RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5769
(365 letters)
>gnl|CDD|215067 PLN00129, PLN00129, succinate dehydrogenase [ubiquinone]
iron-sulfur subunit.
Length = 276
Score = 312 bits (801), Expect = e-106
Identities = 124/247 (50%), Positives = 147/247 (59%), Gaps = 51/247 (20%)
Query: 107 SAAASSAVPAEKPAKYKTFAIYRWNPDKPDEKPTMQEYKVDLNN---------------- 150
SA ++ KP+ K F IYRWNPD P KP +Q YKVDLN+
Sbjct: 28 SAETKASSKGSKPSNLKEFQIYRWNPDNP-GKPHLQSYKVDLNDCGPMVLDVLIKIKNEQ 86
Query: 151 --------------------------------KIDAN-DKVSKIYPLPHMYVVKDLVPDM 177
KID + + I PLPHM+V+KDLV DM
Sbjct: 87 DPSLTFRRSCREGICGSCAMNIDGKNTLACLTKIDRDESGPTTITPLPHMFVIKDLVVDM 146
Query: 178 NNFYAQYKSIQPWLQR-DKENIGNAQYLQSLDDRKKLDGLYECILCACCSTSCPSYWWNG 236
NFY QYKSI+PWL+ G ++LQS +DR KLDG+YECILCACCSTSCPSYWWN
Sbjct: 147 TNFYQQYKSIEPWLKTKKPPEDGQKEHLQSKEDRAKLDGMYECILCACCSTSCPSYWWNP 206
Query: 237 EKYLGPAVLMQAYRWIIDSRDEKTADRLNQLKDPFSVYRCHTIMNCTRTCPKGLNPGRAI 296
EK+LGPA L+ AYRWI DSRDE T +RL L D F +YRCHTI NC+ CPKGLNP +AI
Sbjct: 207 EKFLGPAALLHAYRWISDSRDEYTKERLEALDDEFKLYRCHTIRNCSNACPKGLNPAKAI 266
Query: 297 AEIKKLL 303
A+IK+LL
Sbjct: 267 AKIKQLL 273
Score = 172 bits (437), Expect = 2e-51
Identities = 64/91 (70%), Positives = 72/91 (79%), Gaps = 6/91 (6%)
Query: 1 MVLDALIKIKNEMDPTLTFRRSCREGICGSCAMNIGGVNTLACISKIDAN-DKVSKIYPL 59
MVLD LIKIKNE DP+LTFRRSCREGICGSCAMNI G NTLAC++KID + + I PL
Sbjct: 74 MVLDVLIKIKNEQDPSLTFRRSCREGICGSCAMNIDGKNTLACLTKIDRDESGPTTITPL 133
Query: 60 PHMYVVKDLVPDMNNFYAQYKSIQRHLGGPW 90
PHM+V+KDLV DM NFY QYKSI+ PW
Sbjct: 134 PHMFVIKDLVVDMTNFYQQYKSIE-----PW 159
Score = 82.5 bits (204), Expect = 6e-18
Identities = 29/48 (60%), Positives = 34/48 (70%), Gaps = 1/48 (2%)
Query: 317 AALHKIDAN-DKVSKIYPLPHMYVVKDLVPDMNNFYAQYKSIQPWLPR 363
A L KID + + I PLPHM+V+KDLV DM NFY QYKSI+PWL
Sbjct: 115 ACLTKIDRDESGPTTITPLPHMFVIKDLVVDMTNFYQQYKSIEPWLKT 162
>gnl|CDD|235652 PRK05950, sdhB, succinate dehydrogenase iron-sulfur subunit;
Reviewed.
Length = 232
Score = 302 bits (775), Expect = e-103
Identities = 112/229 (48%), Positives = 135/229 (58%), Gaps = 51/229 (22%)
Query: 124 TFAIYRWNPDKPDEKPTMQEYKVDLN----------NKI--------------------- 152
TF IYR+NPD D P MQ Y+VD++ KI
Sbjct: 1 TFKIYRYNPDV-DANPRMQTYEVDVDECGPMVLDALIKIKNEIDPTLTFRRSCREGVCGS 59
Query: 153 ------------------DANDKVSKIYPLPHMYVVKDLVPDMNNFYAQYKSIQPWLQRD 194
D I PLP + V+KDLV DM FYAQY+SI+P+L D
Sbjct: 60 DAMNINGKNGLACITPISDLKKGKIVIRPLPGLPVIKDLVVDMTQFYAQYRSIKPYLIND 119
Query: 195 KENIGNAQYLQSLDDRKKLDGLYECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIID 254
+ LQS +DR+KLDGLYECILCACCSTSCPS+WWN +K+LGPA L+QAYR+I D
Sbjct: 120 -TPPPARERLQSPEDREKLDGLYECILCACCSTSCPSFWWNPDKFLGPAALLQAYRFIAD 178
Query: 255 SRDEKTADRLNQLKDPFSVYRCHTIMNCTRTCPKGLNPGRAIAEIKKLL 303
SRDE T +RL+ L DPF V+RCHTIMNC CPKGLNP +AI EIK++L
Sbjct: 179 SRDEATGERLDILDDPFGVFRCHTIMNCVEVCPKGLNPTKAIGEIKRML 227
Score = 164 bits (418), Expect = 5e-49
Identities = 60/93 (64%), Positives = 68/93 (73%), Gaps = 6/93 (6%)
Query: 1 MVLDALIKIKNEMDPTLTFRRSCREGICGSCAMNIGGVNTLACISKI-DANDKVSKIYPL 59
MVLDALIKIKNE+DPTLTFRRSCREG+CGS AMNI G N LACI+ I D I PL
Sbjct: 30 MVLDALIKIKNEIDPTLTFRRSCREGVCGSDAMNINGKNGLACITPISDLKKGKIVIRPL 89
Query: 60 PHMYVVKDLVPDMNNFYAQYKSIQRHLGGPWKI 92
P + V+KDLV DM FYAQY+SI+ P+ I
Sbjct: 90 PGLPVIKDLVVDMTQFYAQYRSIK-----PYLI 117
Score = 71.7 bits (177), Expect = 2e-14
Identities = 21/39 (53%), Positives = 26/39 (66%)
Query: 323 DANDKVSKIYPLPHMYVVKDLVPDMNNFYAQYKSIQPWL 361
D I PLP + V+KDLV DM FYAQY+SI+P+L
Sbjct: 78 DLKKGKIVIRPLPGLPVIKDLVVDMTQFYAQYRSIKPYL 116
>gnl|CDD|223555 COG0479, FrdB, Succinate dehydrogenase/fumarate reductase, Fe-S
protein subunit [Energy production and conversion].
Length = 234
Score = 226 bits (577), Expect = 8e-73
Identities = 93/229 (40%), Positives = 122/229 (53%), Gaps = 52/229 (22%)
Query: 124 TFAIYRWNPDKPDEKPTMQEYKVDL-------------NNKIDAN--------------- 155
F IYR+NPD D+KP Q Y+V + D
Sbjct: 4 KFKIYRYNPD--DDKPYWQTYEVPYDEGMTVLDALLYIKEEQDPTLSFRRSCREGICGSC 61
Query: 156 --------------------DKVSKIYPLPHMYVVKDLVPDMNNFYAQYKSIQPWLQRDK 195
+ V I PLP+ V++DLV DM FY + + I+P+L RD
Sbjct: 62 AMNINGKPRLACKTLMKDLEEGVITIEPLPNFPVIRDLVVDMEEFYEKLRKIKPYLIRDD 121
Query: 196 ENIGNAQYLQSLDDRKKLDGLYECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDS 255
E + LQS ++R+KLD L ECILC CC+ +CPS WWN +LGPA L QAYR++ DS
Sbjct: 122 EP-DPGERLQSPEEREKLDELSECILCGCCTAACPSIWWN-PDFLGPAALRQAYRFLADS 179
Query: 256 RDEKTADRLNQLKDPFSVYRCHTIMNCTRTCPKGLNPGRAIAEIKKLLS 304
RDE TA+RL L+DP V+RC T NCT CPKG+ P +AIAE+K+ L+
Sbjct: 180 RDEGTAERLKILEDPDGVWRCTTCGNCTEVCPKGIPPAKAIAELKRRLA 228
Score = 138 bits (350), Expect = 4e-39
Identities = 48/91 (52%), Positives = 60/91 (65%), Gaps = 6/91 (6%)
Query: 1 MVLDALIKIKNEMDPTLTFRRSCREGICGSCAMNIGGVNTLACISKIDA-NDKVSKIYPL 59
VLDAL+ IK E DPTL+FRRSCREGICGSCAMNI G LAC + + + V I PL
Sbjct: 31 TVLDALLYIKEEQDPTLSFRRSCREGICGSCAMNINGKPRLACKTLMKDLEEGVITIEPL 90
Query: 60 PHMYVVKDLVPDMNNFYAQYKSIQRHLGGPW 90
P+ V++DLV DM FY + + I+ P+
Sbjct: 91 PNFPVIRDLVVDMEEFYEKLRKIK-----PY 116
Score = 60.0 bits (146), Expect = 2e-10
Identities = 18/41 (43%), Positives = 26/41 (63%)
Query: 323 DANDKVSKIYPLPHMYVVKDLVPDMNNFYAQYKSIQPWLPR 363
D + V I PLP+ V++DLV DM FY + + I+P+L R
Sbjct: 79 DLEEGVITIEPLPNFPVIRDLVVDMEEFYEKLRKIKPYLIR 119
>gnl|CDD|232950 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
[Energy metabolism, Aerobic, Energy metabolism,
Anaerobic, Energy metabolism, TCA cycle].
Length = 220
Score = 208 bits (531), Expect = 4e-66
Identities = 90/222 (40%), Positives = 121/222 (54%), Gaps = 50/222 (22%)
Query: 127 IYRWNPDKPDEKPTMQEYKVDLNNKI---DA----------------------------- 154
+ R+NPD DEKP +Q Y+V + + DA
Sbjct: 1 VLRFNPDV-DEKPHLQSYEVPADEGMTVLDALNYIKDEQDPSLAFRRSCRNGICGSCAMN 59
Query: 155 -NDKVS---------------KIYPLPHMYVVKDLVPDMNNFYAQYKSIQPWLQRDKENI 198
N K KI PLP++ V+KDLV DM FYA+ ++I+P+L R +
Sbjct: 60 VNGKPVLACKTKVEDLGQPVMKIEPLPNLPVIKDLVVDMGPFYAKLEAIKPYLIRKSQPE 119
Query: 199 GNAQYLQSLDDRKKLDGLYECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSRDE 258
++LQ+ + R+KLD L CILC CC +SCP++WWN E +LGPA L AYR++IDSRD
Sbjct: 120 PEGEFLQTPEQREKLDQLSGCILCGCCYSSCPAFWWNPE-FLGPAALTAAYRFLIDSRDH 178
Query: 259 KTADRLNQLKDPFSVYRCHTIMNCTRTCPKGLNPGRAIAEIK 300
T DRL L D V+RC T MNC+ CPKG+NP RAI ++K
Sbjct: 179 ATKDRLEGLNDKNGVWRCTTCMNCSEVCPKGVNPARAIEKLK 220
Score = 127 bits (320), Expect = 6e-35
Identities = 50/87 (57%), Positives = 63/87 (72%), Gaps = 1/87 (1%)
Query: 1 MVLDALIKIKNEMDPTLTFRRSCREGICGSCAMNIGGVNTLACISKI-DANDKVSKIYPL 59
VLDAL IK+E DP+L FRRSCR GICGSCAMN+ G LAC +K+ D V KI PL
Sbjct: 26 TVLDALNYIKDEQDPSLAFRRSCRNGICGSCAMNVNGKPVLACKTKVEDLGQPVMKIEPL 85
Query: 60 PHMYVVKDLVPDMNNFYAQYKSIQRHL 86
P++ V+KDLV DM FYA+ ++I+ +L
Sbjct: 86 PNLPVIKDLVVDMGPFYAKLEAIKPYL 112
Score = 56.7 bits (137), Expect = 2e-09
Identities = 26/56 (46%), Positives = 35/56 (62%), Gaps = 3/56 (5%)
Query: 310 DKPGLDTAALHKI-DANDKVSKIYPLPHMYVVKDLVPDMNNFYAQYKSIQPWLPRS 364
KP L A K+ D V KI PLP++ V+KDLV DM FYA+ ++I+P+L R
Sbjct: 62 GKPVL--ACKTKVEDLGQPVMKIEPLPNLPVIKDLVVDMGPFYAKLEAIKPYLIRK 115
>gnl|CDD|171592 PRK12575, PRK12575, succinate dehydrogenase iron-sulfur subunit;
Provisional.
Length = 235
Score = 196 bits (499), Expect = 3e-61
Identities = 95/231 (41%), Positives = 131/231 (56%), Gaps = 49/231 (21%)
Query: 120 AKYKTFAIYRWNPDKPDEKPTMQEYKVDLN----------NKIDANDKVSK--------- 160
A + IYR++PD D P MQ Y++ ++ A D+
Sbjct: 2 ADTRILHIYRYDPD-DDAAPRMQRYEIAPRAEDRMLLDVLGRVKAQDETLSYRRSCREGI 60
Query: 161 ----------------------------IYPLPHMYVVKDLVPDMNNFYAQYKSIQPWLQ 192
+ PLP + VV+DL+ DM +F+ QY SI+P+L
Sbjct: 61 CGSDAMNINGRNGLACLTNMQALPREIVLRPLPGLPVVRDLIVDMTDFFNQYHSIRPYLI 120
Query: 193 RDKENIGNAQYLQSLDDRKKLDGLYECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWI 252
D + LQ+ +R++LDGLYECILCACCST+CPSYWWN +K++GPA L+QAYR+I
Sbjct: 121 NDTVP-PERERLQTPQEREQLDGLYECILCACCSTACPSYWWNPDKFVGPAGLLQAYRFI 179
Query: 253 IDSRDEKTADRLNQLKDPFSVYRCHTIMNCTRTCPKGLNPGRAIAEIKKLL 303
DSRD+ TA RL+ L+DP+ ++RC TIMNC CPKGLNP RAI +I+ +L
Sbjct: 180 ADSRDDATAARLDDLEDPYRLFRCRTIMNCVDVCPKGLNPARAIGQIRTML 230
Score = 90.8 bits (225), Expect = 3e-21
Identities = 58/148 (39%), Positives = 80/148 (54%), Gaps = 31/148 (20%)
Query: 1 MVLDALIKIKNEMDPTLTFRRSCREGICGSCAMNIGGVNTLACISKIDANDKVSKIYPLP 60
M+LD L ++K + D TL++RRSCREGICGS AMNI G N LAC++ + A + + PLP
Sbjct: 35 MLLDVLGRVKAQ-DETLSYRRSCREGICGSDAMNINGRNGLACLTNMQALPREIVLRPLP 93
Query: 61 HMYVVKDLVPDMNNFYAQYKSIQRHLGGPWKILGTLTAKNIR--------------SFQL 106
+ VV+DL+ DM +F+ QY SI+ P+ I T+ + R L
Sbjct: 94 GLPVVRDLIVDMTDFFNQYHSIR-----PYLINDTVPPERERLQTPQEREQLDGLYECIL 148
Query: 107 SAAASSAVPAEKPAKYKTFAIYRWNPDK 134
A S+A P+ Y WNPDK
Sbjct: 149 CACCSTACPS-----------YWWNPDK 165
Score = 40.7 bits (95), Expect = 6e-04
Identities = 16/29 (55%), Positives = 23/29 (79%)
Query: 333 PLPHMYVVKDLVPDMNNFYAQYKSIQPWL 361
PLP + VV+DL+ DM +F+ QY SI+P+L
Sbjct: 91 PLPGLPVVRDLIVDMTDFFNQYHSIRPYL 119
>gnl|CDD|221911 pfam13085, Fer2_3, 2Fe-2S iron-sulfur cluster binding domain. The
2Fe-2S ferredoxin family have a general core structure
consisting of beta(2)-alpha-beta(2) which abeta-grasp
type fold. The domain is around one hundred amino acids
with four conserved cysteine residues to which the
2Fe-2S cluster is ligated.
Length = 107
Score = 121 bits (305), Expect = 5e-34
Identities = 43/78 (55%), Positives = 50/78 (64%), Gaps = 2/78 (2%)
Query: 1 MVLDALIKIKNEMDPTLTFRRSCREGICGSCAMNIGGVNTLACISKIDANDKVSKIY--P 58
VLDAL IK E DPTL FR SCREG+CGSCAM I G LAC + ID K +I P
Sbjct: 29 TVLDALNYIKEEQDPTLAFRASCREGVCGSCAMRINGKPRLACKTLIDDLLKGEEITIEP 88
Query: 59 LPHMYVVKDLVPDMNNFY 76
LP V++DLV D + F+
Sbjct: 89 LPGFPVIRDLVVDRSPFF 106
Score = 42.2 bits (100), Expect = 3e-05
Identities = 21/107 (19%), Positives = 35/107 (32%), Gaps = 50/107 (46%)
Query: 124 TFAIYRWNPDKPDEKPTMQEYKVD-------------LNNKID----------------- 153
T I+R++P + D +P QEY+V+ + + D
Sbjct: 1 TLRIFRYDPPR-DAEPYYQEYEVEYEEGMTVLDALNYIKEEQDPTLAFRASCREGVCGSC 59
Query: 154 -------------------ANDKVSKIYPLPHMYVVKDLVPDMNNFY 181
+ I PLP V++DLV D + F+
Sbjct: 60 AMRINGKPRLACKTLIDDLLKGEEITIEPLPGFPVIRDLVVDRSPFF 106
Score = 38.3 bits (90), Expect = 7e-04
Identities = 17/43 (39%), Positives = 22/43 (51%), Gaps = 4/43 (9%)
Query: 311 KPGLDTAALHKIDANDKVSKIY--PLPHMYVVKDLVPDMNNFY 351
KP L A ID K +I PLP V++DLV D + F+
Sbjct: 66 KPRL--ACKTLIDDLLKGEEITIEPLPGFPVIRDLVVDRSPFF 106
>gnl|CDD|237143 PRK12576, PRK12576, succinate dehydrogenase iron-sulfur subunit;
Provisional.
Length = 279
Score = 117 bits (294), Expect = 2e-30
Identities = 50/161 (31%), Positives = 84/161 (52%), Gaps = 5/161 (3%)
Query: 161 IYPLPHMYVVKDLVPDMNNFYAQYKSIQPWLQRDKENI-GNAQYLQSLDDRKKLDGLYEC 219
I P+ + VVKDL+ D + FY + ++P L R KE + G A++ +D+K+L +C
Sbjct: 95 IEPMDYFKVVKDLIVDFDEFYERMFKVKPRLYRAKEVLEGKAEHRLKPEDQKELWKFAQC 154
Query: 220 ILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSRDEKTADRLNQLKDPFSVYRCHTI 279
I C C ++CP + ++LGPA + YR++ D RD T +R+ L D S +RC
Sbjct: 155 IWCGLCVSACPVVAID-PEFLGPAAHAKGYRFLADPRDTITEERMKILID--SSWRCTYC 211
Query: 280 MNCTRTCPKGLNPGRAIAEIKKLLSGLVKKDKPGLDTAALH 320
+C+ CP+ + P AI + + + + K + H
Sbjct: 212 YSCSNVCPRDIEPVTAIKKTRS-FTRVYKPKSEVAERGEKH 251
Score = 89.4 bits (222), Expect = 2e-20
Identities = 35/89 (39%), Positives = 49/89 (55%), Gaps = 4/89 (4%)
Query: 2 VLDALIKIKNEMDPTLTFRRSCREGICGSCAMNIGGVNTLAC----ISKIDANDKVSKIY 57
V +AL +IK E DPTL++R SC +CGSC M I G LAC + + V I
Sbjct: 37 VTEALRRIKEEQDPTLSYRASCHMAVCGSCGMKINGEPRLACKTLVLDVAKKYNSVITIE 96
Query: 58 PLPHMYVVKDLVPDMNNFYAQYKSIQRHL 86
P+ + VVKDL+ D + FY + ++ L
Sbjct: 97 PMDYFKVVKDLIVDFDEFYERMFKVKPRL 125
Score = 40.5 bits (95), Expect = 7e-04
Identities = 36/138 (26%), Positives = 54/138 (39%), Gaps = 36/138 (26%)
Query: 232 YWWNGEKYLGPAVLMQAYRWIIDSRDEKTADRLNQLK---DPFSVYR--CHTIMNCTRTC 286
WW Q Y+ +D R + + L ++K DP YR CH M +C
Sbjct: 22 SWW------------QEYKVKVD-RFTQVTEALRRIKEEQDPTLSYRASCH--MAVCGSC 66
Query: 287 PKGLNPGRAIAEIKKLLSGLVKKDKPGLDTAALHKIDANDKVSKIYPLPHMYVVKDLVPD 346
+N G K L+ + KK V I P+ + VVKDL+ D
Sbjct: 67 GMKIN-GEPRLACKTLVLDVAKKYNS---------------VITIEPMDYFKVVKDLIVD 110
Query: 347 MNNFYAQYKSIQPWLPRS 364
+ FY + ++P L R+
Sbjct: 111 FDEFYERMFKVKPRLYRA 128
>gnl|CDD|183605 PRK12577, PRK12577, succinate dehydrogenase iron-sulfur subunit;
Provisional.
Length = 329
Score = 105 bits (264), Expect = 8e-26
Identities = 51/153 (33%), Positives = 79/153 (51%), Gaps = 4/153 (2%)
Query: 161 IYPLPHMYVVKDLVPDMNNFYAQYKSIQPWLQRDKENIGNAQYLQSLDDRKKLDGLYECI 220
I PL +M V+KDLV DM++F+ +++ P++ + ++LQ+ ++R KLD CI
Sbjct: 96 IAPLGNMPVIKDLVVDMSSFWQNLEAVDPYVSTAARQVPEREFLQTPEERSKLDQTGNCI 155
Query: 221 LCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSRDEKTADRLNQLKDP-FSVYRCHTI 279
LC C + C + N E ++GP L +A R + DSRD T RL V+ C
Sbjct: 156 LCGACYSECNAREVNPE-FVGPHALAKAQRMVADSRDTATEQRLELYNQGTAGVWGCTRC 214
Query: 280 MNCTRTCPKGLNPGRAIAEIKKLLSGLVKKDKP 312
C CP + P I +IK+ + L +KD
Sbjct: 215 YYCNSVCPMEVAPLDQITKIKQEI--LARKDAQ 245
Score = 82.0 bits (203), Expect = 2e-17
Identities = 36/93 (38%), Positives = 54/93 (58%), Gaps = 11/93 (11%)
Query: 2 VLDALIKIKNEMDPTLTFRRSCREGICGSCAMNIGGVNTLACISKI---------DANDK 52
+LD L +IK E D +L FR++CR ICGSCAM I G + LAC + +
Sbjct: 31 ILDCLNRIKWEQDGSLAFRKNCRNTICGSCAMRINGRSALACKENVGSELARLSDSNSGA 90
Query: 53 VSKIY--PLPHMYVVKDLVPDMNNFYAQYKSIQ 83
+ +I PL +M V+KDLV DM++F+ +++
Sbjct: 91 IPEITIAPLGNMPVIKDLVVDMSSFWQNLEAVD 123
Score = 35.1 bits (81), Expect = 0.046
Identities = 13/30 (43%), Positives = 22/30 (73%)
Query: 331 IYPLPHMYVVKDLVPDMNNFYAQYKSIQPW 360
I PL +M V+KDLV DM++F+ +++ P+
Sbjct: 96 IAPLGNMPVIKDLVVDMSSFWQNLEAVDPY 125
>gnl|CDD|183490 PRK12385, PRK12385, fumarate reductase iron-sulfur subunit;
Provisional.
Length = 244
Score = 84.0 bits (208), Expect = 1e-18
Identities = 42/141 (29%), Positives = 71/141 (50%), Gaps = 1/141 (0%)
Query: 160 KIYPLPHMYVVKDLVPDMNNFYAQYKSIQPWLQRDKENIGNAQYLQSLDDRKKLDGLYEC 219
K+ L + + +DLV DM +F ++I+P++ + + Q+ K C
Sbjct: 90 KVEALANFPIERDLVVDMTHFIESLEAIKPYIIGNDRTPDDGPNKQTPAQMAKYHQFSGC 149
Query: 220 ILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSRDEKTADRLNQLKDPFSVYRCHTI 279
I C C +CP + N E ++GPA + A+R+ +DSRD +R+ QL V+ C +
Sbjct: 150 INCGLCYAACPQFGLNPE-FIGPAAITLAHRYNLDSRDHGKKERMKQLNGQNGVWSCTFV 208
Query: 280 MNCTRTCPKGLNPGRAIAEIK 300
C+ CPK ++P AI + K
Sbjct: 209 GYCSEVCPKHVDPAAAIQQGK 229
Score = 73.6 bits (181), Expect = 4e-15
Identities = 32/83 (38%), Positives = 49/83 (59%), Gaps = 2/83 (2%)
Query: 2 VLDALIKIKNEMDPTLTFRRSCREGICGSCAMNIGGVNTLACISKI-DANDKVSKIYPLP 60
+LDAL IK+ + P L++R SCR ICGSC M + V LAC + + D + K+ L
Sbjct: 37 LLDALGYIKDNLAPDLSYRWSCRMAICGSCGMMVNNVPKLACKTFLRDYTGGM-KVEALA 95
Query: 61 HMYVVKDLVPDMNNFYAQYKSIQ 83
+ + +DLV DM +F ++I+
Sbjct: 96 NFPIERDLVVDMTHFIESLEAIK 118
Score = 28.9 bits (65), Expect = 3.9
Identities = 10/32 (31%), Positives = 20/32 (62%)
Query: 330 KIYPLPHMYVVKDLVPDMNNFYAQYKSIQPWL 361
K+ L + + +DLV DM +F ++I+P++
Sbjct: 90 KVEALANFPIERDLVVDMTHFIESLEAIKPYI 121
>gnl|CDD|235756 PRK06259, PRK06259, succinate dehydrogenase/fumarate reductase
iron-sulfur subunit; Provisional.
Length = 486
Score = 78.5 bits (194), Expect = 6e-16
Identities = 47/131 (35%), Positives = 69/131 (52%), Gaps = 16/131 (12%)
Query: 169 VVKDLVPDMNNFYAQYKSIQPWLQRDKENIGNAQYLQSLDDRKKLDGLYECILCACCSTS 228
V+KDL+ D +Y + KS++ +LQR E I Y + ++D KKL G CI C C ++
Sbjct: 91 VIKDLIVDREPYYKKLKSLRNYLQRKNEKI---TYPEDIEDIKKLRG---CIECLSCVST 144
Query: 229 CPSYWWNGEKYLGPAVLMQAYRWIIDSRDEKTADRLNQLKDPF--SVYRCHTIMNCTRTC 286
CP+ Y GP + Q R+ D RDE ++ K+ F +Y C T C C
Sbjct: 145 CPAR--KVSDYPGPTFMRQLARFAFDPRDEG-----DREKEAFDEGLYNCTTCGKCVEVC 197
Query: 287 PKGLN-PGRAI 296
PK ++ PG+AI
Sbjct: 198 PKEIDIPGKAI 208
Score = 73.1 bits (180), Expect = 4e-14
Identities = 35/85 (41%), Positives = 48/85 (56%), Gaps = 4/85 (4%)
Query: 2 VLDALIKIKNEMDPTLTFRRSCREGICGSCAMNIGGVNTLACISKIDANDKVSKIYPLPH 61
VLDAL I D + FR SCR G CGSCA+ I G LAC ++++ I PL
Sbjct: 33 VLDALEYINKTYDANIAFRSSCRAGQCGSCAVTINGEPVLACKTEVEDGM---IIEPL-D 88
Query: 62 MYVVKDLVPDMNNFYAQYKSIQRHL 86
V+KDL+ D +Y + KS++ +L
Sbjct: 89 FPVIKDLIVDREPYYKKLKSLRNYL 113
>gnl|CDD|184136 PRK13552, frdB, fumarate reductase iron-sulfur subunit;
Provisional.
Length = 239
Score = 70.0 bits (172), Expect = 7e-14
Identities = 52/220 (23%), Positives = 91/220 (41%), Gaps = 56/220 (25%)
Query: 124 TFAIYRWNPDKPDEKPTMQEYKVD----------LN---NKIDAN--------------- 155
TF I+R+NP P KP M Y+++ LN + D +
Sbjct: 6 TFNIFRYNPQDPGSKPHMVTYQLEETPGMTLFIALNRIREEQDPSLQFDFVCRAGICGSC 65
Query: 156 --------------------DKVSKIYPLPHMYVVKDLVPDMNNFYAQ-YKSIQPWLQRD 194
D V + PLP ++ DL + ++ + + ++ W+ D
Sbjct: 66 AMVINGRPTLACRTLTSDYPDGVITLMPLPVFKLIGDLSVNTGKWFREMSERVESWIHTD 125
Query: 195 KENIGNAQYLQSLDDRKKLDGLYE---CILCACCSTSCPSYWWNGEKYLGPAVLMQAYRW 251
KE + L+ + ++ D +YE CI C CC +C + E ++G L + R+
Sbjct: 126 KEFDIHR--LEERMEPEEADEIYELDRCIECGCCVAACGTKQMR-EDFVGAVGLNRIARF 182
Query: 252 IIDSRDEKTADRLNQL-KDPFSVYRCHTIMNCTRTCPKGL 290
+D RDE+T + +L + V+ C +++ C CPK L
Sbjct: 183 ELDPRDERTDEDFYELIGNDDGVFGCMSLLGCEDNCPKDL 222
Score = 69.2 bits (170), Expect = 1e-13
Identities = 32/75 (42%), Positives = 43/75 (57%), Gaps = 1/75 (1%)
Query: 5 ALIKIKNEMDPTLTFRRSCREGICGSCAMNIGGVNTLACISKI-DANDKVSKIYPLPHMY 63
AL +I+ E DP+L F CR GICGSCAM I G TLAC + D D V + PLP
Sbjct: 39 ALNRIREEQDPSLQFDFVCRAGICGSCAMVINGRPTLACRTLTSDYPDGVITLMPLPVFK 98
Query: 64 VVKDLVPDMNNFYAQ 78
++ DL + ++ +
Sbjct: 99 LIGDLSVNTGKWFRE 113
>gnl|CDD|222205 pfam13534, Fer4_17, 4Fe-4S dicluster domain. This family includes
proteins containing domains which bind to iron-sulfur
clusters. Members include bacterial ferredoxins, various
dehydrogenases, and various reductases. The structure of
the domain is an alpha-antiparallel beta sandwich.
Length = 61
Score = 55.2 bits (133), Expect = 2e-10
Identities = 22/74 (29%), Positives = 26/74 (35%), Gaps = 13/74 (17%)
Query: 218 ECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSRDEKTADRLNQLKDPFSVYRCH 277
CI C C CPSY NG P LM+A L +L + C
Sbjct: 1 RCIQCGYCVPVCPSYLLNG---DEPKKLMRAAYN----------GDLEELLANEAADSCS 47
Query: 278 TIMNCTRTCPKGLN 291
C CP GL+
Sbjct: 48 ECGLCEYVCPMGLD 61
Score = 30.2 bits (68), Expect = 0.21
Identities = 7/29 (24%), Positives = 10/29 (34%)
Query: 203 YLQSLDDRKKLDGLYECILCACCSTSCPS 231
Y L++ + C C C CP
Sbjct: 30 YNGDLEELLANEAADSCSECGLCEYVCPM 58
>gnl|CDD|237086 PRK12386, PRK12386, fumarate reductase iron-sulfur subunit;
Provisional.
Length = 251
Score = 53.5 bits (129), Expect = 3e-08
Identities = 25/83 (30%), Positives = 45/83 (54%), Gaps = 2/83 (2%)
Query: 2 VLDALIKIKNEMDPTLTFRRSCREGICGSCAMNIGGVNTLACISKID--ANDKVSKIYPL 59
VLD + +++ P L R +C+ G CGSC+ I G L C++++ D+ + P+
Sbjct: 32 VLDVIHRLQATQAPDLAVRWNCKAGKCGSCSAEINGRPRLMCMTRMSTFDEDETVTVTPM 91
Query: 60 PHMYVVKDLVPDMNNFYAQYKSI 82
V++DLV D++ Y + + I
Sbjct: 92 RTFPVIRDLVTDVSFNYEKAREI 114
Score = 42.8 bits (101), Expect = 1e-04
Identities = 30/138 (21%), Positives = 59/138 (42%), Gaps = 7/138 (5%)
Query: 156 DKVSKIYPLPHMYVVKDLVPDMNNFYAQYKSIQPWLQRDKENIGNAQYLQSLDDRKKLDG 215
D+ + P+ V++DLV D++ Y + + I + +++ +Y D ++
Sbjct: 83 DETVTVTPMRTFPVIRDLVTDVSFNYEKAREIPSFTPP--KDLQPGEYRMQQVDVERSQE 140
Query: 216 LYECILCACCSTSC---PSYWWNGEKYLGPAVLMQAYRWIIDSRDEKTADRLNQLKDPFS 272
+CI C C C + N + GP LM+ ++ TADR + ++
Sbjct: 141 FRKCIECFLCQNVCHVVRDHEENKPAFAGPRFLMRIAE--LEMHPLDTADRRAEAQEEHG 198
Query: 273 VYRCHTIMNCTRTCPKGL 290
+ C+ CT CP+ +
Sbjct: 199 LGYCNITKCCTEVCPEHI 216
>gnl|CDD|181515 PRK08640, sdhB, succinate dehydrogenase iron-sulfur subunit;
Reviewed.
Length = 249
Score = 46.5 bits (111), Expect = 7e-06
Identities = 37/149 (24%), Positives = 63/149 (42%), Gaps = 2/149 (1%)
Query: 152 IDANDKVSKIYPLPHMYVVKDLVPDMNNFYAQYKSIQPWLQRDKENIGNAQYLQSLDDRK 211
ID ++ ++ P+ VV+DL D + + K ++ W+ D + R+
Sbjct: 87 IDQLEQPIRLEPMSTFPVVRDLQVDRSRMFDNLKRVKAWIPIDGTYDLGPGPRMPEEKRQ 146
Query: 212 KLDGLYECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSRDEKTAD-RLNQLKDP 270
L +C+ C CC +CP+ ++GPA + Q + E + RL L
Sbjct: 147 WAYELSKCMTCGCCLEACPNVN-EKSDFIGPAAISQVRLFNAHPTGEMHKEERLRALMGD 205
Query: 271 FSVYRCHTIMNCTRTCPKGLNPGRAIAEI 299
+ C NC R CPKG+ +IA +
Sbjct: 206 GGIADCGNAQNCVRVCPKGIPLTTSIAAM 234
Score = 40.0 bits (94), Expect = 9e-04
Identities = 18/49 (36%), Positives = 28/49 (57%)
Query: 23 CREGICGSCAMNIGGVNTLACISKIDANDKVSKIYPLPHMYVVKDLVPD 71
C E +CG+C+M I G AC + ID ++ ++ P+ VV+DL D
Sbjct: 63 CLEEVCGACSMVINGKPRQACTALIDQLEQPIRLEPMSTFPVVRDLQVD 111
>gnl|CDD|221963 pfam13183, Fer4_8, 4Fe-4S dicluster domain. Superfamily includes
proteins containing domains which bind to iron-sulfur
clusters. Members include bacterial ferredoxins, various
dehydrogenases, and various reductases. Structure of the
domain is an alpha-antiparallel beta sandwich. Domain
contains two 4Fe4S clusters.
Length = 54
Score = 42.2 bits (99), Expect = 1e-05
Identities = 19/76 (25%), Positives = 24/76 (31%), Gaps = 22/76 (28%)
Query: 215 GLYECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSRDEKTADRLNQLKDPFSVY 274
L +CI C C CP Y R+ D R A L +
Sbjct: 1 ELSKCIRCGACRAVCPVY-------------RALGRFSGDPRGGALAAEL---------W 38
Query: 275 RCHTIMNCTRTCPKGL 290
C + CT CP G+
Sbjct: 39 SCTSCGACTEVCPVGI 54
Score = 28.7 bits (64), Expect = 0.55
Identities = 6/31 (19%), Positives = 10/31 (32%)
Query: 201 AQYLQSLDDRKKLDGLYECILCACCSTSCPS 231
++ L+ C C C+ CP
Sbjct: 22 GRFSGDPRGGALAAELWSCTSCGACTEVCPV 52
>gnl|CDD|223325 COG0247, GlpC, Fe-S oxidoreductase [Energy production and
conversion].
Length = 388
Score = 45.7 bits (108), Expect = 2e-05
Identities = 27/116 (23%), Positives = 44/116 (37%), Gaps = 20/116 (17%)
Query: 213 LDGLYECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWII---DSRDEKTADRLNQLKD 269
+ L +C+ C C+ CPSY + L P + R ++ DE+ + L
Sbjct: 5 FESLDKCVHCGFCTNVCPSY--RATEALSPRGRIVLVREVLRGKAPGDEEVYEAL----- 57
Query: 270 PFSVYRCHTIMNCTRTCPKGLNPGRAIAEIKK------LLSGLVKKDKPGLDTAAL 319
C C CP G++ G I E ++ LL GL+ + + L
Sbjct: 58 ----DTCLACGACATACPSGIDIGDLIREARRKLAKGLLLDGLLAEAEELLGVNLG 109
>gnl|CDD|181038 PRK07570, PRK07570, succinate dehydrogenase/fumarate reductase
iron-sulfur subunit; Validated.
Length = 250
Score = 39.4 bits (93), Expect = 0.001
Identities = 20/64 (31%), Positives = 26/64 (40%), Gaps = 20/64 (31%)
Query: 23 CREGICGSCAMNIGGV------NTLAC---ISKIDANDKV------SKIYPLPHMYVVKD 67
CREGICG C + I G T C + D + + +P V+KD
Sbjct: 58 CREGICGMCGLVINGRPHGPDRGTTTCQLHMRSFKDGDTITIEPWRAAAFP-----VIKD 112
Query: 68 LVPD 71
LV D
Sbjct: 113 LVVD 116
>gnl|CDD|224072 COG1150, HdrC, Heterodisulfide reductase, subunit C [Energy
production and conversion].
Length = 195
Score = 37.0 bits (86), Expect = 0.006
Identities = 25/93 (26%), Positives = 35/93 (37%), Gaps = 15/93 (16%)
Query: 213 LDGLYECILCACCSTSCPSYWWNGEKY-LGPAVLMQAYRWIIDSRDEKTADRLNQLKDPF 271
LD L C C C+ SCPS G P R II R + L
Sbjct: 35 LDYLEGCYQCGTCTGSCPS----GRFTDYSP-------RKII--RKARLGLVDLILSSE- 80
Query: 272 SVYRCHTIMNCTRTCPKGLNPGRAIAEIKKLLS 304
S++ C T CT CP+G+ + ++ +
Sbjct: 81 SLWACVTCYTCTERCPRGVKIVEVVKALRNIAV 113
>gnl|CDD|238126 cd00207, fer2, 2Fe-2S iron-sulfur cluster binding domain.
Iron-sulfur proteins play an important role in electron
transfer processes and in various enzymatic reactions.
The family includes plant and algal ferredoxins, which
act as electron carriers in photosynthesis and
ferredoxins, which participate in redox chains (from
bacteria to mammals). Fold is ismilar to thioredoxin.
Length = 84
Score = 34.3 bits (79), Expect = 0.014
Identities = 10/34 (29%), Positives = 16/34 (47%), Gaps = 6/34 (17%)
Query: 2 VLDALIKIKNEMDPTLTFRRSCREGICGSCAMNI 35
+LDA + + SCR G CG+C + +
Sbjct: 20 LLDAAREAG------IDIPYSCRAGACGTCKVEV 47
>gnl|CDD|205920 pfam13746, Fer4_18, 4Fe-4S dicluster domain. This family includes
proteins containing domains which bind to iron-sulfur
clusters. Members include bacterial ferredoxins, various
dehydrogenases, and various reductases. The structure of
the domain is an alpha-antiparallel beta sandwich.
Length = 69
Score = 32.0 bits (73), Expect = 0.057
Identities = 16/67 (23%), Positives = 26/67 (38%), Gaps = 1/67 (1%)
Query: 225 CSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSRDEKTADRLNQLKDPFSVYRCHTIMNCTR 284
C+ CP+ L+ AY + R RL+++KD + C C
Sbjct: 2 CTYMCPTCRCQSAMI-DEDTLVVAYDFRPGGRGRPRYRRLHKVKDNEGLGDCVGCGRCVE 60
Query: 285 TCPKGLN 291
CP G++
Sbjct: 61 VCPTGID 67
>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 = 32.9 bits (75), Expect = 0.20
Identities = 7/19 (36%), Positives = 8/19 (42%)
Query: 219 CILCACCSTSCPSYWWNGE 237
CI C C CP +W
Sbjct: 205 CIKCGACYVQCPRAFWPEY 223
>gnl|CDD|224062 COG1139, COG1139, Uncharacterized conserved protein containing a
ferredoxin-like domain [Energy production and
conversion].
Length = 459
Score = 33.1 bits (76), Expect = 0.25
Identities = 20/88 (22%), Positives = 29/88 (32%), Gaps = 17/88 (19%)
Query: 219 CILCACCSTSCPSY-----WWNGEKYLGPAVLMQAYRWIIDSRDEKTADRLNQLKDPFSV 273
CI C C CP Y G Y GP ++ + I+ D
Sbjct: 310 CIRCGACLNHCPVYRHIGGHAYGSIYPGPIGVVWSP--ILGGYD----------AAGDLP 357
Query: 274 YRCHTIMNCTRTCPKGLNPGRAIAEIKK 301
Y C CT CP + I ++++
Sbjct: 358 YACSLCGACTEVCPVKIPLPELIRKLRR 385
>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 = 31.3 bits (71), Expect = 0.36
Identities = 19/84 (22%), Positives = 30/84 (35%), Gaps = 13/84 (15%)
Query: 219 CILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSRDEKTADRLNQLKDPFSVYRCHT 278
C C C+ SCPS G +YR + R + + D ++ C T
Sbjct: 4 CYQCGTCTGSCPS---------GR---RTSYRTRLIIRKALLGLKDEVISDD-DLWMCTT 50
Query: 279 IMNCTRTCPKGLNPGRAIAEIKKL 302
C CP+ + I ++ L
Sbjct: 51 CYTCQERCPRDVKITDIIKALRNL 74
>gnl|CDD|205417 pfam13237, Fer4_10, 4Fe-4S dicluster domain. This family includes
proteins containing domains which bind to iron-sulfur
clusters. Members include bacterial ferredoxins, various
dehydrogenases, and various reductases. The structure of
the domain is an alpha-antiparallel beta sandwich.
Length = 51
Score = 28.9 bits (64), Expect = 0.46
Identities = 6/32 (18%), Positives = 7/32 (21%)
Query: 199 GNAQYLQSLDDRKKLDGLYECILCACCSTSCP 230
+ CI C C CP
Sbjct: 20 RVGAGAIRDEGGAVEIDPDRCIGCGACVEVCP 51
Score = 25.4 bits (55), Expect = 8.6
Identities = 14/69 (20%), Positives = 16/69 (23%), Gaps = 24/69 (34%)
Query: 219 CILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSRDEKTADRLNQLKDPFSVYRCHT 278
CI C C +CP +R A R RC
Sbjct: 7 CIGCGRCVAACP------------------------ARVGAGAIRDEGGAVEIDPDRCIG 42
Query: 279 IMNCTRTCP 287
C CP
Sbjct: 43 CGACVEVCP 51
>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 = 31.9 bits (73), Expect = 0.49
Identities = 10/17 (58%), Positives = 11/17 (64%)
Query: 215 GLYECILCACCSTSCPS 231
L +CI C CCS CPS
Sbjct: 400 NLMDCIECGCCSYVCPS 416
>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 = 31.7 bits (72), Expect = 0.69
Identities = 9/26 (34%), Positives = 12/26 (46%)
Query: 23 CREGICGSCAMNIGGVNTLACISKID 48
C EG CG+C + + G AC
Sbjct: 35 CGEGACGACTVIVNGKAVRACRFTTA 60
>gnl|CDD|215725 pfam00111, Fer2, 2Fe-2S iron-sulfur cluster binding domain.
Length = 77
Score = 29.0 bits (65), Expect = 0.75
Identities = 8/11 (72%), Positives = 9/11 (81%)
Query: 22 SCREGICGSCA 32
SCR G CG+CA
Sbjct: 33 SCRGGGCGTCA 43
>gnl|CDD|176070 cd08688, C2_KIAA0528-like, C2 domain found in the Human KIAA0528
cDNA clone. The members of this CD are named after the
Human KIAA0528 cDNA clone. All members here contain a
single C2 repeat. No other information on this protein
is currently known. The C2 domain was first identified
in PKC. C2 domains fold into an 8-standed beta-sandwich
that can adopt 2 structural arrangements: Type I and
Type II, distinguished by a circular permutation
involving their N- and C-terminal beta strands. Many C2
domains are Ca2+-dependent membrane-targeting modules
that bind a wide variety of substances including bind
phospholipids, inositol polyphosphates, and
intracellular proteins. Most C2 domain proteins are
either signal transduction enzymes that contain a single
C2 domain, such as protein kinase C, or membrane
trafficking proteins which contain at least two C2
domains, such as synaptotagmin 1. However, there are a
few exceptions to this including RIM isoforms and some
splice variants of piccolo/aczonin and intersectin which
only have a single C2 domain. C2 domains with a calcium
binding region have negatively charged residues,
primarily aspartates, that serve as ligands for calcium
ions.
Length = 110
Score = 29.6 bits (67), Expect = 0.86
Identities = 12/41 (29%), Positives = 18/41 (43%)
Query: 252 IIDSRDEKTADRLNQLKDPFSVYRCHTIMNCTRTCPKGLNP 292
++ +RD DR + L D F + + T K LNP
Sbjct: 5 VVAARDLPVMDRSSDLTDAFVEVKFGSTTYKTDVVKKSLNP 45
>gnl|CDD|216806 pfam01955, CbiZ, Adenosylcobinamide amidohydrolase. This
prokaryotic protein family includes CbiZ which converts
adenosylcobinamide (AdoCbi) to adenosylcobyric acid
(AdoCby), an intermediate of the de novo coenzyme B12
biosynthetic route.
Length = 188
Score = 30.3 bits (69), Expect = 1.0
Identities = 12/41 (29%), Positives = 18/41 (43%), Gaps = 2/41 (4%)
Query: 278 TIMNCTRTCPKGLNPGRAIAEIKKLLSGLVKKDKPGLDTAA 318
++N T PK + A + ++L L D GL TA
Sbjct: 25 YVVN--HTVPKDYDHTDPEAYLAEVLERLGLGDTVGLLTAV 63
>gnl|CDD|235334 PRK05035, PRK05035, electron transport complex protein RnfC;
Provisional.
Length = 695
Score = 30.3 bits (69), Expect = 1.6
Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 17/54 (31%)
Query: 216 LYECILCACCSTSCPSYWWNGEKYLGPAVLMQAYR------WIIDSRDEKTADR 263
L++CI C C+ CPS P L+Q YR I+ +++K A+
Sbjct: 408 LFDCIECGACAYVCPSNI--------P--LVQYYRQAKAEIRAIE-QEKKKAEE 450
>gnl|CDD|236869 PRK11168, glpC, sn-glycerol-3-phosphate dehydrogenase subunit C;
Provisional.
Length = 396
Score = 30.2 bits (69), Expect = 1.7
Identities = 27/96 (28%), Positives = 33/96 (34%), Gaps = 32/96 (33%)
Query: 219 CILCACCSTSCPSYWWN----GEKYLGPAVLMQAYRWIIDSRDEKTADRLNQLKDPFSV- 273
CI C C+T+CP N G K GP +RL +LKD
Sbjct: 9 CIKCTVCTTACPVARVNPLYPGPKQAGPD-----------------GERL-RLKDGALYD 50
Query: 274 ----YRCHTIMNCTRTCPKGLNPG----RAIAEIKK 301
Y C C CP G+ G RA A+
Sbjct: 51 ESLKY-CSNCKRCEVACPSGVKIGDIIQRARAKYVT 85
>gnl|CDD|235613 PRK05802, PRK05802, hypothetical protein; Provisional.
Length = 320
Score = 29.9 bits (68), Expect = 2.0
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 18 TFRRSCREGICGSCAMNIGG 37
+ C EGICG+C + GG
Sbjct: 287 NAKMCCGEGICGACTVRYGG 306
>gnl|CDD|238897 cd01916, ACS_1, Acetyl-CoA synthase (ACS), also known as acetyl-CoA
decarbonylase, is found in acetogenic and methanogenic
organisms and is responsible for the synthesis and
breakdown of acetyl-CoA. ACS forms a heterotetramer
with carbon monoxide dehydrogenase (CODH) consisting of
two ACS and two CODH subunits. CODH reduces carbon
dioxide to carbon monoxide and ACS then synthesizes
acetyl-CoA from carbon monoxide, CoA, and a methyl group
donated by another protein (CoFeSP). ACS has three
structural domains, an N-terminal rossman fold domain
with a helical region at its N-terminus which interacts
with CODH, and two alpha + beta fold domains. A Ni-Fe-S
center referred to as the A-cluster is located in the
C-terminal domain. A large cavity exists between the
three domains which may bind CoA.
Length = 731
Score = 30.1 bits (68), Expect = 2.2
Identities = 11/46 (23%), Positives = 18/46 (39%), Gaps = 2/46 (4%)
Query: 256 RDEKTADRLNQLKDPFSVYRCHTIMNCTRTCPKGLNPGRAIAEIKK 301
+ EK + ++ +C CTR CP L A+ K+
Sbjct: 349 KGEKKLPTDEEFQE--LAAKCTDCGWCTRACPNSLRIKEAMEAAKE 392
>gnl|CDD|129374 TIGR00273, TIGR00273, iron-sulfur cluster-binding protein. Members
of this family have a perfect 4Fe-4S binding motif
C-x(2)-C-x(2)-C-x(3)-CP followed by either a perfect or
imperfect (the first Cys replaced by Ser) second copy.
Members probably bind two 4fe-4S iron-sulfur clusters
[Energy metabolism, Electron transport].
Length = 432
Score = 29.8 bits (67), Expect = 2.5
Identities = 16/57 (28%), Positives = 20/57 (35%), Gaps = 15/57 (26%)
Query: 191 LQRDKENIGNAQYLQSLDDRKKLDGLYECILCACCSTSCPSY-----WWNGEKYLGP 242
L + NI ++ + L CI C C CP Y W G Y GP
Sbjct: 277 LDNGRSNILATEFREVL----------ACIRCGACQNECPVYRHIGGHWYGSIYPGP 323
>gnl|CDD|220742 pfam10418, DHODB_Fe-S_bind, Iron-sulfur cluster binding domain of
dihydroorotate dehydrogenase B. Lactococcus lactis is
one of the few organisms with two dihydroorotate
dehydrogenases, DHODs, A and B. The B enzyme is a
prototype for DHODs in Gram-positive bacteria that use
NAD+ as the second substrate. DHODB is a
hetero-tetramer composed of a central homodimer of
PyrDB subunits resembling the DHODA structure and two
PyrK subunits along with three different cofactors:
FMN, FAD, and a [2Fe-2S] cluster. The [2Fe-2S]
iron-sulfur cluster binds to this C-terminal domain of
the PyrK subunit, which is at the interface between the
flavin and NAD binding domains and contains three
beta-strands. The four cysteine residues at the
N-terminal part of this domain are the ones that bind,
in pairs, to the iron-sulfur cluster. The conformation
of the whole molecule means that the iron-sulfur
cluster is localised in a well-ordered part of this
domain close to the FAD binding site. The FAD and and
NAD binding domains are FAD_binding_6, pfam00970 and
NAD_binding_1, pfam00175.
Length = 37
Score = 26.4 bits (59), Expect = 2.5
Identities = 6/19 (31%), Positives = 9/19 (47%)
Query: 26 GICGSCAMNIGGVNTLACI 44
G CG C + + G C+
Sbjct: 9 GACGGCVVGVKGGYKRVCV 27
>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 [Energy metabolism, Chemoautotrophy].
Length = 784
Score = 29.8 bits (67), Expect = 2.8
Identities = 14/38 (36%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 275 RCHTIMNCTRTCPKGLNPGRAIAEIKK-LLSGLVKKDK 311
+C NC RTCP L A+A +K LS L + ++
Sbjct: 400 KCTQCGNCVRTCPNSLRVDEAMAHAQKGDLSKLEQLEE 437
>gnl|CDD|99816 cd06220, DHOD_e_trans_like2, FAD/NAD binding domain in the electron
transfer subunit of dihydroorotate dehydrogenase-like
proteins. Dihydroorotate dehydrogenases (DHODs) catalyze
the only redox reaction in pyrimidine de novo
biosynthesis. They catalyze the oxidation of
(S)-dihydroorotate to orotate coupled with the reduction
of NAD+. In L. lactis, DHOD B (encoded by pyrDa) is
co-expressed with pyrK and both gene products are
required for full activity, as well as 3 cofactors: FMN,
FAD, and an [2Fe-2S] cluster.
Length = 233
Score = 29.1 bits (66), Expect = 3.0
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 23 CREGICGSCAMNIGG 37
C GICGSC ++ G
Sbjct: 203 CGIGICGSCCIDPTG 217
>gnl|CDD|183738 PRK12775, PRK12775, putative trifunctional 2-polyprenylphenol
hydroxylase/glutamate synthase subunit beta/ferritin
domain-containing protein; Provisional.
Length = 1006
Score = 29.5 bits (66), Expect = 3.1
Identities = 15/31 (48%), Positives = 17/31 (54%), Gaps = 3/31 (9%)
Query: 311 KPGLDTAALHKI---DANDKVSKIYPLPHMY 338
KPG TAAL ++ D D V I PLP M
Sbjct: 164 KPGFVTAALKEVCEKDKPDLVVAIGPLPMMN 194
>gnl|CDD|179457 PRK02651, PRK02651, photosystem I subunit VII; Provisional.
Length = 81
Score = 27.3 bits (60), Expect = 3.3
Identities = 9/25 (36%), Positives = 15/25 (60%)
Query: 218 ECILCACCSTSCPSYWWNGEKYLGP 242
+C+ C C T+CP+ + + YLG
Sbjct: 47 DCVGCKRCETACPTDFLSIRVYLGA 71
>gnl|CDD|236890 PRK11274, glcF, glycolate oxidase iron-sulfur subunit; Provisional.
Length = 407
Score = 29.1 bits (66), Expect = 3.7
Identities = 13/30 (43%), Positives = 15/30 (50%), Gaps = 6/30 (20%)
Query: 275 RCHTIMNCTRTCPKG------LNPGRAIAE 298
RC T NC TCP G L+ GR + E
Sbjct: 74 RCLTCRNCETTCPSGVQYGRLLDIGRKVVE 103
>gnl|CDD|233701 TIGR02055, APS_reductase, thioredoxin-dependent adenylylsulfate APS
reductase. This model describes recently identified
adenosine 5'-phosphosulfate (APS) reductase activity
found in sulfate-assimilatory prokaryotes, thus
separating it from the traditionally described
phosphoadenosine 5'-phosphosulfate (PAPS) reductases
found in bacteria and fungi. Homologous to PAPS
reductase in enterobacteria, cyanobacteria, and yeast,
APS reductase here clusters with, and demonstrates
greater homology to plant APS reductase. Additionally,
the presence of two conserved C-terminal motifs
(CCXXRKXXPL & SXGCXXCT) distinguishes APS substrate
specificity and serves as a FeS cluster [Central
intermediary metabolism, Sulfur metabolism].
Length = 191
Score = 28.6 bits (64), Expect = 3.9
Identities = 19/73 (26%), Positives = 31/73 (42%), Gaps = 9/73 (12%)
Query: 293 GRAIAEIKKLLSGLVKKDKPGLDTAALHKIDANDKVSKIYPLPHM-------YVVKDLVP 345
RA+A + ++GL + P A +ID + KI PL Y+ + +P
Sbjct: 88 KRALAGVSAWITGLRRDQSPTRAQAPFLEIDEAFGLVKINPLADWTSEDVWEYIADNELP 147
Query: 346 DMNNFYAQ-YKSI 357
N + + Y SI
Sbjct: 148 Y-NPLHDRGYPSI 159
>gnl|CDD|99815 cd06219, DHOD_e_trans_like1, FAD/NAD binding domain in the electron
transfer subunit of dihydroorotate dehydrogenase-like
proteins. Dihydroorotate dehydrogenases (DHODs) catalyze
the only redox reaction in pyrimidine de novo
biosynthesis. They catalyze the oxidation of
(S)-dihydroorotate to orotate coupled with the reduction
of NAD+. In L. lactis, DHOD B (encoded by pyrDa) is
co-expressed with pyrK and both gene products are
required for full activity, as well as NAD binding.
NAD(P) binding domain of ferredoxin reductase-like
proteins catalyze electron transfer between an
NAD(P)-binding domain of the alpha/beta class and a
discrete (usually N-terminal) domain which vary in
orientation with respect to the NAD(P) binding domain.
The N-terminal domain may contain a flavin prosthetic
group, as in flavoenzymes, or use flavin as a substrate.
Ferredoxin is reduced in the final stage of photosystem
I. The flavoprotein Ferredoxin-NADP+ reductase transfers
electrons from reduced ferredoxin to FAD, forming FADH2
via a semiquinone intermediate, and then transfers a
hydride ion to convert NADP+ to NADPH.
Length = 248
Score = 28.7 bits (65), Expect = 4.0
Identities = 8/19 (42%), Positives = 13/19 (68%)
Query: 26 GICGSCAMNIGGVNTLACI 44
G+CG+C + +GG AC+
Sbjct: 219 GMCGACRVTVGGETKFACV 237
>gnl|CDD|184390 PRK13913, PRK13913, 3-methyladenine DNA glycosylase; Provisional.
Length = 218
Score = 28.7 bits (64), Expect = 4.6
Identities = 15/46 (32%), Positives = 20/46 (43%), Gaps = 11/46 (23%)
Query: 230 PSYWWNG----EKYLGPAVLMQAYRWIIDSRDEKTADRLNQLKDPF 271
P++WW E LG AVL Q ++ E L LK+ F
Sbjct: 21 PAWWWPNALKFEALLG-AVLTQNTKF------EAVEKSLENLKNAF 59
>gnl|CDD|178168 PLN02553, PLN02553, inositol-phosphate phosphatase.
Length = 270
Score = 28.5 bits (64), Expect = 4.9
Identities = 12/23 (52%), Positives = 15/23 (65%), Gaps = 5/23 (21%)
Query: 21 RSCREGICGSCAMNIGGVNTLAC 43
RS R + GSCA+N+ GV AC
Sbjct: 188 RSLR--MSGSCALNLCGV---AC 205
>gnl|CDD|182668 PRK10713, PRK10713, 2Fe-2S ferredoxin YfaE; Provisional.
Length = 84
Score = 27.0 bits (60), Expect = 5.2
Identities = 8/9 (88%), Positives = 8/9 (88%)
Query: 23 CREGICGSC 31
CREG CGSC
Sbjct: 37 CREGYCGSC 45
>gnl|CDD|239744 cd03775, MATH_Ubp21p, Ubiquitin-specific protease 21 (Ubp21p)
family, MATH domain; composed of fungal proteins with
similarity to Ubp21p of fission yeast. Ubp21p is a
deubiquitinating enzyme that may be involved in the
regulation of the protein kinase Prp4p, which controls
the formation of active spliceosomes. Members of this
family are similar to human HAUSP
(Herpesvirus-associated ubiquitin-specific protease) in
that they contain an N-terminal MATH domain and a
C-terminal catalytic protease (C19 family) domain. HAUSP
is also an ubiquitin-specific protease that specifically
catalyzes the deubiquitylation of p53 and MDM2. The MATH
domain of HAUSP contains the binding site for p53 and
MDM2. Similarly, the MATH domain of members in this
family may be involved in substrate binding.
Length = 134
Score = 27.3 bits (61), Expect = 7.1
Identities = 15/66 (22%), Positives = 20/66 (30%), Gaps = 9/66 (13%)
Query: 79 YKSIQRHLGG-PWKIL----GTLTAKNIRSFQLSAAASSAVPAEKPAKYKT---FAIYRW 130
S + GG W+IL G + S L A + FA+
Sbjct: 17 VHSPKFKCGGFEWRILLFPQGNSQTGGV-SIYLEPHPEEEEKAPLDEDWSVCAQFALVIS 75
Query: 131 NPDKPD 136
NP P
Sbjct: 76 NPGDPS 81
>gnl|CDD|183492 PRK12387, PRK12387, formate hydrogenlyase complex iron-sulfur
subunit; Provisional.
Length = 180
Score = 27.7 bits (62), Expect = 7.1
Identities = 8/13 (61%), Positives = 9/13 (69%)
Query: 219 CILCACCSTSCPS 231
CI CA C +CPS
Sbjct: 40 CIGCAACVNACPS 52
>gnl|CDD|233117 TIGR00759, aceE, pyruvate dehydrogenase E1 component, homodimeric
type. Most members of this family are pyruvate
dehydrogenase complex, E1 component. Note: this family
was classified as subfamily rather than equivalog
because it includes a counterexample from Pseudomonas
putida, MdeB, that is active as an E1 component of an
alpha-ketoglutarate dehydrogenase complex rather than a
pyruvate dehydrogase complex. The second pyruvate
dehydrogenase complex E1 protein from Alcaligenes
eutrophus, PdhE, complements an aceE mutant of E. coli
but is not part of a pyruvate dehydrogenase complex
operon, is more similar to the Pseudomonas putida MdeB
than to E. coli AceE, and may have also have a different
primary specificity.
Length = 885
Score = 28.6 bits (64), Expect = 7.1
Identities = 16/42 (38%), Positives = 20/42 (47%), Gaps = 4/42 (9%)
Query: 71 DMNNFYAQYKSIQRHLGGPWKILGTLTAKNIRSFQLSAAASS 112
D YA Y + Q H G P IL AK I+ + + AA S
Sbjct: 362 DPRKVYAAYAAAQEHKGQPTVIL----AKTIKGYGMGDAAES 399
>gnl|CDD|132230 TIGR03186, AKGDH_not_PDH, alpha-ketoglutarate dehydrogenase.
Several bacterial species have a paralog to homodimeric
form of the pyruvate dehydrogenase E1 component (see
model TIGR00759), often encoded next to L-methionine
gamma-lyase gene (mdeA). The member from a strain of
Pseudomonas putida was shown to act on
alpha-ketobutyrate, which is produced by MdeA.This model
serves as an exception model to TIGR00759, as other
proteins hitting TIGR00759 should be identified as the
pyruvate dehydrogenase E1 component.
Length = 889
Score = 28.3 bits (63), Expect = 7.3
Identities = 15/51 (29%), Positives = 20/51 (39%), Gaps = 4/51 (7%)
Query: 71 DMNNFYAQYKSIQRHLGGPWKILGTLTAKNIRSFQLSAAASSAVPAEKPAK 121
D YA Y RH G P IL AK ++ F + A + + K
Sbjct: 362 DARKLYAAYDRAVRHEGRPTVIL----AKTMKGFGMGAIGQGRMTTHQQKK 408
>gnl|CDD|222751 pfam14434, Imm6, Immunity protein Imm6. A predicted immunity
protein, with an alpha+beta fold (mostly alpha helices).
The protein is present in polymorphic toxin systems as
an immediate gene neighbor of the toxin gene.
Length = 121
Score = 26.9 bits (60), Expect = 8.0
Identities = 15/42 (35%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 204 LQSLDDRKKLDGLYECILCACCSTSCPSYWWNGEKYLGPAVL 245
L+D +K + L+ CI+ A T+ +Y GEKYL P +
Sbjct: 63 YMQLEDDEKNEALWNCIINAVAYTAWLAYEKEGEKYL-PETI 103
>gnl|CDD|225131 COG2221, DsrA, Dissimilatory sulfite reductase (desulfoviridin),
alpha and beta subunits [Energy production and
conversion].
Length = 317
Score = 28.1 bits (63), Expect = 8.2
Identities = 13/31 (41%), Positives = 15/31 (48%), Gaps = 1/31 (3%)
Query: 209 DRKKLDGLYE-CILCACCSTSCPSYWWNGEK 238
D KKL CI C C +CP + GEK
Sbjct: 192 DGKKLKIDGSKCIGCGKCIRACPKAAFRGEK 222
>gnl|CDD|224074 COG1152, CdhA, CO dehydrogenase/acetyl-CoA synthase alpha subunit
[Energy production and conversion].
Length = 772
Score = 28.2 bits (63), Expect = 8.3
Identities = 10/46 (21%), Positives = 16/46 (34%), Gaps = 2/46 (4%)
Query: 256 RDEKTADRLNQLKDPFSVYRCHTIMNCTRTCPKGLNPGRAIAEIKK 301
+ K + + +C NC R CP L+ A+ K
Sbjct: 384 KGRKEKPDDEEFME--YARKCTYCGNCMRACPNELDIPEAMEYAAK 427
>gnl|CDD|187807 cd09676, Csy2_I-F, CRISPR/Cas system-associated RAMP superfamily
protein Csy2. CRISPR (Clustered Regularly Interspaced
Short Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
RAMP superfamily protein; predicted Cas5 ortholog.
Length = 292
Score = 27.8 bits (62), Expect = 9.4
Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 10/50 (20%)
Query: 283 TRTCPKGLNPGRAIAEIKKLLSGL---VKKDKPG-------LDTAALHKI 322
TR + L PG A+ + + LL+ +++ P LD AAL I
Sbjct: 153 TRALLRRLLPGFALLDRQDLLAEHTQRLQQTNPQATALDAWLDFAALKHI 202
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
0.320 0.136 0.427
Gapped
Lambda K H
0.267 0.0743 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 18,277,620
Number of extensions: 1694988
Number of successful extensions: 1658
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1605
Number of HSP's successfully gapped: 94
Length of query: 365
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 267
Effective length of database: 6,590,910
Effective search space: 1759772970
Effective search space used: 1759772970
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 (21.8 bits)
S2: 60 (26.9 bits)