RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7088
(873 letters)
>gnl|CDD|218846 pfam05994, FragX_IP, Cytoplasmic Fragile-X interacting family.
CYFIP1/2 (Cytoplasmic fragile X mental retardation
interacting protein) like proteins for a highly
conserved protein family. The function of CYFIPs is
unclear, but CYFIP interaction with fragile X mental
retardation interacting protein (FMRP) involves the
domain of FMRP which also mediating homo- and
heteromerization.
Length = 815
Score = 822 bits (2126), Expect = 0.0
Identities = 346/678 (51%), Positives = 434/678 (64%), Gaps = 96/678 (14%)
Query: 164 DSLQQCCDLSQLWYREFYLEMTMGRRIQKCVVRHQHNEECSDLITMEKRIQFPIEMSMPW 223
+SL + CDLSQLW+REFYL++ KRIQFPIE S+PW
Sbjct: 221 ESLDKACDLSQLWFREFYLDLN-------------------------KRIQFPIETSLPW 255
Query: 224 ILTDHILKTKEP-SMMEYVLYPLDLYNDSAHYALTVFRKQFLYDEVEAEVNLCFDQFVYK 282
ILTDHIL+T EP S+ E + YPL +YND+A YAL QFLYDE+EAE NLCFDQ VYK
Sbjct: 256 ILTDHILETYEPPSLTEAIFYPLSIYNDAAQYALKKLNSQFLYDEIEAEANLCFDQIVYK 315
Query: 283 LSEQIFAHYKQLAASMLLDKRFRVECMAMGTYLLAYPRANRYETLLRQRHVQLLGRSIDL 342
L++Q+F H K+ A S+LLDKRFR E G +L P ANR+E LL+Q H+QLLGRSIDL
Sbjct: 316 LADQVFTHIKEFATSILLDKRFRAELKESGLNIL-NPPANRFEVLLQQNHLQLLGRSIDL 374
Query: 343 NKLITQRINADMHKSLDLAISKFEHGDITGVVELEGLLAVNRLCHKLLSK-LLGLDDYDA 401
N+LI QR+N + KSLD AIS+FE D+T +VELE L+ + RL HKLLS+ L+ LD +D
Sbjct: 375 NRLIAQRLNELIVKSLDAAISRFEANDLTSIVELERLVDILRLTHKLLSEYLIPLDPFDD 434
Query: 402 MLHEANHNVL--APYGRITLHIFWELNYDFLPNYCYNGATNRITLHIFWELNYDFLPNYC 459
M EANHN +P RI LH+FWELNYDFLPNY YN + NRI
Sbjct: 435 MFREANHNDSPNSPQSRILLHVFWELNYDFLPNYFYNSSPNRIP---------------- 478
Query: 460 YNGATNRFIKCRGIMFTQQIHREKLPPMTHTYSWGSKQLNMAYYSIYGQYTGFVGAYHFR 519
F++++ R+K P + Y GSK LN A+ +I QYT F+G HFR
Sbjct: 479 ---------------FSEELPRDKPPIVQPIYLLGSKALNAAFAAILKQYTNFIGPEHFR 523
Query: 520 AMCRLLGYQGIAVVMEELLKIVTSLIQGSLLQFTKTLMDAMPKQCKLPRYDYGSPGVLGY 579
A+CRLLGY GIAV+ +ELLK L++ ++L F K M MPK +LP DYGS GV Y
Sbjct: 524 ALCRLLGYGGIAVLSQELLK----LLEEAILPFVKIYMSVMPKITRLPPLDYGSHGVYDY 579
Query: 580 YHAQLNDIVQYPDAKTELFHNFRELGNTILFCLLMEQALSQEEVCDLLHAAPFQNILPRP 639
+ L D V YP+ + +LF RELGN I FC L++QAL QE DL+ AAPF NI PR
Sbjct: 580 FEGALKDFVSYPELR-KLFQLMRELGNIIAFCQLLDQALLQETTGDLISAAPFSNIPPRV 638
Query: 640 YCKEGEKPET----KQKRLEQKYASLQIVSNIDRLGTAKQAMIAREGDLLTRERLCCGLS 695
Y KEG + T + K+L++ +A+L+IV + DLLTR RLCCG S
Sbjct: 639 YVKEGPELFTLFDQQFKQLKKYFATLEIVPSD--------------KDLLTRFRLCCGES 684
Query: 696 IFEVVLNRLRGFLDDPIWVGPPPTNGVINIDECTEFHRLWSALQFVYCIPVG-DTEFTVE 754
+FEV+L R+ FL+ W +NGV+++D CTEF RLWSALQFVYCIPV E + E
Sbjct: 685 LFEVILTRIDSFLET--W-----SNGVMDVDSCTEFARLWSALQFVYCIPVVNTNEKSAE 737
Query: 755 ELFGEGLNWAGCTMIVLLGQQRRFEALDFCYHILRVQR----VDGRDENVKGIHLKRMVD 810
ELFGEGL WA C +I LLGQQRRFE L CYHIL+V VD +DE +K + LK+MV+
Sbjct: 738 ELFGEGLIWAACALIHLLGQQRRFEVLSICYHILKVNEADNEVDEKDELIKFLALKKMVE 797
Query: 811 RIRRFQVVNSQIFATLNK 828
RIR+F ++N+QIFA LNK
Sbjct: 798 RIRQFALLNNQIFAILNK 815
>gnl|CDD|215574 PLN03099, PIR, Protein PIR; Provisional.
Length = 1232
Score = 375 bits (963), Expect = e-113
Identities = 227/678 (33%), Positives = 343/678 (50%), Gaps = 83/678 (12%)
Query: 171 DLSQLWYREFYLEMTMGRRIQKCVVRHQHNEECSDLITMEKRIQFPIEMSMPWILTDHIL 230
DL LW+REFYLE + + IQFPIE S+PW+L D+IL
Sbjct: 577 DLGFLWFREFYLETS-------------------------RVIQFPIECSLPWMLVDYIL 611
Query: 231 KTKEPSMMEYVLYPLDLYNDSAHYALTVFRKQFLYDEVEAEVNLCFDQFVYKLSEQIFAH 290
++++ ++E VL P D+YNDSA +AL V +++FLYDE+EAEV+LCFDQ V KLSE IF +
Sbjct: 612 ESQDAGLLESVLLPFDIYNDSAQHALRVLKQRFLYDEIEAEVDLCFDQLVSKLSESIFTY 671
Query: 291 YKQLAASMLLDKRFRVECMAMGTYLLAYPRANRYETLLRQRHVQLLGRSIDLNKLITQRI 350
YK AAS LLD F + + RY+ L + R V++LGR+IDL LI QR+
Sbjct: 672 YKSRAASKLLDPSFLAAVDNGEKF---SVQPKRYDALFKMRRVKILGRTIDLASLIAQRM 728
Query: 351 NADMHKSLDLAISKFEHGDITGVVELEGLLAVNRLCHKLLSKLLGLDDYDAMLHEANHNV 410
N ++LD +FE D+ VVEL+ L+ + RL H+LLS+ L +D + ML E N
Sbjct: 729 NKIFRENLDFLFERFESQDLCSVVELQRLVEILRLTHELLSEHLSIDPFSLMLGEMQEN- 787
Query: 411 LAPYGRITLHIFWELNYDFLPNYCYNGATNRITLHIFWELNYDFLPNYCYNGATNRFIKC 470
I+L F ++R+ I+ E+ DFLPN+ T RF+
Sbjct: 788 ------ISLVSF----------------SSRLASQIWSEMQNDFLPNFILCNTTQRFV-- 823
Query: 471 RGIMFTQ-QIHREKLPPMTHTYSWGSKQLNMAYYSIYGQYTGFVGAYHFRAMCRLLGYQG 529
R Q R +P ++ G++ LNMA+ S ++ F G H A+ +LLG +
Sbjct: 824 RSSKVPQRPTRRPSVPSAKPSFLCGTQDLNMAHQSFAELHSKFFGLPHMFAIVKLLGSRS 883
Query: 530 IAVVMEELLKIVTSLIQGSLLQFTKTLMDAMPKQCKLPRYDYGSPGVLGYYHAQLNDIVQ 589
+ ++ LL ++ I L + L +AMPK LP +D G G + + QL +
Sbjct: 884 LPWLIRALLDHLSQKITT-LEPMIEDLREAMPKAIGLPSFDGGVAGCMKIFREQLQWGTK 942
Query: 590 YPDAKTELFHNFRELGNTILFCLLMEQALSQEEVCDLLHAAPFQNILPRP-----YCKEG 644
Y + K+E+ +E+G+ I + L++ A+ + E + AP+ ++P +
Sbjct: 943 Y-EGKSEVLRGLKEIGSLIFWMSLLDIAMREVETVQFMQVAPWLGLVPGKEGQLQQADDN 1001
Query: 645 EKPETKQKRLEQKYASLQIVSNIDRL-GTAKQAMI--AREGDLLTRERLCCGLSIFEVVL 701
E P K A+ +VS+ L +A +M A DLL + L G S+ E L
Sbjct: 1002 ESPLVSL----FKEATSAVVSSPGCLNPSAFVSMSKQAEVADLLYKSNLNTG-SVLEYTL 1056
Query: 702 NRLRGFLDD--PIWVGPPPTNGVINIDECTEFHRLWSALQFVYCIPVGDTEFTVEELFGE 759
LD W PP T G I+I +F+R++S LQ+VY + E G+
Sbjct: 1057 AFTSAVLDRHRSKWSAPPKT-GFIDITTSKDFYRIYSGLQYVYLEEISAEGSAFHERLGD 1115
Query: 760 GLNWAGCTMIVLLGQQRRFEALDFCYHILRVQRVDG-------RDENVKG--IH--LKRM 808
+ W GCT++ LLGQQ RFE LDF YH+L V V+ R+E +K H +
Sbjct: 1116 SVAWGGCTIVYLLGQQLRFELLDFIYHVLSVSEVESASASHTHRNERLKSPSYHQGWEGF 1175
Query: 809 VDRIRRFQVVNSQIFATL 826
++ R+ + +N+ +F+ L
Sbjct: 1176 LENARKARRLNNHVFSLL 1193
>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 = 168 bits (427), Expect = 2e-46
Identities = 63/163 (38%), Positives = 88/163 (53%), Gaps = 30/163 (18%)
Query: 1 MRNVCDRDSGLTVLGTRYRCPVGIAPSAMQKLAHADGEVATARAAGMMDAIMILSLMSTT 60
+R+V RD+ T+LG + P GIAP+ +Q LAH DGE+ATARAA LS +STT
Sbjct: 46 LRDVSKRDTSTTLLGQKLAMPFGIAPTGLQGLAHPDGELATARAAAAAGIPFTLSTVSTT 105
Query: 61 SLEEVRAQNPSTTLWLQMYIFKDRALSLQMVQRAERSGYSAIVITMDTAVLGSRYHISKF 120
SLEEV A P W Q+Y+ +DR ++ +++RAE +GY A+V+T+DT VLG R
Sbjct: 106 SLEEVAAAAP-GPRWFQLYVPRDREITEDLLRRAEAAGYKALVLTVDTPVLGRR------ 158
Query: 121 RDISAEECSSGLTDYVANQFDDSVDWDDVRSLVQATKLPIVCK 163
+ WDD+ L K P++ K
Sbjct: 159 -----------------------LTWDDLAWLRSQWKGPLILK 178
>gnl|CDD|216281 pfam01070, FMN_dh, FMN-dependent dehydrogenase.
Length = 302
Score = 166 bits (423), Expect = 8e-46
Identities = 69/163 (42%), Positives = 91/163 (55%), Gaps = 26/163 (15%)
Query: 1 MRNVCDRDSGLTVLGTRYRCPVGIAPSAMQKLAHADGEVATARAAGMMDAIMILSLMSTT 60
+R+V DRD T+LG R P GIAP+ MQ LAH DGE+A ARAA +LS +S+T
Sbjct: 40 LRDVSDRDLSTTLLGQRLSLPFGIAPTGMQGLAHPDGELALARAAAAAGIPFVLSTVSST 99
Query: 61 SLEEVRAQNPSTTLWLQMYIFKDRALSLQMVQRAERSGYSAIVITMDTAVLGSRYHISKF 120
SLEEV A LW Q+Y+ KDR L+ +++RAE +GY A+V+T+DT VLG+R
Sbjct: 100 SLEEVAAAAG-GPLWFQLYVPKDRELTEDLLERAEAAGYKALVLTVDTPVLGNRE----- 153
Query: 121 RDISAEECSSGLTDYVANQFDDSVDWDDVRSLVQATKLPIVCK 163
RD+ WDD+ L K P+V K
Sbjct: 154 RDL--------------------RTWDDLAWLRDQWKGPLVVK 176
>gnl|CDD|215294 PLN02535, PLN02535, glycolate oxidase.
Length = 364
Score = 138 bits (349), Expect = 1e-35
Identities = 70/173 (40%), Positives = 101/173 (58%), Gaps = 15/173 (8%)
Query: 8 DSGLTVLGTRYRCPVGIAPSAMQKLAHADGEVATARAAGMMDAIMILSLMSTTSLEEVRA 67
D T+LG P+ IAP+AM KLAH +GE+ATARAA + IM+LS M++ ++EEV A
Sbjct: 61 DMSTTILGYTISAPIMIAPTAMHKLAHPEGEIATARAAAACNTIMVLSFMASCTVEEV-A 119
Query: 68 QNPSTTLWLQMYIFKDRALSLQMVQRAERSGYSAIVITMDTAVLGSRYHISKFRDISAE- 126
+ + +LQ+Y++K R ++ Q+VQRAE++GY AIV+T D LG R K + IS +
Sbjct: 120 SSCNAVRFLQLYVYKRRDIAAQLVQRAEKNGYKAIVLTADVPRLGRREADIKNKMISPQL 179
Query: 127 -------------ECSSGLTDYVANQFDDSVDWDDVRSLVQATKLPIVCKDSL 166
+ SGL + + FD S+ W D+ L T LPI+ K L
Sbjct: 180 KNFEGLLSTEVVSDKGSGLEAFASETFDASLSWKDIEWLRSITNLPILIKGVL 232
>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 = 132 bits (334), Expect = 1e-33
Identities = 62/174 (35%), Positives = 97/174 (55%), Gaps = 11/174 (6%)
Query: 1 MRNVCDRDSGLTVLGTRYRCPVGIAPSAMQKLAHADGEVATARAAGMMDAIMILSLMSTT 60
+R+V D+ T+LG + P I+P+A+ KLAH DGE+ ARAAG + ++S ++
Sbjct: 46 LRDVEKVDTSTTILGHKVSLPFFISPAALAKLAHPDGELNLARAAGKHGILQMISTNASC 105
Query: 61 SLEE-VRAQNPSTTLWLQMYIFKDRALSLQMVQRAERSGYSAIVITMDTAVLGSRYHISK 119
SLEE V A+ P L+ Q+Y+ KDR + ++++RAE+ G AI +T+D VLG R +
Sbjct: 106 SLEEIVDARPPDQPLFFQLYVNKDRTKTEELLKRAEKLGAKAIFLTVDAPVLGKRERDER 165
Query: 120 FRDISAEECSS----------GLTDYVANQFDDSVDWDDVRSLVQATKLPIVCK 163
+ A G ++ D ++ WDD++ L + TKLPIV K
Sbjct: 166 LKAEEAVSDGPAGKKTKAKGGGAGRAMSGFIDPTLTWDDIKWLRKHTKLPIVLK 219
>gnl|CDD|166620 PLN02979, PLN02979, glycolate oxidase.
Length = 366
Score = 132 bits (333), Expect = 2e-33
Identities = 76/181 (41%), Positives = 103/181 (56%), Gaps = 18/181 (9%)
Query: 3 NVCDRDSGLTVLGTRYRCPVGIAPSAMQKLAHADGEVATARAAGMMDAIMILSLMSTTSL 62
+V D TVLG + P+ +AP+AMQK+AH DGE ATARAA IM LS +T+S+
Sbjct: 53 DVSKIDMTTTVLGFKISMPIMVAPTAMQKMAHPDGEYATARAASAAGTIMTLSSWATSSV 112
Query: 63 EEVRAQNPSTTLWLQMYIFKDRALSLQMVQRAERSGYSAIVITMDTAVLGSRYHISKFR- 121
EEV + P + Q+Y++K+R + Q+V+RAER+G+ AI +T+DT LG R K R
Sbjct: 113 EEVASTGPGIR-FFQLYVYKNRNVVEQLVRRAERAGFKAIALTVDTPRLGRRESDIKNRF 171
Query: 122 --------------DISA--EECSSGLTDYVANQFDDSVDWDDVRSLVQATKLPIVCKDS 165
D+ E SGL YVA Q D ++ W DV+ L TKLPI+ K
Sbjct: 172 TLPPNLTLKNFEGLDLGKMDEANDSGLASYVAGQIDRTLSWKDVQWLQTITKLPILVKGV 231
Query: 166 L 166
L
Sbjct: 232 L 232
>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 = 131 bits (331), Expect = 7e-33
Identities = 59/193 (30%), Positives = 88/193 (45%), Gaps = 30/193 (15%)
Query: 1 MRNVCDRDSGLTVLGTRYRCPVGIAPSAMQKLAHADGEVATARAAGMMDAIMILSLMSTT 60
+R V +RD + + G P+ +AP +Q+L H D E+ATARAA + ILS S++
Sbjct: 67 LRGVTERDLSVELFGRTLAAPLLLAPIGVQELFHPDAELATARAAAELGVPYILSTASSS 126
Query: 61 SLEEVRAQNPSTTLWLQMYIFKDRALSLQMVQRAERSGYSAIVITMDTAVLGSRYHISK- 119
S+E+V A W Q+Y KD L+ +++RAE++GY +V+T+DT LG R
Sbjct: 127 SIEDVAAAAGDAPRWFQLYWPKDDDLTESLLRRAEKAGYRVLVVTLDTWSLGWRPRDLDL 186
Query: 120 -------------------FRDISAEECSSGLTDYVANQ----------FDDSVDWDDVR 150
FR AE + S+ W+D+
Sbjct: 187 GYLPFLRGIGIANYFSDPVFRKKLAEPVGEDPEAPPPMEAAVARFVSVFSGPSLTWEDLA 246
Query: 151 SLVQATKLPIVCK 163
L + T LPIV K
Sbjct: 247 FLREWTDLPIVLK 259
>gnl|CDD|166134 PLN02493, PLN02493, probable peroxisomal (S)-2-hydroxy-acid
oxidase.
Length = 367
Score = 124 bits (313), Expect = 7e-31
Identities = 75/176 (42%), Positives = 101/176 (57%), Gaps = 18/176 (10%)
Query: 8 DSGLTVLGTRYRCPVGIAPSAMQKLAHADGEVATARAAGMMDAIMILSLMSTTSLEEVRA 67
D TVLG + P+ +AP+AMQK+AH DGE ATARAA IM LS +T+S+EEV +
Sbjct: 59 DMTTTVLGFKISMPIMVAPTAMQKMAHPDGEYATARAASAAGTIMTLSSWATSSVEEVAS 118
Query: 68 QNPSTTLWLQMYIFKDRALSLQMVQRAERSGYSAIVITMDTAVLGSRYHISKFR------ 121
P + Q+Y++K+R + Q+V+RAER+G+ AI +T+DT LG R K R
Sbjct: 119 TGPGIR-FFQLYVYKNRNVVEQLVRRAERAGFKAIALTVDTPRLGRRESDIKNRFTLPPN 177
Query: 122 ---------DISA--EECSSGLTDYVANQFDDSVDWDDVRSLVQATKLPIVCKDSL 166
D+ E SGL YVA Q D ++ W DV+ L TKLPI+ K L
Sbjct: 178 LTLKNFEGLDLGKMDEANDSGLASYVAGQIDRTLSWKDVQWLQTITKLPILVKGVL 233
>gnl|CDD|224223 COG1304, idi, Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and
related proteins) [Coenzyme transport and metabolism].
Length = 360
Score = 104 bits (261), Expect = 6e-24
Identities = 50/184 (27%), Positives = 75/184 (40%), Gaps = 26/184 (14%)
Query: 1 MRNVCDRDSGLTVLGTRYRCPVGIAPSAMQKLAHADGEVATARAAGMMDAIMILSLMSTT 60
+ V D D T LG + P+ IAP LAH +GEV A+ A ILS + +
Sbjct: 46 LPEVDDIDLSTTFLGQKLSAPIIIAPMTGGGLAHPEGEVINAKLAAAAGEPFILSTVGSQ 105
Query: 61 SLEEVRAQNPSTTLWLQMYIFKDRALSLQMVQRAERSGYSAIVITMDTAVLGSRY----- 115
+EEV A P Q+Y KDR + +V RA +G +V+T+D+ V G R
Sbjct: 106 RIEEVAAAPP-----FQLYFSKDREFAPNLVDRAANAGAKQLVLTVDSPVGGERERDAVN 160
Query: 116 HISKF----------------RDISAEECSSGLTDYVANQFDDSVDWDDVRSLVQATKLP 159
IS D + + +YV+ + +D + + P
Sbjct: 161 GISAPALAIHLNVLQEATQPEGDRDGKGGLDSIAEYVSALSVPVISKEDGAGISKEWAGP 220
Query: 160 IVCK 163
+V K
Sbjct: 221 LVLK 224
>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 = 91.3 bits (227), Expect = 9e-20
Identities = 41/114 (35%), Positives = 65/114 (57%)
Query: 1 MRNVCDRDSGLTVLGTRYRCPVGIAPSAMQKLAHADGEVATARAAGMMDAIMILSLMSTT 60
++ V D+ +LG + + P+ +AP A LAHA GEVATAR + ++ +S S T
Sbjct: 54 LQGVESPDTSTELLGIKLKTPIIMAPIAAHGLAHATGEVATARGMAEVGSLFSISTYSNT 113
Query: 61 SLEEVRAQNPSTTLWLQMYIFKDRALSLQMVQRAERSGYSAIVITMDTAVLGSR 114
SLEE+ + W Q+Y+ KD + ++ RA+ +G AI++T D V G+R
Sbjct: 114 SLEEIAKASNGGPKWFQLYMSKDDGFNRSLLDRAKAAGAKAIILTADATVGGNR 167
>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 = 83.8 bits (207), Expect = 4e-17
Identities = 39/114 (34%), Positives = 59/114 (51%)
Query: 1 MRNVCDRDSGLTVLGTRYRCPVGIAPSAMQKLAHADGEVATARAAGMMDAIMILSLMSTT 60
+++V + + + LG + + P +AP A KLA+ GEVATAR +I S ST
Sbjct: 62 LQDVENPSTEIEFLGHKLKSPFIMAPVAAHKLANEQGEVATARGVSEFGSIYTTSSYSTA 121
Query: 61 SLEEVRAQNPSTTLWLQMYIFKDRALSLQMVQRAERSGYSAIVITMDTAVLGSR 114
L E+ T W Q Y+ KD ++ ++ R + G AIV+T D V G+R
Sbjct: 122 DLPEISEALNGTPHWFQFYMSKDDGINRDIMDRVKADGAKAIVLTADATVGGNR 175
>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 = 79.9 bits (197), Expect = 7e-16
Identities = 39/112 (34%), Positives = 62/112 (55%), Gaps = 2/112 (1%)
Query: 3 NVCDRDSGLTVLGTRYRCPVGIAPSAMQKLAHADGEVATARAAGMMDAIMILSLMSTTSL 62
+V RD ++ G + P+ IAP+ + +G++A ARAA +LS S S+
Sbjct: 48 DVSKRDISASLFGKVWSAPLVIAPTGLNGAFWPNGDLALARAAAKAGIPFVLSTASNMSI 107
Query: 63 EEVRAQNPSTTLWLQMYIFKDRALSLQMVQRAERSGYSAIVITMDTAVLGSR 114
E+V A+ LW Q+Y+ R L+ +V+RA +GY+ +V+T D AV G R
Sbjct: 108 EDV-ARQADGDLWFQLYVVH-RELAELLVKRALAAGYTTLVLTTDVAVNGYR 157
>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 = 7e-15
Identities = 38/102 (37%), Positives = 56/102 (54%), Gaps = 3/102 (2%)
Query: 6 DRDSGLTVLGTRYRCPVGIAPSAMQKLAHADGEVATARAAGMMDAIMILSLMSTTSLEEV 65
R+ TV+G PV I+P+ +Q + H DGEVA ARAA M LS ++ +EEV
Sbjct: 59 KRELSTTVMGQEISFPVLISPTGVQAV-HPDGEVAVARAAAARGTAMGLSSFASKPVEEV 117
Query: 66 RAQNPSTTLWLQMYIFKDRALSLQMVQRAERSGYSAIVITMD 107
A NP T + Q+Y R L ++RA +G +++T+D
Sbjct: 118 VAANPKT--FFQIYWVGSRDDILARLERARAAGAKGLILTLD 157
>gnl|CDD|183033 PRK11197, lldD, L-lactate dehydrogenase; Provisional.
Length = 381
Score = 69.7 bits (171), Expect = 2e-12
Identities = 36/115 (31%), Positives = 58/115 (50%), Gaps = 1/115 (0%)
Query: 1 MRNVCDRDSGLTVLGTRYRCPVGIAPSAMQKLAHADGEVATARAAGMMDAIMILSLMSTT 60
++++ D T+ G + PV +AP + + GEV ARAA LS +S
Sbjct: 52 LKDMSDLSLETTLFGEKLSMPVALAPVGLTGMYARRGEVQAARAADAKGIPFTLSTVSVC 111
Query: 61 SLEEVRAQNPSTTLWLQMYIFKDRALSLQMVQRAERSGYSAIVITMDTAVLGSRY 115
+EEV +W Q+Y+ +DR ++RA+ +G S +V T+D V G+RY
Sbjct: 112 PIEEVAPAI-KRPMWFQLYVLRDRGFMRNALERAKAAGCSTLVFTVDMPVPGARY 165
>gnl|CDD|236408 PRK09200, PRK09200, preprotein translocase subunit SecA; Reviewed.
Length = 790
Score = 33.8 bits (78), Expect = 0.54
Identities = 18/127 (14%), Positives = 55/127 (43%), Gaps = 11/127 (8%)
Query: 186 MGRRIQKCVVRHQHNEECS------DLITMEKRIQFPIEMSMPWILTDHILKTKEPSMME 239
R++ K VV+ Q E + + ++ I I+ + + + +L+ + +++
Sbjct: 572 FNRKVHKIVVKAQRISEGAGYSAREYALELDDVIN--IQRDVVYKERNRLLEEDDRDLID 629
Query: 240 YVLYPLDLYNDSA---HYALTVFRKQFLYDEVEAEVNLCFDQFVYKLSEQIFAHYKQLAA 296
V+ +D+Y ++ + ++++Y+ + ++N + +++ + A
Sbjct: 630 IVILMIDVYLEAVAEEYLLEKSLLEEWIYENLSFQLNEILSNTNFPDKKEVVQFLLEEAE 689
Query: 297 SMLLDKR 303
L +KR
Sbjct: 690 KQLKEKR 696
>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 = 33.5 bits (77), Expect = 0.56
Identities = 31/125 (24%), Positives = 52/125 (41%), Gaps = 16/125 (12%)
Query: 83 DRALSLQ-MVQRAERSGYSAIVITMDTAVLGSR--YHISKFRDISAEECSSGLTDYVANQ 139
D A ++ +V++A+ G A+ +T + G+ Y K I G YVA
Sbjct: 14 DGAAKIKPLVKKAKELGMPALALTDHGNMFGAVEFYKACKKAGIKP---IIGCEAYVAP- 69
Query: 140 FDDSVDWDDVRSLVQATKLPIVCKDS--LQQCCDLSQLWYRE-FYLEMTMGRRIQKCVVR 196
D + +A L ++ K++ + LS L Y E FY RI K ++
Sbjct: 70 -GSRFDKKRISKGKEAYHLILLAKNNTGYRNLMKLSSLAYLEGFYY----KPRIDKELL- 123
Query: 197 HQHNE 201
+H+E
Sbjct: 124 EEHSE 128
>gnl|CDD|235491 PRK05479, PRK05479, ketol-acid reductoisomerase; Provisional.
Length = 330
Score = 32.8 bits (76), Expect = 0.76
Identities = 24/51 (47%), Positives = 27/51 (52%), Gaps = 10/51 (19%)
Query: 7 RDSGLTVLGTRYRCPVGIAP-SAMQKLAHADG-EVAT-ARAAGMMDAIMIL 54
RDSG+ V+ VG+ S K A ADG EV T A AA D IMIL
Sbjct: 37 RDSGVDVV-------VGLREGSKSWKKAEADGFEVLTVAEAAKWADVIMIL 80
>gnl|CDD|132931 cd07020, Clp_protease_NfeD_1, Nodulation formation efficiency D
(NfeD) is a membrane-bound ClpP-class protease.
Nodulation formation efficiency D (NfeD; stomatin operon
partner protein, STOPP; DUF107) is a member of
membrane-anchored ClpP-class proteases. Currently, more
than 300 NfeD homologs have been identified - all of
which are bacterial or archaeal in origin. Majority of
these genomes have been shown to possess operons
containing a homologous NfeD/stomatin gene pair, causing
NfeD to be previously named STOPP (stomatin operon
partner protein). NfeD homologs can be divided into two
groups: long and short forms. Long-form homologs have a
putative ClpP-class serine protease domain while the
short form homologs do not. Downstream from the
ClpP-class domain is the so-called NfeD or DUF107
domain. N-terminal region of the NfeD homolog PH1510
(1510-N or PH1510-N) from Pyrococcus horikoshii has been
shown to possess serine protease activity and has a
Ser-Lys catalytic dyad, preferentially cleaving
hydrophobic substrates. Difference in oligomeric form
and catalytic residues between 1510-N (forming a dimer)
and ClpP (forming a tetradecamer) shows a possible
functional difference: 1510-N is likely to have a
regulatory function while ClpP is involved in protein
quality control.
Length = 187
Score = 31.8 bits (73), Expect = 0.96
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 91 VQRAERSGYSAIVITMDT 108
+ +AE G A++I +DT
Sbjct: 22 IDQAEEGGADALIIELDT 39
>gnl|CDD|235840 PRK06599, PRK06599, DNA topoisomerase I; Validated.
Length = 675
Score = 32.5 bits (75), Expect = 1.1
Identities = 11/24 (45%), Positives = 12/24 (50%)
Query: 825 TLNKYLGSSDADAASVEHVRCFPP 848
T+ KYLG AS HVR P
Sbjct: 16 TIKKYLGKDYKVLASFGHVRDLPK 39
>gnl|CDD|238889 cd01908, YafJ, Glutamine amidotransferases class-II
(Gn-AT)_YafJ-type. YafJ is a glutamine
amidotransferase-like protein of unknown function found
in prokaryotes, eukaryotes and archaea. YafJ has a
conserved structural fold similar to those of other
class II glutamine amidotransferases including
lucosamine-fructose 6-phosphate synthase (GLMS or GFAT),
glutamine phosphoribosylpyrophosphate (Prpp)
amidotransferase (GPATase), asparagine synthetase B
(AsnB), beta lactam synthetase (beta-LS) and glutamate
synthase (GltS). The YafJ fold is also somwhat similar
to the Ntn (N-terminal nucleophile) hydrolase fold of
the proteasomal alpha and beta subunits.
Length = 257
Score = 31.6 bits (72), Expect = 1.6
Identities = 11/18 (61%), Positives = 13/18 (72%)
Query: 521 MCRLLGYQGIAVVMEELL 538
MCRLLGY G + +E LL
Sbjct: 1 MCRLLGYSGAPIPLEPLL 18
>gnl|CDD|220761 pfam10451, Stn1, Telomere regulation protein Stn1. The budding
yeast protein Stn1 is a DNA-binding protein which has
specificity for telomeric DNA. Structural profiling has
predicted an OB-fold. This domain is the N-terminal part
of the molecule, which adopts the OB fold. Protection of
telomeres by multiple proteins with OB-fold domains is
conserved in eukaryotic evolution.
Length = 249
Score = 31.3 bits (71), Expect = 1.9
Identities = 18/91 (19%), Positives = 33/91 (36%), Gaps = 9/91 (9%)
Query: 186 MGRRIQKCVVRHQHNEECSDLIT----MEKRIQFPIEMSMPWILTDHILK---TKEPSMM 238
+ + +V + E L + K + + +++ PW L D IL T E
Sbjct: 129 INLSEVELIV--EFLELVRGLNSEIDHWRKTMLYRKQLTKPWELDDEILNELYTGEQEWT 186
Query: 239 EYVLYPLDLYNDSAHYALTVFRKQFLYDEVE 269
P YN A + + + D++E
Sbjct: 187 PEARTPKSSYNCPADFIEQLQKCIRQKDKLE 217
>gnl|CDD|223212 COG0134, TrpC, Indole-3-glycerol phosphate synthase [Amino acid
transport and metabolism].
Length = 254
Score = 29.5 bits (67), Expect = 6.1
Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 4/37 (10%)
Query: 128 CSSGLTDYVANQFDDSVDWDDVRSLVQATKLPIVCKD 164
S LTD F S + D+R++ A LP++ KD
Sbjct: 82 AISVLTD--PKYFQGSFE--DLRAVRAAVDLPVLRKD 114
>gnl|CDD|233649 TIGR01945, rnfC, electron transport complex, RnfABCDGE type, C
subunit. The six subunit complex RnfABCDGE in
Rhodobacter capsulatus encodes an apparent NADH
oxidoreductase responsible for electron transport to
nitrogenase, necessary for nitrogen fixation. A closely
related complex in E. coli, RsxABCDGE (Reducer of SoxR),
reduces the 2Fe-2S-containing superoxide sensor SoxR,
active as a transcription factor when oxidized. This
family of putative NADH oxidoreductase complexes exists
in many of the same species as the related NQR, a
Na(+)-translocating NADH-quinone reductase, but is
distinct. This model describes the C subunit [Energy
metabolism, Electron transport].
Length = 435
Score = 29.6 bits (67), Expect = 8.3
Identities = 12/32 (37%), Positives = 16/32 (50%), Gaps = 1/32 (3%)
Query: 20 CPVGIAPSAMQKLAHADGEVATARAAGMMDAI 51
CP+ + P + LA AD E A +MD I
Sbjct: 375 CPMNLLPQQLNWLALAD-EFDEAEEHNLMDCI 405
>gnl|CDD|238639 cd01314, D-HYD, D-hydantoinases (D-HYD) also called
dihydropyrimidases (DHPase) and related proteins;
DHPases are a family of enzymes that catalyze the
reversible hydrolytic ring opening of the amide bond in
five- or six-membered cyclic diamides, like
dihydropyrimidine or hydantoin. The hydrolysis of
dihydropyrimidines is the second step of reductive
catabolism of pyrimidines in human. The hydrolysis of
5-substituted hydantoins in microorganisms leads to
enantiomerically pure N-carbamyl amino acids, which are
used for the production of antibiotics, peptide
hormones, pyrethroids, and pesticides. HYDs are
classified depending on their stereoselectivity. This
family also includes collapsin response regulators
(CRMPs), cytosolic proteins involved in neuronal
differentiation and axonal guidance which have strong
homology to DHPases, but lack most of the active site
residues.
Length = 447
Score = 29.5 bits (67), Expect = 8.3
Identities = 10/31 (32%), Positives = 17/31 (54%), Gaps = 4/31 (12%)
Query: 40 ATARA---AGMMDA-IMILSLMSTTSLEEVR 66
ATARA A + A + I+ + S + +E+
Sbjct: 218 ATARAIRLAELAGAPLYIVHVSSKEAADEIA 248
>gnl|CDD|235392 PRK05291, trmE, tRNA modification GTPase TrmE; Reviewed.
Length = 449
Score = 29.7 bits (68), Expect = 8.5
Identities = 19/80 (23%), Positives = 33/80 (41%), Gaps = 22/80 (27%)
Query: 327 LLRQRHVQLLGRSIDLNKLITQRINADMHKSLDLAISKFEHGDITGVVELEGLLAVN-RL 385
L RH++ L R+++ L+ A+ E G + LE LLA + RL
Sbjct: 382 LTNARHLEALERALE---------------HLERALEGLESG-----LPLE-LLAEDLRL 420
Query: 386 CHKLLSKLLGLDDYDAMLHE 405
+ L ++ G + +L
Sbjct: 421 ALEALGEITGEVTSEDLLDR 440
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
0.325 0.138 0.427
Gapped
Lambda K H
0.267 0.0736 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 44,851,795
Number of extensions: 4477873
Number of successful extensions: 4504
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4465
Number of HSP's successfully gapped: 35
Length of query: 873
Length of database: 10,937,602
Length adjustment: 105
Effective length of query: 768
Effective length of database: 6,280,432
Effective search space: 4823371776
Effective search space used: 4823371776
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: 40 (21.6 bits)
S2: 63 (28.0 bits)