RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254781044|ref|YP_003065457.1| succinate dehydrogenase
iron-sulfur subunit [Candidatus Liberibacter asiaticus str. psy62]
(259 letters)
>gnl|CDD|180322 PRK05950, sdhB, succinate dehydrogenase iron-sulfur subunit;
Reviewed.
Length = 232
Score = 451 bits (1164), Expect = e-128
Identities = 152/232 (65%), Positives = 189/232 (81%), Gaps = 1/232 (0%)
Query: 29 EYRIYRWNPDNKGNPCMDTYYVDLDNCGPMVLDGLLYIKNKIDPTLTLRRSCREGICGSC 88
++IYR+NPD NP M TY VD+D CGPMVLD L+ IKN+IDPTLT RRSCREG+CGS
Sbjct: 1 TFKIYRYNPDVDANPRMQTYEVDVDECGPMVLDALIKIKNEIDPTLTFRRSCREGVCGSD 60
Query: 89 GMNIDGTNTLACVKDMKDIK-GAIAVYPLPHMSVIKDLVVDMSHFYSQHRSIEPWLKTVS 147
MNI+G N LAC+ + D+K G I + PLP + VIKDLVVDM+ FY+Q+RSI+P+L +
Sbjct: 61 AMNINGKNGLACITPISDLKKGKIVIRPLPGLPVIKDLVVDMTQFYAQYRSIKPYLINDT 120
Query: 148 PKPAKELLQSHEDRQKIDGLYECVMCACCSTSCPSYWWNSDRYLGPAILLQAYRWLIDSR 207
P PA+E LQS EDR+K+DGLYEC++CACCSTSCPS+WWN D++LGPA LLQAYR++ DSR
Sbjct: 121 PPPARERLQSPEDREKLDGLYECILCACCSTSCPSFWWNPDKFLGPAALLQAYRFIADSR 180
Query: 208 DEFQGERLDNLEDPFRLYRCHTIMNCTQSCPKGLNPAKAIAKIKMMLLDRKI 259
DE GERLD L+DPF ++RCHTIMNC + CPKGLNP KAI +IK MLL+R++
Sbjct: 181 DEATGERLDILDDPFGVFRCHTIMNCVEVCPKGLNPTKAIGEIKRMLLERRV 232
>gnl|CDD|177740 PLN00129, PLN00129, succinate dehydrogenase [ubiquinone]
iron-sulfur subunit.
Length = 276
Score = 411 bits (1058), Expect = e-115
Identities = 157/236 (66%), Positives = 189/236 (80%), Gaps = 3/236 (1%)
Query: 25 KNLKEYRIYRWNPDNKGNPCMDTYYVDLDNCGPMVLDGLLYIKNKIDPTLTLRRSCREGI 84
NLKE++IYRWNPDN G P + +Y VDL++CGPMVLD L+ IKN+ DP+LT RRSCREGI
Sbjct: 41 SNLKEFQIYRWNPDNPGKPHLQSYKVDLNDCGPMVLDVLIKIKNEQDPSLTFRRSCREGI 100
Query: 85 CGSCGMNIDGTNTLACVKDM-KDIKGAIAVYPLPHMSVIKDLVVDMSHFYSQHRSIEPWL 143
CGSC MNIDG NTLAC+ + +D G + PLPHM VIKDLVVDM++FY Q++SIEPWL
Sbjct: 101 CGSCAMNIDGKNTLACLTKIDRDESGPTTITPLPHMFVIKDLVVDMTNFYQQYKSIEPWL 160
Query: 144 KTVSPKPA--KELLQSHEDRQKIDGLYECVMCACCSTSCPSYWWNSDRYLGPAILLQAYR 201
KT P KE LQS EDR K+DG+YEC++CACCSTSCPSYWWN +++LGPA LL AYR
Sbjct: 161 KTKKPPEDGQKEHLQSKEDRAKLDGMYECILCACCSTSCPSYWWNPEKFLGPAALLHAYR 220
Query: 202 WLIDSRDEFQGERLDNLEDPFRLYRCHTIMNCTQSCPKGLNPAKAIAKIKMMLLDR 257
W+ DSRDE+ ERL+ L+D F+LYRCHTI NC+ +CPKGLNPAKAIAKIK +L
Sbjct: 221 WISDSRDEYTKERLEALDDEFKLYRCHTIRNCSNACPKGLNPAKAIAKIKQLLGLG 276
>gnl|CDD|171592 PRK12575, PRK12575, succinate dehydrogenase iron-sulfur subunit;
Provisional.
Length = 235
Score = 283 bits (726), Expect = 2e-77
Identities = 120/228 (52%), Positives = 167/228 (73%), Gaps = 1/228 (0%)
Query: 32 IYRWNPDNKGNPCMDTYYVDLDNCGPMVLDGLLYIKNKIDPTLTLRRSCREGICGSCGMN 91
IYR++PD+ P M Y + M+LD L +K + D TL+ RRSCREGICGS MN
Sbjct: 9 IYRYDPDDDAAPRMQRYEIAPRAEDRMLLDVLGRVKAQ-DETLSYRRSCREGICGSDAMN 67
Query: 92 IDGTNTLACVKDMKDIKGAIAVYPLPHMSVIKDLVVDMSHFYSQHRSIEPWLKTVSPKPA 151
I+G N LAC+ +M+ + I + PLP + V++DL+VDM+ F++Q+ SI P+L + P
Sbjct: 68 INGRNGLACLTNMQALPREIVLRPLPGLPVVRDLIVDMTDFFNQYHSIRPYLINDTVPPE 127
Query: 152 KELLQSHEDRQKIDGLYECVMCACCSTSCPSYWWNSDRYLGPAILLQAYRWLIDSRDEFQ 211
+E LQ+ ++R+++DGLYEC++CACCST+CPSYWWN D+++GPA LLQAYR++ DSRD+
Sbjct: 128 RERLQTPQEREQLDGLYECILCACCSTACPSYWWNPDKFVGPAGLLQAYRFIADSRDDAT 187
Query: 212 GERLDNLEDPFRLYRCHTIMNCTQSCPKGLNPAKAIAKIKMMLLDRKI 259
RLD+LEDP+RL+RC TIMNC CPKGLNPA+AI +I+ ML R +
Sbjct: 188 AARLDDLEDPYRLFRCRTIMNCVDVCPKGLNPARAIGQIRTMLARRAV 235
>gnl|CDD|161850 TIGR00384, dhsB, succinate dehydrogenase and fumarate reductase
iron-sulfur protein. Succinate dehydrogenase and
fumarate reductase are reverse directions of the same
enzymatic interconversion, succinate + FAD+ = fumarate +
FADH2 (EC 1.3.11.1). In E. coli, the forward and reverse
reactions are catalyzed by distinct complexes: fumarate
reductase operates under anaerobic conditions and
succinate dehydrogenase operates under aerobic
conditions. This model also describes a region of the B
subunit of a cytosolic archaeal fumarate reductase.
Length = 220
Score = 273 bits (700), Expect = 3e-74
Identities = 109/222 (49%), Positives = 151/222 (68%), Gaps = 4/222 (1%)
Query: 32 IYRWNPDNKGNPCMDTYYVDLDNCGPMVLDGLLYIKNKIDPTLTLRRSCREGICGSCGMN 91
+ R+NPD P + +Y V D VLD L YIK++ DP+L RRSCR GICGSC MN
Sbjct: 1 VLRFNPDVDEKPHLQSYEVPADEG-MTVLDALNYIKDEQDPSLAFRRSCRNGICGSCAMN 59
Query: 92 IDGTNTLACVKDMKDIKG-AIAVYPLPHMSVIKDLVVDMSHFYSQHRSIEPWLKTVS-PK 149
++G LAC ++D+ + + PLP++ VIKDLVVDM FY++ +I+P+L S P+
Sbjct: 60 VNGKPVLACKTKVEDLGQPVMKIEPLPNLPVIKDLVVDMGPFYAKLEAIKPYLIRKSQPE 119
Query: 150 PAKELLQSHEDRQKIDGLYECVMCACCSTSCPSYWWNSDRYLGPAILLQAYRWLIDSRDE 209
P E LQ+ E R+K+D L C++C CC +SCP++WWN + +LGPA L AYR+LIDSRD
Sbjct: 120 PEGEFLQTPEQREKLDQLSGCILCGCCYSSCPAFWWNPE-FLGPAALTAAYRFLIDSRDH 178
Query: 210 FQGERLDNLEDPFRLYRCHTIMNCTQSCPKGLNPAKAIAKIK 251
+RL+ L D ++RC T MNC++ CPKG+NPA+AI K+K
Sbjct: 179 ATKDRLEGLNDKNGVWRCTTCMNCSEVCPKGVNPARAIEKLK 220
>gnl|CDD|183604 PRK12576, PRK12576, succinate dehydrogenase iron-sulfur subunit;
Provisional.
Length = 279
Score = 165 bits (420), Expect = 9e-42
Identities = 73/228 (32%), Positives = 115/228 (50%), Gaps = 12/228 (5%)
Query: 30 YRIYRWNPDNKGNPCMDTYYVDLDNCGPMVLDGLLYIKNKIDPTLTLRRSCREGICGSCG 89
+++ R++P+ Y V +D V + L IK + DPTL+ R SC +CGSCG
Sbjct: 11 FKVKRYDPEKGS--WWQEYKVKVDR-FTQVTEALRRIKEEQDPTLSYRASCHMAVCGSCG 67
Query: 90 MNIDGTNTLAC---VKDM-KDIKGAIAVYPLPHMSVIKDLVVDMSHFYSQHRSIEPWL-- 143
M I+G LAC V D+ K I + P+ + V+KDL+VD FY + ++P L
Sbjct: 68 MKINGEPRLACKTLVLDVAKKYNSVITIEPMDYFKVVKDLIVDFDEFYERMFKVKPRLYR 127
Query: 144 KTVSPKPAKELLQSHEDRQKIDGLYECVMCACCSTSCPSYWWNSDRYLGPAILLQAYRWL 203
+ E ED++++ +C+ C C ++CP + + +LGPA + YR+L
Sbjct: 128 AKEVLEGKAEHRLKPEDQKELWKFAQCIWCGLCVSACPVVAIDPE-FLGPAAHAKGYRFL 186
Query: 204 IDSRDEFQGERLDNLEDPFRLYRCHTIMNCTQSCPKGLNPAKAIAKIK 251
D RD ER+ L D +RC +C+ CP+ + P AI K +
Sbjct: 187 ADPRDTITEERMKILIDS--SWRCTYCYSCSNVCPRDIEPVTAIKKTR 232
>gnl|CDD|183605 PRK12577, PRK12577, succinate dehydrogenase iron-sulfur subunit;
Provisional.
Length = 329
Score = 162 bits (412), Expect = 9e-41
Identities = 80/243 (32%), Positives = 129/243 (53%), Gaps = 17/243 (6%)
Query: 29 EYRIYRWNPDNKGNPCMDTYYVDLDNCGPMVLDGLLYIKNKIDPTLTLRRSCREGICGSC 88
++I R ++ P + TY ++++ G +LD L IK + D +L R++CR ICGSC
Sbjct: 4 LFKILRQKQNS--APYVQTYTLEVEP-GNTILDCLNRIKWEQDGSLAFRKNCRNTICGSC 60
Query: 89 GMNIDGTNTLACVKDMK-----------DIKGAIAVYPLPHMSVIKDLVVDMSHFYSQHR 137
M I+G + LAC +++ I + PL +M VIKDLVVDMS F+
Sbjct: 61 AMRINGRSALACKENVGSELARLSDSNSGAIPEITIAPLGNMPVIKDLVVDMSSFWQNLE 120
Query: 138 SIEPWLKTVSPK-PAKELLQSHEDRQKIDGLYECVMCACCSTSCPSYWWNSDRYLGPAIL 196
+++P++ T + + P +E LQ+ E+R K+D C++C C + C + N + ++GP L
Sbjct: 121 AVDPYVSTAARQVPEREFLQTPEERSKLDQTGNCILCGACYSECNAREVNPE-FVGPHAL 179
Query: 197 LQAYRWLIDSRDEFQGERLDNL-EDPFRLYRCHTIMNCTQSCPKGLNPAKAIAKIKMMLL 255
+A R + DSRD +RL+ + ++ C C CP + P I KIK +L
Sbjct: 180 AKAQRMVADSRDTATEQRLELYNQGTAGVWGCTRCYYCNSVCPMEVAPLDQITKIKQEIL 239
Query: 256 DRK 258
RK
Sbjct: 240 ARK 242
>gnl|CDD|183490 PRK12385, PRK12385, fumarate reductase iron-sulfur subunit;
Provisional.
Length = 244
Score = 149 bits (377), Expect = 9e-37
Identities = 75/221 (33%), Positives = 116/221 (52%), Gaps = 3/221 (1%)
Query: 32 IYRWNPDNKGNPCMDTYYVDLDNCGPMVLDGLLYIKNKIDPTLTLRRSCREGICGSCGMN 91
+ R+NP+ P TY V D +LD L YIK+ + P L+ R SCR ICGSCGM
Sbjct: 11 VLRYNPEVDTEPHSQTYEVPYDE-TTSLLDALGYIKDNLAPDLSYRWSCRMAICGSCGMM 69
Query: 92 IDGTNTLACVKDMKDIKGAIAVYPLPHMSVIKDLVVDMSHFYSQHRSIEPWLKTVSPKPA 151
++ LAC ++D G + V L + + +DLVVDM+HF +I+P++ P
Sbjct: 70 VNNVPKLACKTFLRDYTGGMKVEALANFPIERDLVVDMTHFIESLEAIKPYIIGNDRTPD 129
Query: 152 K-ELLQSHEDRQKIDGLYECVMCACCSTSCPSYWWNSDRYLGPAILLQAYRWLIDSRDEF 210
Q+ K C+ C C +CP + N + ++GPA + A+R+ +DSRD
Sbjct: 130 DGPNKQTPAQMAKYHQFSGCINCGLCYAACPQFGLNPE-FIGPAAITLAHRYNLDSRDHG 188
Query: 211 QGERLDNLEDPFRLYRCHTIMNCTQSCPKGLNPAKAIAKIK 251
+ ER+ L ++ C + C++ CPK ++PA AI + K
Sbjct: 189 KKERMKQLNGQNGVWSCTFVGYCSEVCPKHVDPAAAIQQGK 229
>gnl|CDD|180493 PRK06259, PRK06259, succinate dehydrogenase/fumarate reductase
iron-sulfur subunit; Provisional.
Length = 486
Score = 128 bits (324), Expect = 1e-30
Identities = 77/226 (34%), Positives = 114/226 (50%), Gaps = 21/226 (9%)
Query: 31 RIYRWNPDNKGNPCMDTYYVDLDNCGPMVLDGLLYIKNKIDPTLTLRRSCREGICGSCGM 90
+ R++P+ K P ++Y V + G VLD L YI D + R SCR G CGSC +
Sbjct: 7 TVKRFDPE-KDEPHFESYEVPVKE-GMTVLDALEYINKTYDANIAFRSSCRAGQCGSCAV 64
Query: 91 NIDGTNTLACVKDMKDIKGAIAVYPLPHMSVIKDLVVDMSHFYSQHRSIEPWLKTVSPKP 150
I+G LAC +++D G I + PL VIKDL+VD +Y + +S+ +L+ + K
Sbjct: 65 TINGEPVLACKTEVED--GMI-IEPL-DFPVIKDLIVDREPYYKKLKSLRNYLQRKNEKI 120
Query: 151 AKELLQSHEDRQKIDGLYECVMCACCSTSCPSYWWNSDRYLGPAILLQAYRWLIDSRDEF 210
ED + I L C+ C C ++CP+ Y GP + Q R+ D RDE
Sbjct: 121 TYP-----EDIEDIKKLRGCIECLSCVSTCPAR--KVSDYPGPTFMRQLARFAFDPRDEG 173
Query: 211 QGERLDNLEDPFR--LYRCHTIMNCTQSCPKGLN-PAKAIAKIKMM 253
D ++ F LY C T C + CPK ++ P KAI K++ +
Sbjct: 174 -----DREKEAFDEGLYNCTTCGKCVEVCPKEIDIPGKAIEKLRAL 214
>gnl|CDD|184136 PRK13552, frdB, fumarate reductase iron-sulfur subunit;
Provisional.
Length = 239
Score = 107 bits (269), Expect = 3e-24
Identities = 74/240 (30%), Positives = 116/240 (48%), Gaps = 24/240 (10%)
Query: 29 EYRIYRWNPDNKGN-PCMDTYYVDLDNCGPMVLDGLLYIKNKIDPTLTLRRSCREGICGS 87
+ I+R+NP + G+ P M TY ++ + G + L I+ + DP+L CR GICGS
Sbjct: 6 TFNIFRYNPQDPGSKPHMVTYQLE-ETPGMTLFIALNRIREEQDPSLQFDFVCRAGICGS 64
Query: 88 CGMNIDGTNTLAC---VKDMKDIKGAIAVYPLPHMSVIKDLVVDMSHFYSQ-HRSIEPWL 143
C M I+G TLAC D D G I + PLP +I DL V+ ++ + +E W+
Sbjct: 65 CAMVINGRPTLACRTLTSDYPD--GVITLMPLPVFKLIGDLSVNTGKWFREMSERVESWI 122
Query: 144 KT-VSPKPAK-ELLQSHEDRQKIDGLYECVMCACCSTSCPSYWWNSDRYLGPAILLQAYR 201
T + E E+ +I L C+ C CC +C + D ++G L + R
Sbjct: 123 HTDKEFDIHRLEERMEPEEADEIYELDRCIECGCCVAACGTKQMRED-FVGAVGLNRIAR 181
Query: 202 WLIDSRDEFQGERLDNLEDPFRL-------YRCHTIMNCTQSCPKGLNPAKAIAKIKMML 254
+ +D RD ER D ED + L + C +++ C +CPK L + IA ++ +
Sbjct: 182 FELDPRD----ERTD--EDFYELIGNDDGVFGCMSLLGCEDNCPKDLPLQQQIAYLRRKM 235
>gnl|CDD|181515 PRK08640, sdhB, succinate dehydrogenase iron-sulfur subunit;
Reviewed.
Length = 249
Score = 77.3 bits (191), Expect = 3e-15
Identities = 51/177 (28%), Positives = 80/177 (45%), Gaps = 11/177 (6%)
Query: 80 CREGICGSCGMNIDGTNTLACVKDMKDIKGAIAVYPLPHMSVIKDLVVDMSHFYSQHRSI 139
C E +CG+C M I+G AC + ++ I + P+ V++DL VD S + + +
Sbjct: 63 CLEEVCGACSMVINGKPRQACTALIDQLEQPIRLEPMSTFPVVRDLQVDRSRMFDNLKRV 122
Query: 140 EPWLKT-----VSPKPAKELLQSHEDRQKIDGLYECVMCACCSTSCPSYWWNSDRYLGPA 194
+ W+ + P P E RQ L +C+ C CC +CP+ SD ++GPA
Sbjct: 123 KAWIPIDGTYDLGPGPR----MPEEKRQWAYELSKCMTCGCCLEACPNVNEKSD-FIGPA 177
Query: 195 ILLQAYRWLIDSRDEFQ-GERLDNLEDPFRLYRCHTIMNCTQSCPKGLNPAKAIAKI 250
+ Q + E ERL L + C NC + CPKG+ +IA +
Sbjct: 178 AISQVRLFNAHPTGEMHKEERLRALMGDGGIADCGNAQNCVRVCPKGIPLTTSIAAM 234
>gnl|CDD|183491 PRK12386, PRK12386, fumarate reductase iron-sulfur subunit;
Provisional.
Length = 251
Score = 75.5 bits (186), Expect = 1e-14
Identities = 63/234 (26%), Positives = 103/234 (44%), Gaps = 19/234 (8%)
Query: 35 WNPDNKGNPCMDTYYVDLDNCGPMVLDGLLYIKNKIDPTLTLRRSCREGICGSCGMNIDG 94
W D G D Y V++ N G +VLD + ++ P L +R +C+ G CGSC I+G
Sbjct: 10 WRGDASGGELQD-YTVEV-NEGEVVLDVIHRLQATQAPDLAVRWNCKAGKCGSCSAEING 67
Query: 95 TNTLACVKDMKDIKGA--IAVYPLPHMSVIKDLVVDMSHFYSQHRSIEPWLKTVSPKPAK 152
L C+ M + V P+ VI+DLV D+S Y + R I + +P +
Sbjct: 68 RPRLMCMTRMSTFDEDETVTVTPMRTFPVIRDLVTDVSFNYEKAREIPSFTPPKDLQPGE 127
Query: 153 ELLQSHEDRQKIDGLYECVMCACCSTSC---PSYWWNSDRYLGPAILLQAYRWL----ID 205
+Q D ++ +C+ C C C + N + GP L++ L +D
Sbjct: 128 YRMQ-QVDVERSQEFRKCIECFLCQNVCHVVRDHEENKPAFAGPRFLMR-IAELEMHPLD 185
Query: 206 SRDEFQGERLDNLEDPFRLYRCHTIMNCTQSCPKGLNPA-KAIAKIKMMLLDRK 258
+ D R ++ L C+ CT+ CP+ + A+ +K ++DRK
Sbjct: 186 TAD-----RRAEAQEEHGLGYCNITKCCTEVCPEHIKITDNALIPMKERVVDRK 234
>gnl|CDD|181038 PRK07570, PRK07570, succinate dehydrogenase/fumarate reductase
iron-sulfur subunit; Validated.
Length = 250
Score = 54.1 bits (131), Expect = 3e-08
Identities = 39/119 (32%), Positives = 49/119 (41%), Gaps = 23/119 (19%)
Query: 80 CREGICGSCGMNIDG------TNTLACVKDMKDIK-GA-IAVYP-----LPHMSVIKDLV 126
CREGICG CG+ I+G T C M+ K G I + P P VIKDLV
Sbjct: 58 CREGICGMCGLVINGRPHGPDRGTTTCQLHMRSFKDGDTITIEPWRAAAFP---VIKDLV 114
Query: 127 VDMSHFYSQHRSIE----PWLKTVSPKPAKELLQSHEDRQKIDGLYECVMCACCSTSCP 181
VD S R I+ + T A + ED + C+ C C +CP
Sbjct: 115 VDRSAL---DRIIQAGGYVSVNTGGAPDANAIPVPKEDADRAFDAAACIGCGACVAACP 170
>gnl|CDD|132333 TIGR03290, CoB_CoM_SS_C, CoB--CoM heterodisulfide reductase,
subunit C. The last step in methanogenesis leaves two
coenzymes of methanogenesis, CoM and CoB, linked by a
disulfide bond. Members of this protein family are the C
subunit of the enzyme that reduces the heterodisulfide
to CoB-SH and CoM-SH. Similar enzyme complex subunits
are found in various other species, but likely act on a
different substrate.
Length = 144
Score = 33.6 bits (77), Expect = 0.057
Identities = 20/78 (25%), Positives = 30/78 (38%), Gaps = 13/78 (16%)
Query: 170 CVMCACCSTSCPSYWWNSDRYLGPAILLQAYRWLIDSRDEFQGERLDNLEDPFRLYRCHT 229
C C C+ SCPS G +YR + R G + + + D L+ C T
Sbjct: 4 CYQCGTCTGSCPS---------GR---RTSYRTRLIIRKALLGLKDEVISDD-DLWMCTT 50
Query: 230 IMNCTQSCPKGLNPAKAI 247
C + CP+ + I
Sbjct: 51 CYTCQERCPRDVKITDII 68
>gnl|CDD|129414 TIGR00314, cdhA, CO dehydrogenase/acetyl-CoA synthase complex,
epsilon subunit. Acetyl-CoA decarbonylase/synthase
(ACDS) is a multienzyme complex. Carbon monoxide
dehydrogenase is a synonym. The ACDS complex carries out
an unusual reaction involving the reversible cleavage
and synthesis of acetyl-CoA in methanogens. The model
contains the prosite signature for 4Fe-4S ferredoxins
[C-x(2)-C-x(2)-C-x(3)-C-[PEG]] between residues 448-462
of the model.
Length = 784
Score = 32.1 bits (73), Expect = 0.16
Identities = 23/106 (21%), Positives = 43/106 (40%), Gaps = 31/106 (29%)
Query: 146 VSPKPAKELLQSHEDRQK--------IDGLYECVMCACCSTSCPSYWWNSDRYLGPAILL 197
V+ + A+ + + D +K ++ +C C C +CP NS R + A+
Sbjct: 369 VAVEVAEAIAKKRGDERKFLPDDEELMELANKCTQCGNCVRTCP----NSLR-VDEAMAH 423
Query: 198 QAYRWLIDSRDEFQGER--LDNLEDPFRLYRCHTIMNCTQSCPKGL 241
+G+ L+ LE+ +C+ C Q+CPK +
Sbjct: 424 AQ-----------KGDLSKLEQLEE-----QCYACGRCEQACPKNI 453
>gnl|CDD|181680 PRK09182, PRK09182, DNA polymerase III subunit epsilon; Validated.
Length = 294
Score = 31.1 bits (71), Expect = 0.29
Identities = 17/41 (41%), Positives = 23/41 (56%), Gaps = 4/41 (9%)
Query: 6 LPKRSRVKRGKIW--NAPTGEKN-LKEYRIYRWNPDNKGNP 43
L + SR R +IW N+P K+ LK R YRW+ + G P
Sbjct: 209 LLEASRRSRVRIWAENSPFEMKDHLKA-RGYRWSDGSDGRP 248
>gnl|CDD|132354 TIGR03311, Se_dep_Molyb_1, selenium-dependent molybdenum
hydroxylase 1. Members of this protein family show full
length homology to the molybdenum-containing aldehyde
oxido-reductase of Desulfovibrio gigas. Members,
however, are found only within species that have, and
near those genes that encode, a set of predicted
accessory proteins for selenium-dependent molybdenum
hydroxylases. The best known examples of such enzymes
are forms of xanthine dehydrogenase and purine
hydroxylase; this family appears to be another such
enzyme.
Length = 848
Score = 31.0 bits (70), Expect = 0.33
Identities = 11/38 (28%), Positives = 19/38 (50%), Gaps = 8/38 (21%)
Query: 80 CREGICGSCGMNIDGTNTLACV--------KDMKDIKG 109
C EG CG+C + ++G AC K++ ++G
Sbjct: 35 CGEGACGACTVIVNGKAVRACRFTTAKLAGKEITTVEG 72
>gnl|CDD|162617 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.
Length = 435
Score = 30.0 bits (68), Expect = 0.55
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 166 GLYECVMCACCSTSCPS 182
L +C+ C CCS CPS
Sbjct: 400 NLMDCIECGCCSYVCPS 416
>gnl|CDD|132337 TIGR03294, FrhG, coenzyme F420 hydrogenase, subunit gamma. This
model represents that clade of F420-dependent
hydrogenases (FRH) beta subunits found exclusively and
universally in methanogenic archaea. This protein
contains two 4Fe-4S cluster binding domains (pfam00037)
and scores above the trusted cutoff to model pfam01058
for the "NADH ubiquinone oxidoreductase, 20 Kd subunit"
family.
Length = 228
Score = 29.8 bits (67), Expect = 0.81
Identities = 6/19 (31%), Positives = 8/19 (42%)
Query: 170 CVMCACCSTSCPSYWWNSD 188
C+ C C CP +W
Sbjct: 205 CIKCGACYVQCPRAFWPEY 223
>gnl|CDD|180265 PRK05802, PRK05802, hypothetical protein; Provisional.
Length = 320
Score = 29.6 bits (67), Expect = 0.87
Identities = 10/30 (33%), Positives = 13/30 (43%)
Query: 79 SCREGICGSCGMNIDGTNTLACVKDMKDIK 108
C EGICG+C + G K D +
Sbjct: 291 CCGEGICGACTVRYGGHKVKRLCKVQVDPR 320
>gnl|CDD|183008 PRK11168, glpC, sn-glycerol-3-phosphate dehydrogenase subunit C;
Provisional.
Length = 396
Score = 28.7 bits (65), Expect = 1.7
Identities = 23/87 (26%), Positives = 30/87 (34%), Gaps = 24/87 (27%)
Query: 170 CVMCACCSTSCPSYWWNSDRYLGPAILLQAYRWLIDSRDEFQG---ERL----DNLEDPF 222
C+ C C+T+CP N Y GP + G ERL L D
Sbjct: 9 CIKCTVCTTACPVARVN-PLYPGP---------------KQAGPDGERLRLKDGALYDES 52
Query: 223 RLYRCHTIMNCTQSCPKGLNPAKAIAK 249
Y C C +CP G+ I +
Sbjct: 53 LKY-CSNCKRCEVACPSGVKIGDIIQR 78
>gnl|CDD|179919 PRK05035, PRK05035, electron transport complex protein RnfC;
Provisional.
Length = 695
Score = 28.0 bits (63), Expect = 2.3
Identities = 7/17 (41%), Positives = 11/17 (64%)
Query: 167 LYECVMCACCSTSCPSY 183
L++C+ C C+ CPS
Sbjct: 408 LFDCIECGACAYVCPSN 424
>gnl|CDD|182139 PRK09908, PRK09908, xanthine dehydrogenase subunit XdhC;
Provisional.
Length = 159
Score = 28.0 bits (62), Expect = 2.4
Identities = 10/28 (35%), Positives = 19/28 (67%)
Query: 74 LTLRRSCREGICGSCGMNIDGTNTLACV 101
L++++ C G CG+C + +DGT +C+
Sbjct: 38 LSVKQGCCVGECGACTVLVDGTAIDSCL 65
>gnl|CDD|132237 TIGR03193, 4hydroxCoAred, 4-hydroxybenzoyl-CoA reductase, gamma
subunit. 4-hydroxybenzoyl-CoA reductase converts
4-hydroxybenzoyl-CoA to benzoyl-CoA, a common
intermediate in the degradation of aromatic compounds.
This protein family represents the gamma chain of this
three-subunit enzyme.
Length = 148
Score = 27.5 bits (61), Expect = 3.7
Identities = 16/46 (34%), Positives = 26/46 (56%), Gaps = 4/46 (8%)
Query: 59 VLDGLL---YIKNKIDPTLTLRRSCREGICGSCGMNIDGTNTLACV 101
V D +L Y+++ + T T ++ C G CG+C + +DG LAC
Sbjct: 15 VADNMLLVDYLRDTVGLTGT-KQGCDGGECGACTVLVDGRPRLACS 59
>gnl|CDD|183350 PRK11872, antC, anthranilate dioxygenase reductase; Provisional.
Length = 340
Score = 27.4 bits (61), Expect = 4.1
Identities = 7/9 (77%), Positives = 9/9 (100%)
Query: 80 CREGICGSC 88
CREG+CG+C
Sbjct: 40 CREGVCGTC 48
>gnl|CDD|132242 TIGR03198, pucE, xanthine dehydrogenase E subunit. This gene has
been characterized in B. subtilis as the Iron-sulfur
cluster binding-subunit of xanthine dehydrogenase
(pucE), acting in conjunction with pucC, the FAD-binding
subunit and pucD, the molybdopterin binding subunit. The
more common XDH complex (GenProp0640) includes the xdhA
gene as the Fe-S cluster binding component.
Length = 151
Score = 27.1 bits (60), Expect = 4.2
Identities = 13/32 (40%), Positives = 18/32 (56%), Gaps = 1/32 (3%)
Query: 71 DPTLT-LRRSCREGICGSCGMNIDGTNTLACV 101
+ LT + SC G CG+C + IDG AC+
Sbjct: 30 ELQLTGTKVSCGIGRCGACSVLIDGKLANACL 61
>gnl|CDD|178446 PLN02855, PLN02855, Bifunctional selenocysteine lyase/cysteine
desulfurase.
Length = 424
Score = 27.0 bits (60), Expect = 5.4
Identities = 13/45 (28%), Positives = 20/45 (44%), Gaps = 11/45 (24%)
Query: 95 TNTLACVKDMKDI------KGAI----AVYPLPHMSV-IKDLVVD 128
+N L + ++DI GA A +PHM V ++ L D
Sbjct: 183 SNVLGSILPVEDIVHWAHAVGAKVLVDACQSVPHMPVDVQTLGAD 227
>gnl|CDD|183738 PRK12775, PRK12775, putative trifunctional 2-polyprenylphenol
hydroxylase/glutamate synthase subunit beta/ferritin
domain-containing protein; Provisional.
Length = 1006
Score = 26.8 bits (59), Expect = 5.5
Identities = 34/136 (25%), Positives = 45/136 (33%), Gaps = 46/136 (33%)
Query: 83 GICGSCGMNIDGTNTLACVKDMKDIKGAIAVYPLPHMSVIKDLVVDMSHFYSQH-RSIEP 141
G+CGSC + + G ACV D D G H K+L F SQ R+ E
Sbjct: 220 GMCGSCRVTVGGEVKFACV-DGPDFDG--------HKVDFKELHARQKRFKSQEDRANED 270
Query: 142 W--------------------LKTVSPKPAKELLQSHEDRQK-----------IDGLYE- 169
+ LKT+ P + +R + D L E
Sbjct: 271 YAHVCNLEKQLFEEGKRNYKKLKTLVPHQTPMPERDAVERARNFKEVNLGYSLEDALQEA 330
Query: 170 --CVMCA--CCSTSCP 181
C+ CA C CP
Sbjct: 331 ERCIQCAKPTCIAGCP 346
>gnl|CDD|177761 PLN00162, PLN00162, transport protein sec23; Provisional.
Length = 761
Score = 26.8 bits (60), Expect = 5.8
Identities = 15/36 (41%), Positives = 22/36 (61%), Gaps = 1/36 (2%)
Query: 76 LRRSCREGICGSCGMNIDGTNTLACVKDMKDIKGAI 111
LRR GS G++ +GT + C KD+K ++GAI
Sbjct: 386 LRRVFERDGEGSLGLSFNGTFEVNCSKDVK-VQGAI 420
>gnl|CDD|179457 PRK02651, PRK02651, photosystem I subunit VII; Provisional.
Length = 81
Score = 26.9 bits (59), Expect = 6.0
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 169 ECVMCACCSTSCPSYWWNSDRYLGP 193
+CV C C T+CP+ + + YLG
Sbjct: 47 DCVGCKRCETACPTDFLSIRVYLGA 71
>gnl|CDD|107017 PHA01076, PHA01076, putative encapsidation protein.
Length = 378
Score = 26.5 bits (58), Expect = 6.9
Identities = 11/33 (33%), Positives = 15/33 (45%)
Query: 22 TGEKNLKEYRIYRWNPDNKGNPCMDTYYVDLDN 54
TGE EY + N N N D +Y+ D+
Sbjct: 219 TGEFEFNEYNLADDNLRNHINQNGDFFYIKTDD 251
>gnl|CDD|183877 PRK13170, hisH, imidazole glycerol phosphate synthase subunit HisH;
Provisional.
Length = 196
Score = 26.4 bits (59), Expect = 7.2
Identities = 17/49 (34%), Positives = 19/49 (38%), Gaps = 19/49 (38%)
Query: 83 GICGSCGMNI--------DGTNTL----ACVKDMKDIKGAIAVYPLPHM 119
GIC GM + G + L VK M D G PLPHM
Sbjct: 75 GIC--LGMQLLGERSEESGGVDCLGIIDGPVKKMTD-FG----LPLPHM 116
>gnl|CDD|183069 PRK11274, glcF, glycolate oxidase iron-sulfur subunit; Provisional.
Length = 407
Score = 26.4 bits (59), Expect = 7.9
Identities = 12/34 (35%), Positives = 14/34 (41%), Gaps = 8/34 (23%)
Query: 149 KPAKELLQSHEDRQKIDGLYECVMCACCSTSCPS 182
E Q H DR C+ C C T+CPS
Sbjct: 62 AEVTEKTQLHLDR--------CLTCRNCETTCPS 87
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.323 0.139 0.454
Gapped
Lambda K H
0.267 0.0624 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 4,250,723
Number of extensions: 256904
Number of successful extensions: 577
Number of sequences better than 10.0: 1
Number of HSP's gapped: 534
Number of HSP's successfully gapped: 49
Length of query: 259
Length of database: 5,994,473
Length adjustment: 91
Effective length of query: 168
Effective length of database: 4,028,145
Effective search space: 676728360
Effective search space used: 676728360
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 (21.9 bits)
S2: 56 (25.6 bits)