 3/122 (2%)
Query: 39 SRIKGSSKVEDSVSQSDLVIEAIVENMDIKHKLFTSVDKIAPASAILASNTSSLSITEI- 97
+R++ + +E V+ +D + E+ E +K +L + + A AI+AS+TS L T+
Sbjct: 69 ARLRFVATIEACVADADFIQESAPEREALKLELHERISRAAKPDAIIASSTSGLLPTDFY 128
Query: 98 ASVTNRKDKFVGLHFFNPVPMMKLLEVIRTNDTSDATYNAVTEWGKSIGKTTI-VCKDTP 156
A T+ + VG H FNPV ++ L+EV+ T+ +A +++G + V K+ P
Sbjct: 129 ARATHPERCVVG-HPFNPVYLLPLVEVLGGERTAPEAVDAAMGIYRALGMRPLHVRKEVP 187
Query: 157 GF 158
GF
Sbjct: 188 GF 189
>gnl|CDD|237689 PRK14359, glmU, bifunctional N-acetylglucosamine-1-phosphate
uridyltransferase/glucosamine-1-phosphate
acetyltransferase; Provisional.
Length = 430
Score = 28.0 bits (63), Expect = 2.0
Identities = 14/29 (48%), Positives = 21/29 (72%), Gaps = 1/29 (3%)
Query: 40 RIKGSSKVEDSVSQSDLVIE-AIVENMDI 67
RI G SK+E+S ++ VIE +I+EN D+
Sbjct: 273 RILGKSKIENSHIKAHSVIEESIIENSDV 301
>gnl|CDD|233727 TIGR02101, IpaC_SipC, type III secretion target, IpaC/SipC family.
This model represents a family of proteins associated
with bacterial type III secretion systems, which are
injection machines for virulence factors into host cell
cytoplasm. Characterized members of this protein family
are known to be secreted and are described as invasins,
including IpaC from Shigella flexneri and SipC from
Salmonella typhimurium (GB:AAA75170.1). Members may be
referred to as invasins, pathogenicity island effectors,
and cell invasion proteins [Cellular processes,
Pathogenesis].
Length = 317
Score = 27.9 bits (62), Expect = 2.3
Identities = 15/53 (28%), Positives = 25/53 (47%)
Query: 3 AQAGNQEEGEKLIDSTLSRIKGSSKEEGEKLIDLTLSRIKGSSKVEDSVSQSD 55
A QEE E+ I + SR ++ E + T I+ K+ +S++QS
Sbjct: 257 QYAATQEEAEQQISQSSSRTASTASNETREASRKTKQLIQELLKILESINQSK 309
>gnl|CDD|220306 pfam09599, IpaC_SipC, Salmonella-Shigella invasin protein C
(IpaC_SipC). This entry represents a family of proteins
associated with bacterial type III secretion systems,
which are injection machines for virulence factors into
host cell cytoplasm. Characterized members of this
protein family are known to be secreted and are
described as invasins, including IpaC from Shigella
flexneri and SipC from Salmonella typhimurium. Members
may be referred to as invasins, pathogenicity island
effectors, and cell invasion proteins.
Length = 337
Score = 27.2 bits (60), Expect = 3.8
Identities = 15/53 (28%), Positives = 24/53 (45%)
Query: 3 AQAGNQEEGEKLIDSTLSRIKGSSKEEGEKLIDLTLSRIKGSSKVEDSVSQSD 55
A QEE E+ I SR ++ E + T I+ K+ +S++QS
Sbjct: 284 QYAATQEEAEQQISQASSRTASTASNETREASRKTKQLIQELLKILESINQSK 336
>gnl|CDD|218880 pfam06067, DUF932, Domain of unknown function (DUF932). Family of
prokaryotic proteins with unknown function. Contains a
number of highly conserved polar residues that could
suggest an enzymatic activity.
Length = 237
Score = 27.2 bits (61), Expect = 3.9
Identities = 17/100 (17%), Positives = 32/100 (32%), Gaps = 25/100 (25%)
Query: 67 IKHKLFTSVDKIAPASAILASNTSSLSITEIA------SVTNRK-DKFVGLHF------- 112
++H I A+ + + TE ++++ + + F
Sbjct: 106 VRHTGNAVFRVIEAKQALGLAVSYFDRFTEEMEALAARTLSDGEAEAFADAALPLPYDEG 165
Query: 113 ----FNPVPMMKLLEVIRTNDTSD-------ATYNAVTEW 141
P +LL + R +D YNAVTE+
Sbjct: 166 RTRKKAPKTEDQLLRLRRGDDRLAPARGTAWGAYNAVTEY 205
>gnl|CDD|235796 PRK06406, PRK06406, ribonucleotide-diphosphate reductase subunit
alpha; Validated.
Length = 771
Score = 27.5 bits (61), Expect = 4.1
Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 2/56 (3%)
Query: 22 IKGSSKEEGEKLIDLTLSRIKGSSKVEDSVSQSDLVIEAIVENMDIKHKLFTSVDK 77
+K S E+ E+L D + R+K +V Q ++E ++ I K FT V K
Sbjct: 33 VKNGSMEDAEELTDKVVERLK--KYERPTVEQIQDIVEKVLMTKKINGKDFTDVAK 86
>gnl|CDD|241354 cd13200, FERM_C_KCBP, kinesin-like calmodulin binding protein FERM
domain C-lobe. KCBPs (also called KIPK/Kinesin-like
Calmodulin-Binding Protein-Interacting Protein Kinase),
a member of the Kinesin-14 family, is a C-terminal
microtubule motor with three unique domains including a
myosin tail homology region 4 (MyTH4), a talin-like
domain, and a calmodulin-binding domain (CBD). Binding
of the Ca2+-activated calmodulin to KCBP causes the
motor to dissociate from microtubules. The microtubule
binding of KCBP is controlled by the calcium binding
protein KIC containing a single EF-hand motif. KCBPs
are unique to land plants and green algae. The MyTH4
and talin-like domains are not found in other kinesins,
while the CBD domain is also only found in
Strongylocentrotus purpuratus kinesin-C (SpKinC). The
FERM domain has a cloverleaf tripart structure (FERM_N,
FERM_M, FERM_C/N, alpha-, and C-lobe/A-lobe, B-lobe,
C-lobe/F1, F2, F3). The C-lobe/F3 within the FERM domain
is part of the PH domain family. The FERM domain is
found in the cytoskeletal-associated proteins such as
ezrin, moesin, radixin, 4.1R, and merlin. These proteins
provide a link between the membrane and cytoskeleton and
are involved in signal transduction pathways. The FERM
domain is also found in protein tyrosine phosphatases
(PTPs) , the tyrosine kinases FAK and JAK, in addition
to other proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 189
Score = 26.7 bits (59), Expect = 5.6
Identities = 7/10 (70%), Positives = 8/10 (80%)
Query: 109 GLHFFNPVPM 118
G+HFF PVP
Sbjct: 109 GVHFFRPVPK 118
>gnl|CDD|203727 pfam07688, KaiA, KaiA domain. The cyanobacterial clock proteins
KaiA and KaiB are proposed as regulators of the
circadian rhythm in cyanobacteria. The overall fold of
the KaiA monomer is that of a four-helix bundle, which
forms a dimer in the known structure.
Length = 283
Score = 26.8 bits (59), Expect = 5.6
Identities = 10/27 (37%), Positives = 17/27 (62%)
Query: 98 ASVTNRKDKFVGLHFFNPVPMMKLLEV 124
++V D FV + FF VP+ ++LE+
Sbjct: 210 SNVNQSIDNFVNMAFFADVPVSQVLEI 236
>gnl|CDD|235317 PRK04885, ppnK, inorganic polyphosphate/ATP-NAD kinase;
Provisional.
Length = 265
Score = 26.7 bits (60), Expect = 5.9
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 83 AILASNTSSLSITEIASVTNR 103
A+L + +L +TEIAS+ NR
Sbjct: 169 AVLHPSIEALQLTEIASINNR 189
>gnl|CDD|217090 pfam02536, mTERF, mTERF. This family contains one sequence of
known function Human mitochondrial transcription
termination factor (mTERF) the rest of the family
consists of hypothetical proteins none of which have
any functional information. mTERF is a multizipper
protein possessing three putative leucine zippers one
of which is bipartite. The protein binds DNA as a
monomer. The leucine zippers are not implicated in a
dimerisation role as in other leucine zippers.
Length = 345
Score = 26.3 bits (58), Expect = 7.8
Identities = 16/53 (30%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 22 IKGSSKEEGEKLIDLTLSRIKGSSKVEDSVSQSDLVIEAIVENMDIKHKLFTS 74
+G+SK E K++ T+ +I G V+ S D + + IV ++D KL
Sbjct: 42 SRGASKSELTKIVS-TVPKILGKKGVKSISSVYDFLKKIIVADLDKSSKLEKY 93
>gnl|CDD|233676 TIGR01994, SUF_scaf_2, SUF system FeS assembly protein, NifU
family. Three iron-sulfur cluster assembly systems are
known so far. ISC is broadly distributed while NIF tends
to be associated with nitrogenase in nitrogen-fixing
bacteria. The most recently described is SUF, believed
to be important to maintain the function during aerobic
stress of enzymes with labile Fe-S clusters. It is
fairly widely distributed. This family represents one of
two different proteins proposed to act as a scaffold on
which the Fe-S cluster is built and from which it is
transferred [Biosynthesis of cofactors, prosthetic
groups, and carriers, Other].
Length = 137
Score = 25.7 bits (57), Expect = 7.8
Identities = 15/53 (28%), Positives = 20/53 (37%)
Query: 21 RIKGSSKEEGEKLIDLTLSRIKGSSKVEDSVSQSDLVIEAIVENMDIKHKLFT 73
IKG + EE L++ I+G ED D A V + K T
Sbjct: 74 LIKGKTVEEALSLVEAFSEMIQGQETDEDEEKLGDAEALAGVAKFPARIKCAT 126
>gnl|CDD|240416 PTZ00432, PTZ00432, falcilysin; Provisional.
Length = 1119
Score = 26.3 bits (58), Expect = 8.6
Identities = 21/85 (24%), Positives = 30/85 (35%), Gaps = 6/85 (7%)
Query: 12 EKLIDSTLSR-----IKGSSKEE-GEKLIDLTLSRIKGSSKVEDSVSQSDLVIEAIVENM 65
E L D L R I K ++L L L RI + ED ++E E+
Sbjct: 1022 ETLTDKDLLRYKIGKISNIDKPLHVDELSKLALLRIIRNESDEDRQKFRKDILETTKEDF 1081
Query: 66 DIKHKLFTSVDKIAPASAILASNTS 90
L + A++ S TS
Sbjct: 1082 YRLADLMEKSKEWEKVIAVVNSKTS 1106
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
0.310 0.127 0.338
Gapped
Lambda K H
0.267 0.0742 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,473,568
Number of extensions: 649751
Number of successful extensions: 518
Number of sequences better than 10.0: 1
Number of HSP's gapped: 516
Number of HSP's successfully gapped: 49
Length of query: 160
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 71
Effective length of database: 6,990,096
Effective search space: 496296816
Effective search space used: 496296816
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 55 (24.9 bits)