RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5769
(365 letters)
>2wdq_B Succinate dehydrogenase iron-sulfur subunit; succinate
dehydrogenase activity, cell inner membrane, trica acid
cycle; HET: FAD HEM CBE; 2.40A {Escherichia coli} PDB:
1nen_B* 2acz_B* 1nek_B* 2wdr_B* 2wdv_B* 2ws3_B* 2wu2_B*
2wu5_B* 2wp9_B*
Length = 238
Score = 299 bits (767), Expect = e-101
Identities = 100/231 (43%), Positives = 133/231 (57%), Gaps = 52/231 (22%)
Query: 124 TFAIYRWNPDKPDEKPTMQEYKVDLN-----------NKIDAND---------------- 156
F+IYR+NPD D+ P MQ+Y ++ + ++ D
Sbjct: 4 EFSIYRYNPDV-DDAPRMQDYTLEADEGRDMMLLDALIQLKEKDPSLSFRRSCREGVCGS 62
Query: 157 ------------------------KVSKIYPLPHMYVVKDLVPDMNNFYAQYKSIQPWLQ 192
K I PLP + V++DLV DM FYAQY+ I+P+L
Sbjct: 63 DGLNMNGKNGLACITPISALNQPGKKIVIRPLPGLPVIRDLVVDMGQFYAQYEKIKPYLL 122
Query: 193 RDKENIGNAQYLQSLDDRKKLDGLYECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWI 252
+ +N ++LQ + R+KLDGLYECILCACCSTSCPS+WWN +K++GPA L+ AYR++
Sbjct: 123 NNGQNPPAREHLQMPEQREKLDGLYECILCACCSTSCPSFWWNPDKFIGPAGLLAAYRFL 182
Query: 253 IDSRDEKTADRLNQLKDPFSVYRCHTIMNCTRTCPKGLNPGRAIAEIKKLL 303
IDSRD +T RL+ L D FSV+RCH+IMNC CPKGLNP RAI IK +L
Sbjct: 183 IDSRDTETDSRLDGLSDAFSVFRCHSIMNCVSVCPKGLNPTRAIGHIKSML 233
Score = 162 bits (411), Expect = 4e-48
Identities = 49/93 (52%), Positives = 66/93 (70%), Gaps = 9/93 (9%)
Query: 1 MVLDALIKIKNEMDPTLTFRRSCREGICGSCAMNIGGVNTLACISKIDANDKVSK---IY 57
M+LDALI++K E DP+L+FRRSCREG+CGS +N+ G N LACI+ I A ++ K I
Sbjct: 34 MLLDALIQLK-EKDPSLSFRRSCREGVCGSDGLNMNGKNGLACITPISALNQPGKKIVIR 92
Query: 58 PLPHMYVVKDLVPDMNNFYAQYKSIQRHLGGPW 90
PLP + V++DLV DM FYAQY+ I+ P+
Sbjct: 93 PLPGLPVIRDLVVDMGQFYAQYEKIK-----PY 120
Score = 73.4 bits (181), Expect = 3e-15
Identities = 19/41 (46%), Positives = 27/41 (65%)
Query: 321 KIDANDKVSKIYPLPHMYVVKDLVPDMNNFYAQYKSIQPWL 361
++ K I PLP + V++DLV DM FYAQY+ I+P+L
Sbjct: 81 ALNQPGKKIVIRPLPGLPVIRDLVVDMGQFYAQYEKIKPYL 121
>2bs2_B Quinol-fumarate reductase iron-sulfur subunit B; 2Fe-2S, 3Fe-4S,
4Fe-4S, citric acid cycle, dihaem cytochrome B; HET: FAD
HEM LMT; 1.78A {Wolinella succinogenes} SCOP: a.1.2.1
d.15.4.2 PDB: 2bs3_B* 1e7p_B* 1qlb_B* 2bs4_B*
Length = 241
Score = 293 bits (753), Expect = 2e-99
Identities = 52/235 (22%), Positives = 94/235 (40%), Gaps = 52/235 (22%)
Query: 120 AKYKTFAIYRWNPDKPDEKPTMQEYKVDLN---------NKI------------------ 152
+ T +++++P KP QEYK++ N I
Sbjct: 2 GRMLTIRVFKYDPQSAVSKPHFQEYKIEEAPSMTIFIVLNMIRETYDPDLNFDFVCRAGI 61
Query: 153 ---------------------DANDKVSKIYPLPHMYVVKDLVPDMNNFY-AQYKSIQPW 190
D D V + PLP ++KDL D N++ + ++ W
Sbjct: 62 CGSCGMMINGRPSLACRTLTKDFEDGVITLLPLPAFKLIKDLSVDTGNWFNGMSQRVESW 121
Query: 191 LQRDKE-NIGNAQYLQSLDDRKKLDGLYECILCACCSTSCPSYWWNGEKYLGPAVLMQAY 249
+ KE +I + + +++ L CI C CC +C + + ++G A L +
Sbjct: 122 IHAQKEHDISKLEERIEPEVAQEVFELDRCIECGCCIAACGTKIMRED-FVGAAGLNRVV 180
Query: 250 RWIIDSRDEKTADRLNQ-LKDPFSVYRCHTIMNCTRTCPKGLNPGRAIAEIKKLL 303
R++ID DE+T + + + D V+ C T++ C CPK L IA +++ +
Sbjct: 181 RFMIDPHDERTDEDYYELIGDDDGVFGCMTLLACHDVCPKNLPLQSKIAYLRRKM 235
Score = 163 bits (416), Expect = 6e-49
Identities = 32/92 (34%), Positives = 44/92 (47%), Gaps = 7/92 (7%)
Query: 1 MVLDALIKIKNEMDPTLTFRRSCREGICGSCAMNIGGVNTLACISKI-DANDKVSKIYPL 59
+ L I+ DP L F CR GICGSC M I G +LAC + D D V + PL
Sbjct: 35 TIFIVLNMIRETYDPDLNFDFVCRAGICGSCGMMINGRPSLACRTLTKDFEDGVITLLPL 94
Query: 60 PHMYVVKDLVPDMNNFY-AQYKSIQRHLGGPW 90
P ++KDL D N++ + ++ W
Sbjct: 95 PAFKLIKDLSVDTGNWFNGMSQRVE-----SW 121
Score = 71.9 bits (177), Expect = 1e-14
Identities = 12/43 (27%), Positives = 21/43 (48%), Gaps = 1/43 (2%)
Query: 323 DANDKVSKIYPLPHMYVVKDLVPDMNNFY-AQYKSIQPWLPRS 364
D D V + PLP ++KDL D N++ + ++ W+
Sbjct: 83 DFEDGVITLLPLPAFKLIKDLSVDTGNWFNGMSQRVESWIHAQ 125
>1kf6_B Fumarate reductase iron-sulfur protein; respiration, fumarate
reductace, succinate dehydrogenase, CO quinol, quinone,
oxidoreductase; HET: FAD HQO CE1 1PE; 2.70A {Escherichia
coli} SCOP: a.1.2.1 d.15.4.2 PDB: 1kfy_B* 1l0v_B*
2b76_B* 3cir_B* 3p4p_B* 3p4q_B* 3p4r_B* 3p4s_B*
Length = 243
Score = 292 bits (751), Expect = 4e-99
Identities = 51/240 (21%), Positives = 85/240 (35%), Gaps = 49/240 (20%)
Query: 121 KYKTFAIYRWNPDKPDEKPTMQEYKVDLNN------------------------------ 150
K + R+NP+ D P Y+V +
Sbjct: 4 KNLKIEVVRYNPEV-DTAPHSAFYEVPYDATTSLLDALGYIKDNLAPDLSYRWSCRMAIC 62
Query: 151 -----------------KIDANDKVSKIYPLPHMYVVKDLVPDMNNFYAQYKSIQPWLQR 193
+ K+ L + + +DLV DM +F ++I+P++
Sbjct: 63 GSCGMMVNNVPKLACKTFLRDYTDGMKVEALANFPIERDLVVDMTHFIESLEAIKPYIIG 122
Query: 194 DKENIGNAQYLQSLDDRKKLDGLYECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWII 253
+ +Q+ K CI C C +CP + N E ++GPA + A+R+
Sbjct: 123 NSRTADQGTNIQTPAQMAKYHQFSGCINCGLCYAACPQFGLNPE-FIGPAAITLAHRYNE 181
Query: 254 DSRDEKTADRLNQLKDPFSVYRCHTIMNCTRTCPKGLNPGRAIAEIKKLLSGLVKKDKPG 313
DSRD +R+ QL V+ C + C+ CPK ++P AI + K S
Sbjct: 182 DSRDHGKKERMAQLNSQNGVWSCTFVGYCSEVCPKHVDPAAAIQQGKVESSKDFLIATLK 241
Score = 170 bits (433), Expect = 2e-51
Identities = 32/90 (35%), Positives = 49/90 (54%), Gaps = 5/90 (5%)
Query: 1 MVLDALIKIKNEMDPTLTFRRSCREGICGSCAMNIGGVNTLACISKIDANDKVSKIYPLP 60
+LDAL IK+ + P L++R SCR ICGSC M + V LAC + + K+ L
Sbjct: 35 SLLDALGYIKDNLAPDLSYRWSCRMAICGSCGMMVNNVPKLACKTFLRDYTDGMKVEALA 94
Query: 61 HMYVVKDLVPDMNNFYAQYKSIQRHLGGPW 90
+ + +DLV DM +F ++I+ P+
Sbjct: 95 NFPIERDLVVDMTHFIESLEAIK-----PY 119
Score = 76.5 bits (189), Expect = 3e-16
Identities = 13/54 (24%), Positives = 25/54 (46%), Gaps = 2/54 (3%)
Query: 311 KPGLDTAALHKIDANDKVSKIYPLPHMYVVKDLVPDMNNFYAQYKSIQPWLPRS 364
P L A + K+ L + + +DLV DM +F ++I+P++ +
Sbjct: 72 VPKL--ACKTFLRDYTDGMKVEALANFPIERDLVVDMTHFIESLEAIKPYIIGN 123
>3vr8_B Iron-sulfur subunit of succinate dehydrogenase; membrane protein,
reductase, mitochondria MEMB oxidoreductase; HET: FAD
HEM RQX EPH; 2.81A {Ascaris suum} PDB: 3vrb_B*
Length = 282
Score = 293 bits (752), Expect = 6e-99
Identities = 129/263 (49%), Positives = 161/263 (61%), Gaps = 50/263 (19%)
Query: 107 SAAASSAVPAEKPAKYKTFAIYRWNPDKPDEKPTMQEYKVDLN----------NKI---- 152
A+++ A + KTF IYR+NP++P KP +Q++ VDL+ KI
Sbjct: 20 RYASAATAAAPTGKRIKTFEIYRFNPEEPGAKPKLQKFDVDLDKCGTMVLDALIKIKNEV 79
Query: 153 -----------------------------------DANDKVSKIYPLPHMYVVKDLVPDM 177
K +KIYPLPHM+V+KDLVPDM
Sbjct: 80 DPTLTFRRSCREGICGSCAMNIAGENTLACICNIDQNTSKTTKIYPLPHMFVIKDLVPDM 139
Query: 178 NNFYAQYKSIQPWLQRDKE-NIGNAQYLQSLDDRKKLDGLYECILCACCSTSCPSYWWNG 236
N FYAQY SIQPWLQ+ + N+G Q QS+ +++KLDGLYECILCACCS SCPSYWWN
Sbjct: 140 NLFYAQYASIQPWLQKKTKINLGEKQQYQSIKEQEKLDGLYECILCACCSASCPSYWWNA 199
Query: 237 EKYLGPAVLMQAYRWIIDSRDEKTADRLNQLKDPFSVYRCHTIMNCTRTCPKGLNPGRAI 296
+KYLGPAVLMQAYRWIIDSRD+ A+RL +++D FS ++CHTIMNCT+TCPK LNP RAI
Sbjct: 200 DKYLGPAVLMQAYRWIIDSRDDSAAERLARMQDGFSAFKCHTIMNCTKTCPKHLNPARAI 259
Query: 297 AEIKKLLSGLVKKDKPGLDTAAL 319
EIK LL+ + K P A
Sbjct: 260 GEIKMLLTKMKTKPAPLPTPANF 282
Score = 157 bits (398), Expect = 7e-46
Identities = 72/91 (79%), Positives = 76/91 (83%), Gaps = 6/91 (6%)
Query: 1 MVLDALIKIKNEMDPTLTFRRSCREGICGSCAMNIGGVNTLACISKIDAN-DKVSKIYPL 59
MVLDALIKIKNE+DPTLTFRRSCREGICGSCAMNI G NTLACI ID N K +KIYPL
Sbjct: 67 MVLDALIKIKNEVDPTLTFRRSCREGICGSCAMNIAGENTLACICNIDQNTSKTTKIYPL 126
Query: 60 PHMYVVKDLVPDMNNFYAQYKSIQRHLGGPW 90
PHM+V+KDLVPDMN FYAQY SIQ PW
Sbjct: 127 PHMFVIKDLVPDMNLFYAQYASIQ-----PW 152
Score = 73.3 bits (180), Expect = 5e-15
Identities = 29/39 (74%), Positives = 32/39 (82%)
Query: 323 DANDKVSKIYPLPHMYVVKDLVPDMNNFYAQYKSIQPWL 361
K +KIYPLPHM+V+KDLVPDMN FYAQY SIQPWL
Sbjct: 115 QNTSKTTKIYPLPHMFVIKDLVPDMNLFYAQYASIQPWL 153
>2h88_B Succinate dehydrogenase IP subunit; complex II, membrane protein,
heme protein, iron sulfur PROT cytochrome B,
oxidoreductase; HET: FAD BHG HEM UNL; 1.74A {Gallus
gallus} PDB: 1yq4_B* 1yq3_B* 2fbw_B* 2h89_B* 2wqy_B*
3aef_B* 3abv_B* 3ae1_B* 3ae3_B* 3ae2_B* 3ae5_B* 3ae6_B*
3ae7_B* 3ae8_B* 3ae9_B* 3aea_B* 3aeb_B* 3aec_B* 3aed_B*
3aee_B* ...
Length = 252
Score = 278 bits (714), Expect = 2e-93
Identities = 141/251 (56%), Positives = 170/251 (67%), Gaps = 50/251 (19%)
Query: 112 SAVPAEKPAKYKTFAIYRWNPDKPDEKPTMQEYKVDLN----------NKI--------- 152
+ A ++ K F+IYRW+PDKP +KP MQ Y+VDLN KI
Sbjct: 1 AQTAAAATSRIKKFSIYRWDPDKPGDKPRMQTYEVDLNKCGPMVLDALIKIKNELDSTLT 60
Query: 153 ------------------------------DANDKVSKIYPLPHMYVVKDLVPDMNNFYA 182
K +KIYPLPHMYVVKDLVPD++NFYA
Sbjct: 61 FRRSCREGICGSCAMNIAGGNTLACTKKIDPDLSKTTKIYPLPHMYVVKDLVPDLSNFYA 120
Query: 183 QYKSIQPWLQRDKEN-IGNAQYLQSLDDRKKLDGLYECILCACCSTSCPSYWWNGEKYLG 241
QYKSI+P+L++ E+ G QYLQS++DR+KLDGLYECILCACCSTSCPSYWWNG+KYLG
Sbjct: 121 QYKSIEPYLKKKDESKQGKEQYLQSIEDRQKLDGLYECILCACCSTSCPSYWWNGDKYLG 180
Query: 242 PAVLMQAYRWIIDSRDEKTADRLNQLKDPFSVYRCHTIMNCTRTCPKGLNPGRAIAEIKK 301
PAVLMQAYRW+IDSRD+ T +RL QL+DPFS+YRCHTIMNCTRTCPKGLNPG+AIAEIKK
Sbjct: 181 PAVLMQAYRWMIDSRDDYTEERLAQLQDPFSLYRCHTIMNCTRTCPKGLNPGKAIAEIKK 240
Query: 302 LLSGLVKKDKP 312
+++ +K
Sbjct: 241 MMATYKEKAAA 251
Score = 149 bits (379), Expect = 2e-43
Identities = 70/91 (76%), Positives = 77/91 (84%), Gaps = 6/91 (6%)
Query: 1 MVLDALIKIKNEMDPTLTFRRSCREGICGSCAMNIGGVNTLACISKIDAN-DKVSKIYPL 59
MVLDALIKIKNE+D TLTFRRSCREGICGSCAMNI G NTLAC KID + K +KIYPL
Sbjct: 43 MVLDALIKIKNELDSTLTFRRSCREGICGSCAMNIAGGNTLACTKKIDPDLSKTTKIYPL 102
Query: 60 PHMYVVKDLVPDMNNFYAQYKSIQRHLGGPW 90
PHMYVVKDLVPD++NFYAQYKSI+ P+
Sbjct: 103 PHMYVVKDLVPDLSNFYAQYKSIE-----PY 128
Score = 66.3 bits (162), Expect = 9e-13
Identities = 29/39 (74%), Positives = 34/39 (87%)
Query: 323 DANDKVSKIYPLPHMYVVKDLVPDMNNFYAQYKSIQPWL 361
K +KIYPLPHMYVVKDLVPD++NFYAQYKSI+P+L
Sbjct: 91 PDLSKTTKIYPLPHMYVVKDLVPDLSNFYAQYKSIEPYL 129
>3kwl_A Uncharacterized protein; putative oxidoreductase, multidomain,
unknown function; 1.94A {Helicobacter pylori}
Length = 514
Score = 147 bits (372), Expect = 4e-40
Identities = 34/268 (12%), Positives = 67/268 (25%), Gaps = 62/268 (23%)
Query: 110 ASSAVP--AEKPAKYKTFAIYRWNPDKPDEKPTMQEYKVDLNN----------------- 150
+S VP + ++R+ +K D P + Y ++
Sbjct: 10 SSGLVPRGSHMSVLKLHVKVFRFETNK-DYNPAYESYFLEYQEDQYLLDLLKQLKGVSYS 68
Query: 151 --------------------KIDANDKVSKIYPLPHMYVVKDLVPDMNNFYAQYKSIQPW 190
+ K + PL Y +KDL+ D Y+
Sbjct: 69 ENIALKINQIAVFEDAKVSDLVAFFSKEWVLDPLSKRYALKDLMIDEKAVLKNYEDFFKQ 128
Query: 191 LQRDKENIGNAQYLQSLDDRKKLDGLYECILCACCSTSCPSYWWNGEKYLGPAVLMQAYR 250
+ + ++++L+ + P KYLG +
Sbjct: 129 VPYITK-----------GEKEELEKFI------QINFINPQT---NPKYLGDGFFLYVKW 168
Query: 251 WIIDSRDEKTADRLNQLKDPFSVYRCHTIMNCTRTCPKGLNPGRAIAEIKKLLSGLVKKD 310
+ + L + P S + N I E++++L+ K
Sbjct: 169 L-MKRYPTERDRLLEMISQPESGVMNFLSV-AHYLYKNDDNIDHEIYELQEILTNSKIKP 226
Query: 311 KPGLDTAALHKIDANDKVSKIYPLPHMY 338
L + K P
Sbjct: 227 WKDFSKNLLSLFQYHSNPPKTPNPPKTC 254
Score = 92.4 bits (229), Expect = 9e-21
Identities = 24/158 (15%), Positives = 45/158 (28%), Gaps = 26/158 (16%)
Query: 1 MVLDALIKIKNEMDPTLTFRRSCREGICGSCAMNIGGVNTLACISKIDANDKVSK---IY 57
+LD L ++K +++ + A+ I + D SK +
Sbjct: 54 YLLDLLKQLKG-----VSYSENI--------ALKINQIAVFEDAKVSDLVAFFSKEWVLD 100
Query: 58 PLPHMYVVKDLVPDMNNFYAQYKSIQRHLGGPWKILGTLTAKNIRSFQLSAAASSAVPAE 117
PL Y +KDL+ D Y+ K + +T + + P
Sbjct: 101 PLSKRYALKDLMIDEKAVLKNYEDFF-------KQVPYITKGEKEELEKFIQINFINPQT 153
Query: 118 KPAKYKTFAI---YRWNPDKPDEKPTMQEYKVDLNNKI 152
P P E+ + E + +
Sbjct: 154 NPKYLGDGFFLYVKWLMKRYPTERDRLLEMISQPESGV 191
Score = 58.1 bits (140), Expect = 2e-09
Identities = 11/53 (20%), Positives = 17/53 (32%), Gaps = 1/53 (1%)
Query: 311 KPGL-DTAALHKIDANDKVSKIYPLPHMYVVKDLVPDMNNFYAQYKSIQPWLP 362
D + K + PL Y +KDL+ D Y+ +P
Sbjct: 78 IAVFEDAKVSDLVAFFSKEWVLDPLSKRYALKDLMIDEKAVLKNYEDFFKQVP 130
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 47.9 bits (113), Expect = 4e-06
Identities = 47/345 (13%), Positives = 99/345 (28%), Gaps = 116/345 (33%)
Query: 2 VLDALIKIK------NEMDPTLTFRRSCREGICGSCAMNIGGVNTLACISKIDAND---K 52
V D L + TLT + + D +
Sbjct: 277 VTDFLSAATTTHISLDHHSMTLTPDEV--KSLLLKYL-------------DCRPQDLPRE 321
Query: 53 VSKIYPLPHMYVVKDLVPDMNNFYAQYKSIQRHLGGPWKILGTLTAKNIRSF--QLSAAA 110
V P + ++ + + D + +K + K+ I S L
Sbjct: 322 VLTTNPR-RLSIIAESIRDGLATWDNWKHVNC-----DKL-----TTIIESSLNVLE--- 367
Query: 111 SSAVPAEKPAKYKTFAIYR-------------WNPDKPDEKPTM---------------- 141
PAE + +++ W + +
Sbjct: 368 ----PAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKE 423
Query: 142 ---------QEYKVDLNNKIDANDKVSKIYPLPHMYVVKDLVPD-MNNFYAQY-----KS 186
E KV L N+ + + Y +P + DL+P ++ ++ + K+
Sbjct: 424 STISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKN 483
Query: 187 IQPWLQRDKENIGNAQYLQSLDDR---KKLDGLYECILCACCSTSCPSYWWNGEKYLGPA 243
I+ ++ + + LD R +K+ S WN +
Sbjct: 484 IE---HPERMTLFRMVF---LDFRFLEQKI-----------RHDSTA---WNASGSILNT 523
Query: 244 VL-MQAYR-WIIDSRDEKTADRLNQLKDPFSVYRCHTIMNCTRTC 286
+ ++ Y+ +I D+ D K +N + D F + + + C++
Sbjct: 524 LQQLKFYKPYICDN-DPKYERLVNAILD-F-LPKIEENLICSKYT 565
Score = 39.8 bits (92), Expect = 0.001
Identities = 48/335 (14%), Positives = 98/335 (29%), Gaps = 115/335 (34%)
Query: 48 DANDKVSKIY---PLPHMYVVKDLVPDMNNFYAQYKSIQRHLGGPWKILGTLTAKNIRSF 104
++ ++ P + +V V + KIL T K + +
Sbjct: 229 SIQAELRRLLKSKPYENCLLVLLNVQN--------AKAWNAFNLSCKILLTTRFKQV-TD 279
Query: 105 QLSAAASSAVPAEKPAKYKTFAIYRWNPDKPDEKPTMQEYKVDLNNKIDAND---KVSKI 161
LSAA ++ + + + T PDE ++ K L+ + D +V
Sbjct: 280 FLSAATTTHISLDHHSM--TLT--------PDEVKSLLL-KY-LDCRPQ--DLPREVLTT 325
Query: 162 YPLPHMYVVKDLVPDMNNFYAQYKSIQPWLQRDKENIGNA-----QYLQSLDDRKKLDGL 216
P + ++ + + D + W + + + L+ + RK D L
Sbjct: 326 NPR-RLSIIAESIRDGLA------TWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRL 378
Query: 217 Y---------ECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSRDEKTADRLNQL 267
+L W++ K ++L++
Sbjct: 379 SVFPPSAHIPTILLS--------LIWFDVIKSD----------------VMVVVNKLHKY 414
Query: 268 ----KDPF-SVYRCHTIMNCTRTCPKGLNPGRAIAEIKKLLSGLVKKDKPGLDTAALHK- 321
K P S +I L VK + + ALH+
Sbjct: 415 SLVEKQPKESTISIPSI----------------------YLELKVKLE----NEYALHRS 448
Query: 322 -IDANDKVSKIYPLPHMYVVKDLVPD-MNNFYAQY 354
+D Y +P + DL+P ++ ++ +
Sbjct: 449 IVDH-------YNIPKTFDSDDLIPPYLDQYFYSH 476
Score = 39.5 bits (91), Expect = 0.002
Identities = 27/154 (17%), Positives = 51/154 (33%), Gaps = 35/154 (22%)
Query: 166 HMYVVKDLVPD-MNNFYAQY--KSIQPWLQRDKENIGNAQY---LQSLDDRKKLDGLYEC 219
H Y KD++ + F + K +Q K + + + S D L+
Sbjct: 14 HQYQYKDILSVFEDAFVDNFDCKDVQDMP---KSILSKEEIDHIIMSKDAVSGTLRLFWT 70
Query: 220 ILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDS-----RD--------EKTADRL-- 264
+ S +K++ VL Y++++ R + DRL
Sbjct: 71 L----LSKQEEMV----QKFVE-EVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYN 121
Query: 265 -NQLKDPFSVYRCHTIMNCTRTCPKGLNPGRAIA 297
NQ+ ++V R + R L P + +
Sbjct: 122 DNQVFAKYNVSRLQPYLK-LRQALLELRPAKNVL 154
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 46.6 bits (110), Expect = 1e-05
Identities = 40/262 (15%), Positives = 64/262 (24%), Gaps = 113/262 (43%)
Query: 96 LTAKNIRSFQLSAAASSAVPAEKPAKYKTFAI--Y---RWNPDKPDEKPTMQEYKVDLNN 150
L +I + AA + I Y R +P +K + L
Sbjct: 96 LEGNDIHAL----AAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKS----NSALFR 147
Query: 151 KIDANDKVSKIYP--------------LPHMY-----VVKDLV--------------PDM 177
+ +++ L +Y +V DL+ D
Sbjct: 148 A--VGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDA 205
Query: 178 NNFYAQYKSIQPWLQRDKENIGNAQYLQSLDDRKKLDGLYECILCACCSTSCPSYWWNGE 237
+ Q +I WL + N + YL SCP
Sbjct: 206 EKVFTQGLNILEWL-ENPSNTPDKDYL------------------LSIPISCP------- 239
Query: 238 KYLGPAVLMQAYRWIIDSRDEKTADRLNQLKDPFSVYRCHTIMNCTRTCPKGLNPGRAIA 297
+I + QL H ++ G PG
Sbjct: 240 --------------LIG---------VIQL--------AHYVVTAKLL---GFTPG---- 261
Query: 298 EIKKLLSGLVKKDKPGLDTAAL 319
E++ L G + GL TA
Sbjct: 262 ELRSYLKGATGHSQ-GLVTAVA 282
Score = 36.6 bits (84), Expect = 0.016
Identities = 39/220 (17%), Positives = 71/220 (32%), Gaps = 80/220 (36%)
Query: 77 AQYKSIQRHLG-GPWKIL----GTLT-AKNIRSFQLSAAASSAVPAEK---PAKYKTFAI 127
A Y + LG P ++ G ++ + ++A A + + + + K +
Sbjct: 247 AHYVVTAKLLGFTPGELRSYLKGATGHSQGL----VTAVAIAETDSWESFFVSVRKAITV 302
Query: 128 YRW----------NPDKPDEKPTMQEYKVDLNNKIDANDKVSKIYPLPHMYVVKDLVPDM 177
+ N P P++ E ++ N + P P M + +L
Sbjct: 303 LFFIGVRCYEAYPNTSLP---PSILEDSLENNEGV----------PSP-MLSISNL---- 344
Query: 178 NNFYAQYKSIQPWLQRDKENIGNAQYLQSLDDRKKLD-GLYECILCACCSTSCPSYWWNG 236
+ +Q ++ +K N L K+++ L NG
Sbjct: 345 -----TQEQVQDYV--NKTN-------SHLPAGKQVEISLV-----------------NG 373
Query: 237 EKYL---GPAV-LMQAYRWIIDSRDEKTADRLNQLKDPFS 272
K L GP L Y + R K L+Q + PFS
Sbjct: 374 AKNLVVSGPPQSL---YGLNLTLRKAKAPSGLDQSRIPFS 410
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 33.0 bits (74), Expect = 0.059
Identities = 11/29 (37%), Positives = 14/29 (48%), Gaps = 5/29 (17%)
Query: 298 EIKKLLSGLVKKDKPGLDTA-ALHKIDAN 325
+KKL + L K D+A AL I A
Sbjct: 21 ALKKLQASL-KLYAD--DSAPAL-AIKAT 45
>2pia_A Phthalate dioxygenase reductase; HET: FMN; 2.00A {Burkholderia
cepacia} SCOP: b.43.4.2 c.25.1.2 d.15.4.2
Length = 321
Score = 33.7 bits (78), Expect = 0.080
Identities = 7/11 (63%), Positives = 7/11 (63%)
Query: 22 SCREGICGSCA 32
SC G CGSC
Sbjct: 271 SCESGTCGSCK 281
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 32.8 bits (74), Expect = 0.096
Identities = 15/85 (17%), Positives = 32/85 (37%), Gaps = 17/85 (20%)
Query: 132 PDKPDEKP-TM----QEYKVDLNNKIDANDKVSKIYPLPHMYVVKDLVPDMNNFYAQYKS 186
D+ ++P ++ +E + L DA KV + + D+ + +
Sbjct: 77 ADRLTQEPESIRKWREEQRKRLQEL-DAASKVMEQE------WREKAKKDLEEWNQRQSE 129
Query: 187 IQPWLQRDKENIGNA--QYLQSLDD 209
Q ++++K N A + Q D
Sbjct: 130 -Q--VEKNKINNRIADKAFYQQPDA 151
>1doi_A 2Fe-2S ferredoxin; halophilic protein, redox protein,
iron-sulfur, electron transport; 1.90A {Haloarcula
marismortui} SCOP: d.15.4.1 PDB: 1e0z_A* 1e10_A
Length = 128
Score = 30.9 bits (70), Expect = 0.27
Identities = 7/14 (50%), Positives = 9/14 (64%)
Query: 22 SCREGICGSCAMNI 35
SCR G C +CA +
Sbjct: 62 SCRAGACANCAAIV 75
>1vlb_A Aldehyde oxidoreductase; iron-sulphur cluster; HET: PCD; 1.28A
{Desulfovibrio gigas} SCOP: a.56.1.1 d.15.4.2 d.41.1.1
d.133.1.1 PDB: 1sij_A* 1zcs_A* 3fah_A* 3fc4_A* 3l4p_A*
Length = 907
Score = 32.3 bits (74), Expect = 0.29
Identities = 9/28 (32%), Positives = 18/28 (64%)
Query: 20 RRSCREGICGSCAMNIGGVNTLACISKI 47
+ C +G CG+C++ + G AC++K+
Sbjct: 37 KVGCEQGQCGACSVILDGKVVRACVTKM 64
>1jq4_A Methane monooxygenase component C; [2Fe-2S] ferredoxin,
oxidoreductase; NMR {Methylococcus capsulatus str}
SCOP: d.15.4.2
Length = 98
Score = 29.5 bits (67), Expect = 0.45
Identities = 7/11 (63%), Positives = 8/11 (72%)
Query: 22 SCREGICGSCA 32
SCREG C +C
Sbjct: 41 SCREGGCATCK 51
>1dgj_A Aldehyde oxidoreductase; beta half-barrel, four-helix bundle,
beta barrel; HET: MCN; 2.80A {Desulfovibrio
desulfuricans} SCOP: a.56.1.1 d.15.4.2 d.41.1.1
d.133.1.1
Length = 907
Score = 31.5 bits (72), Expect = 0.55
Identities = 10/28 (35%), Positives = 16/28 (57%)
Query: 20 RRSCREGICGSCAMNIGGVNTLACISKI 47
+ C +G CG+C + + G ACI K+
Sbjct: 37 KVGCGKGQCGACTVILDGKVVRACIIKM 64
>1awd_A Ferredoxin; electron transport, eukaryotic, green ALGA, electron
transfer, metalloprotein; 1.40A {'chlorella' fusca}
SCOP: d.15.4.1
Length = 94
Score = 28.7 bits (65), Expect = 0.82
Identities = 8/11 (72%), Positives = 8/11 (72%)
Query: 22 SCREGICGSCA 32
SCR G C SCA
Sbjct: 36 SCRAGACSSCA 46
>3cf4_A Acetyl-COA decarboxylase/synthase alpha subunit; methanomicrobia,
iron-nikel-sulfur, 4Fe-NI-4S, oxidoreductas; 2.00A
{Methanosarcina barkeri}
Length = 807
Score = 30.5 bits (68), Expect = 0.90
Identities = 17/110 (15%), Positives = 33/110 (30%), Gaps = 15/110 (13%)
Query: 208 DDRKKLDGLY-ECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSRDEKTADRLNQ 266
D + ++ CI C C C E + + A + I + + A R
Sbjct: 443 GDFSYFEEIHDTCIGCRRCEQVCKK-----EIPILNVIEKIAQKQIAEEKGLMRAGRGQV 497
Query: 267 LKDPFSVYRCHTIMNCTRT------CPKGLNPGRAIAEIKKLLSGLVKKD 310
+ +M T CP N ++ + +K++
Sbjct: 498 SDAEIRAEGLNLVMGTTPGIIAIIGCP---NYAGGTKDVYYIAEEFLKRN 544
Score = 29.8 bits (66), Expect = 1.6
Identities = 12/78 (15%), Positives = 19/78 (24%)
Query: 224 CCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSRDEKTADRLNQLKDPFSVYRCHTIMNCT 283
S P LG + + V +C C
Sbjct: 365 LKSGKIPGCVMLDYDKLGELCVRLTMEMAPIRDAAGITALPTDEELVNMVAKCADCGACL 424
Query: 284 RTCPKGLNPGRAIAEIKK 301
CP+ ++ A+ KK
Sbjct: 425 LACPEEIDIPEAMGFAKK 442
>1a70_A Ferredoxin; iron-sulfur protein, photosynthesis, electron
transport; 1.70A {Spinacia oleracea} SCOP: d.15.4.1
PDB: 1pfd_A
Length = 97
Score = 28.8 bits (65), Expect = 0.90
Identities = 8/11 (72%), Positives = 8/11 (72%)
Query: 22 SCREGICGSCA 32
SCR G C SCA
Sbjct: 38 SCRAGSCSSCA 48
>1frd_A Heterocyst [2Fe-2S] ferredoxin; electron transport; 1.70A {Nostoc
SP} SCOP: d.15.4.1
Length = 98
Score = 28.4 bits (64), Expect = 0.97
Identities = 6/14 (42%), Positives = 7/14 (50%)
Query: 22 SCREGICGSCAMNI 35
SC G C SC +
Sbjct: 40 SCHSGSCSSCVGKV 53
>1krh_A Benzoate 1,2-dioxygenase reductase; alpha-beta, FAD-binding,
ferredoxin, NADH-binding, oxidoreductase; HET: FAD;
1.50A {Acinetobacter SP} SCOP: b.43.4.2 c.25.1.2
d.15.4.2
Length = 338
Score = 30.0 bits (68), Expect = 1.1
Identities = 19/135 (14%), Positives = 35/135 (25%), Gaps = 20/135 (14%)
Query: 2 VLDALIKIKNEMDPTLTFRRSCREGICGSCAMNI--GGVNTLACISKIDA--NDKVSKIY 57
+ DA + + + CREG CG+C G + DA ++ + Y
Sbjct: 26 LSDAAYRQQ------INIPMDCREGECGTCRAFCESGNYDMPEDNYIEDALTPEEAQQGY 79
Query: 58 PLPHMYVVKDLVPDMNNFYAQYKSIQRHLGGPWKILGTLTAK-----NIRSFQLSAAASS 112
L ++ GTL + +F +
Sbjct: 80 VLACQCRPTSDAVFQIQASSEVCKT-----KIHHFEGTLARVENLSDSTITFDIQLDDGQ 134
Query: 113 AVPAEKPAKYKTFAI 127
+Y +
Sbjct: 135 PDIHFLAGQYVNVTL 149
>1iue_A Ferredoxin; electron transport, iron-sulfur; 1.70A {Plasmodium
falciparum} SCOP: d.15.4.1
Length = 98
Score = 28.4 bits (64), Expect = 1.1
Identities = 7/11 (63%), Positives = 8/11 (72%)
Query: 22 SCREGICGSCA 32
SCR G C +CA
Sbjct: 38 SCRGGSCSTCA 48
>1frr_A Ferredoxin I; electron transfer(iron-sulfur protein); 1.80A
{Equisetum arvense} SCOP: d.15.4.1
Length = 95
Score = 28.4 bits (64), Expect = 1.2
Identities = 7/11 (63%), Positives = 7/11 (63%)
Query: 22 SCREGICGSCA 32
SCR G C SC
Sbjct: 37 SCRAGACSSCL 47
>1czp_A Ferredoxin I; [2Fe-2S] protein, crystal reduced with dithionite,
electron; 1.17A {Nostoc SP} SCOP: d.15.4.1 PDB: 1ewy_C*
1fxa_A 1qt9_A 1qog_A 1j7c_A 1j7b_A 1qof_A 1qob_A 1j7a_A
1qoa_A 1rfk_A 3p63_A 4fxc_A 3ab5_A 1roe_A 2cjn_A 2cjo_A
1off_A 1dox_A 1doy_A ...
Length = 98
Score = 28.4 bits (64), Expect = 1.3
Identities = 9/20 (45%), Positives = 12/20 (60%), Gaps = 2/20 (10%)
Query: 22 SCREGICGSCAMNI--GGVN 39
SCR G C +CA + G V+
Sbjct: 40 SCRAGACSTCAGKLVSGTVD 59
>1wri_A Ferredoxin II, ferredoxin; electron transport; 1.20A {Equisetum
arvense} SCOP: d.15.4.1
Length = 93
Score = 28.0 bits (63), Expect = 1.3
Identities = 5/11 (45%), Positives = 7/11 (63%)
Query: 22 SCREGICGSCA 32
SC+ G C +C
Sbjct: 36 SCQAGACSTCL 46
>2zxd_A Alpha-L-fucosidase, putative; TIM barrel, hydrolase; HET: ZXD;
2.15A {Thermotoga maritima} PDB: 2zwy_A* 2zx5_A* 2zx6_A*
2zx7_A* 2zwz_A* 2zx9_A* 2zxa_A* 2zxb_A* 2zx8_A* 1hl9_A*
1hl8_A* 1odu_A* 2wsp_A*
Length = 455
Score = 29.3 bits (65), Expect = 2.2
Identities = 17/125 (13%), Positives = 33/125 (26%), Gaps = 5/125 (4%)
Query: 128 YRWNPDKPDEKPTMQEYKVDLNNKI-DANDKVSKIYPLPHMYVVKDLVPDMNNFYAQYKS 186
R+ D +P EY ++ + D M + D+ +A Y +
Sbjct: 185 IRYPEDLSYIRPNTYEYADYAYKQVMELVDLYLPDVLWNDMGWPEKGKEDLKYLFAYYYN 244
Query: 187 IQPWLQRDKENIGNAQYLQSLDDRKKLDGLYECILCACCSTSCPSYWWN----GEKYLGP 242
P + ++ + G S+ +N E L
Sbjct: 245 KHPEGSVNDRWGVPHWDFKTAEYHVNYPGDLPGYKWEFTRGIGLSFGYNRNEGPEHMLSV 304
Query: 243 AVLMQ 247
L+
Sbjct: 305 EQLVY 309
>3ha9_A Uncharacterized thioredoxin-like protein; PSI, MCSG, structural G
midwest center for structural genomics, protein
structure initiative; 1.70A {Aeropyrum pernix}
Length = 165
Score = 27.5 bits (61), Expect = 5.7
Identities = 7/104 (6%), Positives = 27/104 (25%), Gaps = 26/104 (25%)
Query: 70 PDMNNFYAQYKSIQRHLGGPWKILGTLTAKNIRSFQLSAAASSAVPAEKPAKYKTFAIYR 129
++ +Y+ I ++ L P + P ++ F
Sbjct: 57 DLLDRLTEKYREIS--------VIAIDFWTAEALKALGLNKPGYPPPDTPEMFRKF---- 104
Query: 130 WNPDKPDEKPTMQEYKVDLNNKIDANDKVSKIY---PLPHMYVV 170
+ Y + + + + + + ++ ++
Sbjct: 105 -----------IANYGDPSWIMVMDDGSLVEKFNVRSIDYIVIM 137
>3epy_A Acyl-COA-binding domain-containing protein 7; acyl-COA binding
protein, fatty acid, lipid metabolism, structural
genomics; HET: COA PLM; 2.00A {Homo sapiens}
Length = 89
Score = 26.4 bits (58), Expect = 6.0
Identities = 13/54 (24%), Positives = 20/54 (37%), Gaps = 10/54 (18%)
Query: 206 SLDDRKKLDGLYECILCACCSTSCPSYW----------WNGEKYLGPAVLMQAY 249
+ K+L GLY+ + + +CP WN +K L AY
Sbjct: 23 DDGELKELYGLYKQAIVGDINIACPGMLDLKGKAKWEAWNLKKGLSTEDATSAY 76
>1st7_A ACBP, acyl-COA-binding protein; four helix bundle, transport
protein; NMR {Saccharomyces cerevisiae}
Length = 86
Score = 26.0 bits (57), Expect = 6.0
Identities = 9/54 (16%), Positives = 14/54 (25%), Gaps = 10/54 (18%)
Query: 206 SLDDRKKLDGLYECILCACCSTSCPSYW----------WNGEKYLGPAVLMQAY 249
S D+ +L LY+ P + W K + Y
Sbjct: 20 STDELLELYALYKQATVGDNDKEKPGIFNMKDRYKWEAWENLKGKSQEDAEKEY 73
>1z14_A VP2; prototype strain, X-RAY crystallography, icosahedral virus;
3.25A {Minute virus of mice} PDB: 1mvm_A* 1z1c_A* 2xgk_A
Length = 549
Score = 27.5 bits (60), Expect = 7.4
Identities = 8/53 (15%), Positives = 15/53 (28%)
Query: 121 KYKTFAIYRWNPDKPDEKPTMQEYKVDLNNKIDANDKVSKIYPLPHMYVVKDL 173
+ K A WNP + + + + PL V ++
Sbjct: 496 RAKLRANTTWNPVYQVSAEDNGNSYMSVTKWLPTATGNMQSVPLITRPVARNT 548
>3unc_A Xanthine dehydrogenase/oxidase; oxidoreductase; HET: MTE FAD SAL;
1.65A {Bos taurus} PDB: 3una_A* 3uni_A* 1v97_A* 1fo4_A*
1vdv_A* 3am9_A* 3amz_A* 3ax7_A* 3ax9_A* 3bdj_A* 1n5x_A*
2ckj_A* 2e1q_A* 3an1_A* 2e3t_A* 1wyg_A* 3b9j_B* 1fiq_B*
3b9j_A* 1fiq_A*
Length = 1332
Score = 27.9 bits (62), Expect = 7.4
Identities = 6/17 (35%), Positives = 10/17 (58%)
Query: 23 CREGICGSCAMNIGGVN 39
C EG CG+C + + +
Sbjct: 43 CGEGGCGACTVMLSKYD 59
>2cqu_A Peroxisomal D3,D2-enoyl-COA isomerase; acyl-COA binding protein,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 116
Score = 26.5 bits (58), Expect = 7.7
Identities = 11/54 (20%), Positives = 16/54 (29%), Gaps = 10/54 (18%)
Query: 206 SLDDRKKLDGLYECILCACCSTSCPSYW----------WNGEKYLGPAVLMQAY 249
+ + KL LY+ C+ P + WN L Q Y
Sbjct: 35 GNEVKLKLYALYKQATEGPCNMPKPGVFDLINKAKWDAWNALGSLPKEAARQNY 88
>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain
III (ATPase domain), ATP-binding, cytoplasm, DNA
replication; HET: ADP; 3.00A {Thermotoga maritima} PDB:
2z4r_A*
Length = 440
Score = 27.2 bits (61), Expect = 8.5
Identities = 7/24 (29%), Positives = 11/24 (45%), Gaps = 1/24 (4%)
Query: 105 QLSAAASSAVPAEKPAKYKTFAIY 128
+ A+ V A+ P +Y IY
Sbjct: 114 SFAYHAALEV-AKHPGRYNPLFIY 136
>3flv_A Acyl-COA-binding domain-containing protein 5; lipid binding,
structural genomics, struct genomics consortium, SGC,
lipid-binding, membrane; HET: STE COA; 1.70A {Homo
sapiens}
Length = 119
Score = 26.2 bits (57), Expect = 8.8
Identities = 10/54 (18%), Positives = 16/54 (29%), Gaps = 10/54 (18%)
Query: 206 SLDDRKKLDGLYECILCACCSTSCPSYW----------WNGEKYLGPAVLMQAY 249
+ + K Y+ C S P +W W+ + M AY
Sbjct: 47 TNEMMLKFYSFYKQATEGPCKLSRPGFWDPIGRYKWDAWSSLGDMTKEEAMIAY 100
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.320 0.136 0.427
Gapped
Lambda K H
0.267 0.0635 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,548,807
Number of extensions: 319715
Number of successful extensions: 868
Number of sequences better than 10.0: 1
Number of HSP's gapped: 836
Number of HSP's successfully gapped: 64
Length of query: 365
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 270
Effective length of database: 4,049,298
Effective search space: 1093310460
Effective search space used: 1093310460
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: 58 (26.3 bits)