RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5785
(340 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 = 224 bits (573), Expect = 8e-73
Identities = 68/125 (54%), Positives = 92/125 (73%)
Query: 216 SKIDANDKVSKIYPLPHMYVVKDLVPDMNNFYAQYKSIQPWLQRDKENIGNAQYLQSLDD 275
S ++ K I PLP + V++DLV DM FYAQY+ I+P+L + +N ++LQ +
Sbjct: 80 SALNQPGKKIVIRPLPGLPVIRDLVVDMGQFYAQYEKIKPYLLNNGQNPPAREHLQMPEQ 139
Query: 276 RKKLDGLYECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSRDEKTADRLNQLKD 335
R+KLDGLYECILCACCSTSCPS+WWN +K++GPA L+ AYR++IDSRD +T RL+ L D
Sbjct: 140 REKLDGLYECILCACCSTSCPSFWWNPDKFIGPAGLLAAYRFLIDSRDTETDSRLDGLSD 199
Query: 336 PFSVY 340
FSV+
Sbjct: 200 AFSVF 204
Score = 147 bits (374), Expect = 5e-43
Identities = 47/73 (64%), Positives = 61/73 (83%)
Query: 143 QYLQSLDDRKKLDGLYECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSRDEKTA 202
++LQ + R+KLDGLYECILCACCSTSCPS+WWN +K++GPA L+ AYR++IDSRD +T
Sbjct: 132 EHLQMPEQREKLDGLYECILCACCSTSCPSFWWNPDKFIGPAGLLAAYRFLIDSRDTETD 191
Query: 203 DRLNQLKDPFSVY 215
RL+ L D FSV+
Sbjct: 192 SRLDGLSDAFSVF 204
Score = 45.3 bits (108), Expect = 9e-06
Identities = 12/27 (44%), Positives = 19/27 (70%), Gaps = 1/27 (3%)
Query: 99 TFAIYRWNPDKPDEKPTMQEYKVDLNN 125
F+IYR+NPD D+ P MQ+Y ++ +
Sbjct: 4 EFSIYRYNPDV-DDAPRMQDYTLEADE 29
Score = 38.8 bits (91), Expect = 0.001
Identities = 12/22 (54%), Positives = 16/22 (72%), Gaps = 1/22 (4%)
Query: 50 TFAIYRWNPDKPDEKPTMQEYK 71
F+IYR+NPD D+ P MQ+Y
Sbjct: 4 EFSIYRYNPDV-DDAPRMQDYT 24
Score = 27.6 bits (62), Expect = 5.3
Identities = 9/38 (23%), Positives = 12/38 (31%), Gaps = 6/38 (15%)
Query: 259 RDKENIGNAQYLQSLDDRKKLDGLYECILCACCSTSCP 296
RD L L D ++ C C + CP
Sbjct: 186 RDT---ETDSRLDGLSDA---FSVFRCHSIMNCVSVCP 217
>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 = 216 bits (552), Expect = 1e-69
Identities = 33/124 (26%), Positives = 57/124 (45%), Gaps = 1/124 (0%)
Query: 217 KIDANDKVSKIYPLPHMYVVKDLVPDMNNFYAQYKSIQPWLQRDKENIGNAQYLQSLDDR 276
+ K+ L + + +DLV DM +F ++I+P++ + +Q+
Sbjct: 80 FLRDYTDGMKVEALANFPIERDLVVDMTHFIESLEAIKPYIIGNSRTADQGTNIQTPAQM 139
Query: 277 KKLDGLYECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSRDEKTADRLNQLKDP 336
K CI C C +CP + N E ++GPA + A+R+ DSRD +R+ QL
Sbjct: 140 AKYHQFSGCINCGLCYAACPQFGLNPE-FIGPAAITLAHRYNEDSRDHGKKERMAQLNSQ 198
Query: 337 FSVY 340
V+
Sbjct: 199 NGVW 202
Score = 140 bits (356), Expect = 3e-40
Identities = 23/73 (31%), Positives = 35/73 (47%), Gaps = 1/73 (1%)
Query: 143 QYLQSLDDRKKLDGLYECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSRDEKTA 202
+Q+ K CI C C +CP + N E ++GPA + A+R+ DSRD
Sbjct: 131 TNIQTPAQMAKYHQFSGCINCGLCYAACPQFGLNPE-FIGPAAITLAHRYNEDSRDHGKK 189
Query: 203 DRLNQLKDPFSVY 215
+R+ QL V+
Sbjct: 190 ERMAQLNSQNGVW 202
Score = 45.3 bits (108), Expect = 1e-05
Identities = 8/30 (26%), Positives = 13/30 (43%), Gaps = 1/30 (3%)
Query: 96 KYKTFAIYRWNPDKPDEKPTMQEYKVDLNN 125
K + R+NP+ D P Y+V +
Sbjct: 4 KNLKIEVVRYNPEV-DTAPHSAFYEVPYDA 32
Score = 39.2 bits (92), Expect = 0.001
Identities = 7/25 (28%), Positives = 11/25 (44%), Gaps = 1/25 (4%)
Query: 47 KYKTFAIYRWNPDKPDEKPTMQEYK 71
K + R+NP+ D P Y+
Sbjct: 4 KNLKIEVVRYNPEV-DTAPHSAFYE 27
Score = 26.8 bits (60), Expect = 8.9
Identities = 10/38 (26%), Positives = 17/38 (44%), Gaps = 6/38 (15%)
Query: 259 RDKENIGNAQYLQSLDDRKKLDGLYECILCACCSTSCP 296
RD G + + L+ + +G++ C CS CP
Sbjct: 184 RDH---GKKERMAQLNSQ---NGVWSCTFVGYCSEVCP 215
>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 = 208 bits (532), Expect = 2e-66
Identities = 33/125 (26%), Positives = 61/125 (48%), Gaps = 4/125 (3%)
Query: 219 DANDKVSKIYPLPHMYVVKDLVPDMNNFY-AQYKSIQPWLQRDKE-NIGNAQYLQSLDDR 276
D D V + PLP ++KDL D N++ + ++ W+ KE +I + +
Sbjct: 83 DFEDGVITLLPLPAFKLIKDLSVDTGNWFNGMSQRVESWIHAQKEHDISKLEERIEPEVA 142
Query: 277 KKLDGLYECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSRDEKTADRLNQ-LKD 335
+++ L CI C CC +C + + ++G A L + R++ID DE+T + + + D
Sbjct: 143 QEVFELDRCIECGCCIAACGTKIMRED-FVGAAGLNRVVRFMIDPHDERTDEDYYELIGD 201
Query: 336 PFSVY 340
V+
Sbjct: 202 DDGVF 206
Score = 138 bits (350), Expect = 2e-39
Identities = 18/74 (24%), Positives = 36/74 (48%), Gaps = 2/74 (2%)
Query: 143 QYLQSLDDRKKLDGLYECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSRDEKTA 202
+ + +++ L CI C CC +C + + ++G A L + R++ID DE+T
Sbjct: 134 EERIEPEVAQEVFELDRCIECGCCIAACGTKIMRED-FVGAAGLNRVVRFMIDPHDERTD 192
Query: 203 DRLNQ-LKDPFSVY 215
+ + + D V+
Sbjct: 193 EDYYELIGDDDGVF 206
Score = 51.5 bits (124), Expect = 8e-08
Identities = 8/30 (26%), Positives = 16/30 (53%)
Query: 95 AKYKTFAIYRWNPDKPDEKPTMQEYKVDLN 124
+ T +++++P KP QEYK++
Sbjct: 2 GRMLTIRVFKYDPQSAVSKPHFQEYKIEEA 31
Score = 46.1 bits (110), Expect = 6e-06
Identities = 8/26 (30%), Positives = 14/26 (53%)
Query: 46 AKYKTFAIYRWNPDKPDEKPTMQEYK 71
+ T +++++P KP QEYK
Sbjct: 2 GRMLTIRVFKYDPQSAVSKPHFQEYK 27
>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 = 202 bits (516), Expect = 1e-63
Identities = 84/123 (68%), Positives = 101/123 (82%), Gaps = 1/123 (0%)
Query: 219 DANDKVSKIYPLPHMYVVKDLVPDMNNFYAQYKSIQPWLQRDKE-NIGNAQYLQSLDDRK 277
K +KIYPLPHM+V+KDLVPDMN FYAQY SIQPWLQ+ + N+G Q QS+ +++
Sbjct: 115 QNTSKTTKIYPLPHMFVIKDLVPDMNLFYAQYASIQPWLQKKTKINLGEKQQYQSIKEQE 174
Query: 278 KLDGLYECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSRDEKTADRLNQLKDPF 337
KLDGLYECILCACCS SCPSYWWN +KYLGPAVLMQAYRWIIDSRD+ A+RL +++D F
Sbjct: 175 KLDGLYECILCACCSASCPSYWWNADKYLGPAVLMQAYRWIIDSRDDSAAERLARMQDGF 234
Query: 338 SVY 340
S +
Sbjct: 235 SAF 237
Score = 131 bits (330), Expect = 4e-36
Identities = 52/75 (69%), Positives = 63/75 (84%)
Query: 141 NAQYLQSLDDRKKLDGLYECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSRDEK 200
Q QS+ +++KLDGLYECILCACCS SCPSYWWN +KYLGPAVLMQAYRWIIDSRD+
Sbjct: 163 EKQQYQSIKEQEKLDGLYECILCACCSASCPSYWWNADKYLGPAVLMQAYRWIIDSRDDS 222
Query: 201 TADRLNQLKDPFSVY 215
A+RL +++D FS +
Sbjct: 223 AAERLARMQDGFSAF 237
Score = 54.8 bits (132), Expect = 9e-09
Identities = 17/44 (38%), Positives = 28/44 (63%)
Query: 82 SAAASSAVPAEKPAKYKTFAIYRWNPDKPDEKPTMQEYKVDLNN 125
A+++ A + KTF IYR+NP++P KP +Q++ VDL+
Sbjct: 20 RYASAATAAAPTGKRIKTFEIYRFNPEEPGAKPKLQKFDVDLDK 63
Score = 49.8 bits (119), Expect = 4e-07
Identities = 14/39 (35%), Positives = 24/39 (61%)
Query: 33 SAAASSAVPAEKPAKYKTFAIYRWNPDKPDEKPTMQEYK 71
A+++ A + KTF IYR+NP++P KP +Q++
Sbjct: 20 RYASAATAAAPTGKRIKTFEIYRFNPEEPGAKPKLQKFD 58
Score = 28.6 bits (64), Expect = 2.4
Identities = 15/76 (19%), Positives = 26/76 (34%), Gaps = 13/76 (17%)
Query: 259 RDKENIGNAQYLQSLDDRKKLDGLYECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWI 318
RD A+ L + D ++C C+ +CP K+L PA + + +
Sbjct: 219 RDD---SAAERLARMQDG---FSAFKCHTIMNCTKTCP-------KHLNPARAIGEIKML 265
Query: 319 IDSRDEKTADRLNQLK 334
+ K A
Sbjct: 266 LTKMKTKPAPLPTPAN 281
Score = 27.1 bits (60), Expect = 7.6
Identities = 13/68 (19%), Positives = 24/68 (35%), Gaps = 10/68 (14%)
Query: 142 AQYLQSLDDRKKLDGLYECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSRDEKT 201
A+ L + D ++C C+ +CP K+L PA + + ++ K
Sbjct: 224 AERLARMQDG---FSAFKCHTIMNCTKTCP-------KHLNPARAIGEIKMLLTKMKTKP 273
Query: 202 ADRLNQLK 209
A
Sbjct: 274 APLPTPAN 281
>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 = 192 bits (489), Expect = 6e-60
Identities = 92/123 (74%), Positives = 109/123 (88%), Gaps = 1/123 (0%)
Query: 219 DANDKVSKIYPLPHMYVVKDLVPDMNNFYAQYKSIQPWLQRDKEN-IGNAQYLQSLDDRK 277
K +KIYPLPHMYVVKDLVPD++NFYAQYKSI+P+L++ E+ G QYLQS++DR+
Sbjct: 91 PDLSKTTKIYPLPHMYVVKDLVPDLSNFYAQYKSIEPYLKKKDESKQGKEQYLQSIEDRQ 150
Query: 278 KLDGLYECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSRDEKTADRLNQLKDPF 337
KLDGLYECILCACCSTSCPSYWWNG+KYLGPAVLMQAYRW+IDSRD+ T +RL QL+DPF
Sbjct: 151 KLDGLYECILCACCSTSCPSYWWNGDKYLGPAVLMQAYRWMIDSRDDYTEERLAQLQDPF 210
Query: 338 SVY 340
S+Y
Sbjct: 211 SLY 213
Score = 129 bits (325), Expect = 1e-35
Identities = 61/73 (83%), Positives = 70/73 (95%)
Query: 143 QYLQSLDDRKKLDGLYECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSRDEKTA 202
QYLQS++DR+KLDGLYECILCACCSTSCPSYWWNG+KYLGPAVLMQAYRW+IDSRD+ T
Sbjct: 141 QYLQSIEDRQKLDGLYECILCACCSTSCPSYWWNGDKYLGPAVLMQAYRWMIDSRDDYTE 200
Query: 203 DRLNQLKDPFSVY 215
+RL QL+DPFS+Y
Sbjct: 201 ERLAQLQDPFSLY 213
Score = 54.4 bits (131), Expect = 9e-09
Identities = 20/39 (51%), Positives = 27/39 (69%)
Query: 87 SAVPAEKPAKYKTFAIYRWNPDKPDEKPTMQEYKVDLNN 125
+ A ++ K F+IYRW+PDKP +KP MQ Y+VDLN
Sbjct: 1 AQTAAAATSRIKKFSIYRWDPDKPGDKPRMQTYEVDLNK 39
Score = 49.4 bits (118), Expect = 5e-07
Identities = 16/34 (47%), Positives = 23/34 (67%)
Query: 38 SAVPAEKPAKYKTFAIYRWNPDKPDEKPTMQEYK 71
+ A ++ K F+IYRW+PDKP +KP MQ Y+
Sbjct: 1 AQTAAAATSRIKKFSIYRWDPDKPGDKPRMQTYE 34
Score = 28.2 bits (63), Expect = 3.3
Identities = 17/69 (24%), Positives = 25/69 (36%), Gaps = 13/69 (18%)
Query: 259 RDKENIGNAQYLQSLDDRKKLDGLYECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWI 318
RD + L L D LY C C+ +CP K L P + + +
Sbjct: 195 RDD---YTEERLAQLQDP---FSLYRCHTIMNCTRTCP-------KGLNPGKAIAEIKKM 241
Query: 319 IDSRDEKTA 327
+ + EK A
Sbjct: 242 MATYKEKAA 250
Score = 27.1 bits (60), Expect = 9.3
Identities = 15/61 (24%), Positives = 23/61 (37%), Gaps = 10/61 (16%)
Query: 142 AQYLQSLDDRKKLDGLYECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSRDEKT 201
+ L L D LY C C+ +CP K L P + + ++ + EK
Sbjct: 200 EERLAQLQDP---FSLYRCHTIMNCTRTCP-------KGLNPGKAIAEIKKMMATYKEKA 249
Query: 202 A 202
A
Sbjct: 250 A 250
>3kwl_A Uncharacterized protein; putative oxidoreductase, multidomain,
unknown function; 1.94A {Helicobacter pylori}
Length = 514
Score = 115 bits (288), Expect = 1e-28
Identities = 31/256 (12%), Positives = 62/256 (24%), Gaps = 78/256 (30%)
Query: 85 ASSAVP--AEKPAKYKTFAIYRWNPDKPDEKPTMQEYKVDLNNQLNFSARSSHATAISNA 142
+S VP + ++R+ +K D P + Y ++ +
Sbjct: 10 SSGLVPRGSHMSVLKLHVKVFRFETNK-DYNPAYESYFLEYQE---------DQYLLDLL 59
Query: 143 QYLQSLDDRKKLDGLYECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSRDEKTA 202
+ L+ + + A N E
Sbjct: 60 KQLKGVSYSEN---------IALKI--------NQIAVF-----------------EDAK 85
Query: 203 DRLNQLKDPFSVYSKIDANDKVSKIYPLPHMYVVKDLVPDMNNFYAQYKSIQPWLQRDKE 262
V + K + PL Y +KDL+ D Y+ + +
Sbjct: 86 -----------VSDLVAFFSKEWVLDPLSKRYALKDLMIDEKAVLKNYEDFFKQVPYITK 134
Query: 263 NIGNAQYLQSLDDRKKLDGLYECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSR 322
++++L+ + P KYLG + +
Sbjct: 135 -----------GEKEELEKFI------QINFINPQT---NPKYLGDGFFLYVKWL-MKRY 173
Query: 323 DEKTADRLNQLKDPFS 338
+ L + P S
Sbjct: 174 PTERDRLLEMISQPES 189
Score = 35.0 bits (80), Expect = 0.035
Identities = 8/38 (21%), Positives = 15/38 (39%), Gaps = 3/38 (7%)
Query: 36 ASSAVP--AEKPAKYKTFAIYRWNPDKPDEKPTMQEYK 71
+S VP + ++R+ +K D P + Y
Sbjct: 10 SSGLVPRGSHMSVLKLHVKVFRFETNK-DYNPAYESYF 46
>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 = 59.3 bits (143), Expect = 1e-09
Identities = 63/377 (16%), Positives = 117/377 (31%), Gaps = 116/377 (30%)
Query: 9 TILLKMSKFSAIGLTAKN--IRSFQLSAAASSAVPAEKPA-----------KYKTFAIY- 54
+ K+ + + L I+++ ++A + P +K + + AI+
Sbjct: 103 ALAAKLLQENDTTLVKTKELIKNY-ITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFG 161
Query: 55 -RWNPDKP-DEKPTMQE-YKT-AKNIRSFQLSAAA-----SSAVPAEKPAKYKTFAIYRW 105
+ N D +E +++ Y+T + +A + + I W
Sbjct: 162 GQGNTDDYFEE---LRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEW 218
Query: 106 --NPD-KPDEKPTMQEYKVDLNNQLNFSARS---SHATAISNAQYLQSL--------DDR 151
NP PD+ +Y L S + A Y+ + + R
Sbjct: 219 LENPSNTPDK-----DY-------LLSIPISCPLIGVIQL--AHYVVTAKLLGFTPGELR 264
Query: 152 KKLDGLYEC---ILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWI--IDSRDEKTADRLN 206
L G ++ A S W E + +A + I R + +
Sbjct: 265 SYLKGATGHSQGLVTAVAIAETDS--W--ESFFVSVR--KAITVLFFIGVRCYEAYPNTS 318
Query: 207 QLKDPFSVYSKIDANDKVSKIYPLPHMYVVKDLVPDMNNFYAQYKSIQPWLQRDKENIGN 266
P + ++ N+ V P P M + +L + +Q ++ +K N
Sbjct: 319 L--PPSILEDSLENNEGV----PSP-MLSISNL---------TQEQVQDYV--NKTN--- 357
Query: 267 AQYLQSLDDRKKLD-GLYECILCACCSTSCPSYWWNGEKYL---GPAV-LMQAYRWIIDS 321
L K+++ L NG K L GP L Y +
Sbjct: 358 ----SHLPAGKQVEISLV-----------------NGAKNLVVSGPPQSL---YGLNLTL 393
Query: 322 RDEKTADRLNQLKDPFS 338
R K L+Q + PFS
Sbjct: 394 RKAKAPSGLDQSRIPFS 410
>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 = 46.8 bits (110), Expect = 8e-06
Identities = 39/310 (12%), Positives = 86/310 (27%), Gaps = 90/310 (29%)
Query: 1 MSVAVIGETI--LLKMSKFSAIGLTAKNIRSFQLSAAASSAV----PAEKPAKYKTFAIY 54
+++I E+I L K++ +L+ S++ PAE + +++
Sbjct: 328 RRLSIIAESIRDGLATWDNW------KHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVF 381
Query: 55 RWNPDKPDEKPTMQEYKTAKNIRSFQLSAAASSAVPAEKPAKYKTFAIYRWNPDKPDEKP 114
P +P ++ ++ K D
Sbjct: 382 P-----PSAH------------------------IPT------ILLSLIWFDVIKSDVMV 406
Query: 115 TMQEY--KVDLNNQLNFSARSSHATAISNAQYLQSLDDR----KKLDGLYECILCACCST 168
+ + + Q S S + + L++ + + Y
Sbjct: 407 VVNKLHKYSLVEKQPKESTISIPSIYLE---LKVKLENEYALHRSIVDHYNIPKTFDSDD 463
Query: 169 SCP----SYWWN-----------GEKYLGPAVLMQAYRWI------IDSRDEKTADRLNQ 207
P Y+++ E+ ++ +R++ + + LN
Sbjct: 464 LIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNT 523
Query: 208 LKDPFSVYSK-IDANDKVSKIYPLPHMYV--VKDLVPDMNNFYAQYKS---IQPWLQRDK 261
L+ Y I ND P V + D +P + K ++ L +
Sbjct: 524 LQQ-LKFYKPYICDND------PKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAED 576
Query: 262 ENIGNAQYLQ 271
E I + Q
Sbjct: 577 EAIFEEAHKQ 586
Score = 34.1 bits (77), Expect = 0.082
Identities = 29/240 (12%), Positives = 64/240 (26%), Gaps = 56/240 (23%)
Query: 116 MQEYKVDLN-NQLNFSARSSHATAISNAQY---LQSLDDRKKLDGLYECILCACCSTSCP 171
+ + + + +S +S + + S D L+ + S
Sbjct: 26 EDAFVDNFDCKDVQDMPKS----ILSKEEIDHIIMSKDAVSGTLRLFWTL----LSKQEE 77
Query: 172 SYWWNGEKYLGPAVLMQAYRWIIDSRDEKTADRLNQLKDPFSVYSKIDANDKVSKIYPLP 231
+K++ VL Y++++ Q +Y ++ ++Y
Sbjct: 78 MV----QKFVE-EVLRINYKFLM----SPIKTEQRQPSMMTRMY-----IEQRDRLYNDN 123
Query: 232 HMYVVKDLVPDMNNFYAQYKSIQPWLQRDKENIGNAQY-----------LQSLDDRKKLD 280
++ K V + Y ++ L + L K
Sbjct: 124 QVF-AKYNVSRLQ----PYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQC 178
Query: 281 GLYECILCACCSTSCPSYWWN-GEKYLGPAVL--MQAYRWIIDSRDEKTADRLNQLKDPF 337
+ I +W N VL +Q + ID +D + +K
Sbjct: 179 KMDFKI-----------FWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRI 227
>1s94_A S-syntaxin; three helix bundle, structural plasticity,
endocytosis-exocy complex; 3.34A {Loligo pealei} SCOP:
a.47.2.1
Length = 180
Score = 30.0 bits (67), Expect = 0.78
Identities = 14/70 (20%), Positives = 27/70 (38%), Gaps = 11/70 (15%)
Query: 203 DRLNQLKDPFSVYSKIDANDKVSKIYPLPHMYVVKDLVPDMNNFYAQYKSIQPWLQRDKE 262
DRL LK + S + ++V+ V M F+ Q + I+ + + +
Sbjct: 9 DRLAALK---AAVSDEEDVEEVA--------VQVDSGGGFMEEFFEQVEEIRAMIDKISD 57
Query: 263 NIGNAQYLQS 272
N+ + S
Sbjct: 58 NVDAVKKKHS 67
>3oa5_A CHI1; TIM barrel, hydrolase; HET: 2PE; 1.74A {Yersinia} PDB: 4a5q_A
Length = 574
Score = 29.1 bits (65), Expect = 2.3
Identities = 21/120 (17%), Positives = 34/120 (28%), Gaps = 37/120 (30%)
Query: 15 SKFSAIGLTAKNIRSFQLSAAASSAVPAEKPAKYKTF-----------AIYRWNPDKPDE 63
FS I +F + ++ F +I NP+ PD+
Sbjct: 251 GLFSEIAKDEILRTNF-----VEGIK--DFFQRFPMFSHLDIDWEYPGSIGAGNPNSPDD 303
Query: 64 KPT----MQEYKTAKNIRSFQLSAAASSAVPAEKPAKYKTFAIYRWNPDKPDEKPTMQEY 119
+Q+ AK +S A+S+ PAK D + M
Sbjct: 304 GANFAILIQQITDAKISNLKGISIASSAD-----PAKI----------DAANIPALMDAG 348
>3cf4_A Acetyl-COA decarboxylase/synthase alpha subunit; methanomicrobia,
iron-nikel-sulfur, 4Fe-NI-4S, oxidoreductas; 2.00A
{Methanosarcina barkeri}
Length = 807
Score = 28.2 bits (62), Expect = 5.0
Identities = 9/64 (14%), Positives = 15/64 (23%), Gaps = 7/64 (10%)
Query: 149 DDRKKLDGLY-ECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSRDEKTADRLNQ 207
D + ++ CI C C C + + I Q
Sbjct: 443 GDFSYFEEIHDTCIGCRRCEQVCKKEIPILNVI------EKIAQKQIAEEKGLMRAGRGQ 496
Query: 208 LKDP 211
+ D
Sbjct: 497 VSDA 500
Score = 28.2 bits (62), Expect = 5.0
Identities = 9/64 (14%), Positives = 15/64 (23%), Gaps = 7/64 (10%)
Query: 274 DDRKKLDGLY-ECILCACCSTSCPSYWWNGEKYLGPAVLMQAYRWIIDSRDEKTADRLNQ 332
D + ++ CI C C C + + I Q
Sbjct: 443 GDFSYFEEIHDTCIGCRRCEQVCKKEIPILNVI------EKIAQKQIAEEKGLMRAGRGQ 496
Query: 333 LKDP 336
+ D
Sbjct: 497 VSDA 500
>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 = 27.6 bits (62), Expect = 7.5
Identities = 7/24 (29%), Positives = 11/24 (45%), Gaps = 1/24 (4%)
Query: 31 QLSAAASSAVPAEKPAKYKTFAIY 54
+ A+ V A+ P +Y IY
Sbjct: 114 SFAYHAALEV-AKHPGRYNPLFIY 136
Score = 27.6 bits (62), Expect = 7.5
Identities = 7/24 (29%), Positives = 11/24 (45%), Gaps = 1/24 (4%)
Query: 80 QLSAAASSAVPAEKPAKYKTFAIY 103
+ A+ V A+ P +Y IY
Sbjct: 114 SFAYHAALEV-AKHPGRYNPLFIY 136
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 27.0 bits (59), Expect = 7.7
Identities = 16/87 (18%), Positives = 30/87 (34%), Gaps = 26/87 (29%)
Query: 191 RWIIDSRDEKTADRLNQLKDPFSVYSKIDANDKVSKIYPLPHMYVVKDLVPDMNNFYAQY 250
+W R E+ RL ++DA KV + + D+ + +
Sbjct: 89 KW----R-EEQRKRL----------QELDAASKVMEQE------WREKAKKDLEEWNQRQ 127
Query: 251 KSIQPWLQRDKENIGNA--QYLQSLDD 275
Q ++++K N A + Q D
Sbjct: 128 SE-Q--VEKNKINNRIADKAFYQQPDA 151
>3i9v_9 NADH-quinone oxidoreductase subunit 9; electron transport,
respiratory chain, cell flavoprotein, FMN, iron,
iron-sulfur, membrane; HET: FMN; 3.10A {Thermus
thermophilus} PDB: 2ybb_8* 2fug_9* 3iam_9* 3ias_9*
3m9s_9*
Length = 182
Score = 26.7 bits (59), Expect = 8.5
Identities = 8/18 (44%), Positives = 14/18 (77%)
Query: 155 DGLYECILCACCSTSCPS 172
+GL +CI C+ C+ +CP+
Sbjct: 48 NGLEKCIGCSLCAAACPA 65
Score = 26.7 bits (59), Expect = 8.5
Identities = 8/18 (44%), Positives = 14/18 (77%)
Query: 280 DGLYECILCACCSTSCPS 297
+GL +CI C+ C+ +CP+
Sbjct: 48 NGLEKCIGCSLCAAACPA 65
>2rqr_A CED-12 homolog, engulfment and cell motility protein 1, linker, D
of cytokinesis protein 2; KIAA0209, KIAA0281, apoptosis,
membrane, phagocytosis; NMR {Homo sapiens}
Length = 119
Score = 26.2 bits (57), Expect = 9.5
Identities = 9/62 (14%), Positives = 20/62 (32%), Gaps = 6/62 (9%)
Query: 57 NPDKPDEKPTMQE----YKTAKNIRSFQLSAAASSAVPAEKPAKYKTF--AIYRWNPDKP 110
N PD P + + Y + + ++ S+ + + AIY +
Sbjct: 14 NIQIPDAPPPIPKEPSNYDFSGPSSGIEGRGSSGSSGSSGSSGDKERHGVAIYNFQGSGA 73
Query: 111 DE 112
+
Sbjct: 74 PQ 75
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
0.317 0.131 0.407
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: 4,985,945
Number of extensions: 275162
Number of successful extensions: 790
Number of sequences better than 10.0: 1
Number of HSP's gapped: 766
Number of HSP's successfully gapped: 66
Length of query: 340
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 246
Effective length of database: 4,077,219
Effective search space: 1002995874
Effective search space used: 1002995874
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (26.3 bits)