RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4798
(623 letters)
>4aw6_A CAAX prenyl protease 1 homolog; hydrolase, M48 peptidase, integral
membrane protein, prelami processing, ageing, progeria;
HET: PC1; 3.40A {Homo sapiens}
Length = 482
Score = 165 bits (419), Expect = 7e-45
Identities = 140/362 (38%), Positives = 202/362 (55%), Gaps = 54/362 (14%)
Query: 204 LIIVLQYVFAPYNQLVQFLMTCMTRRFEFQADAFGKSLGKAIFLRKALLKINKDNLGF-- 261
L Y++ + Q + + G+ + F + L +++K F
Sbjct: 25 LFSWTVYLWETFLAQRQRRIY---KTTTHVPPELGQIMDSETFEKSRLYQLDKSTFSFWS 81
Query: 262 --------PALLVCNGLPYFWSKSEELGETYFGFHKNEIVTSCLFIVLFNIFSTVIGLPI 313
+L+ G+PY W S + EI S +F++L +FS + GLP
Sbjct: 82 GLYSETEGTLILLFGGIPYLWRLSGRFCGYAGFGPEYEITQSLVFLLLATLFSALAGLPW 141
Query: 314 SFYHHFVLEEKHGFNKQTYGFFVKDQIKSFIVSLILSIPLTGAVVYIIQTYGFFVKDQIK 373
S Y+ FV+EEKHGFN+QT GFF+KD IK F+V+ + +P++ ++YII+ G
Sbjct: 142 SLYNTFVIEEKHGFNQQTLGFFMKDAIKKFVVTQCILLPVSSLLLYIIKIGG-------- 193
Query: 374 SFIVSLILSIPLTGAVVYIIQVGGNMVFLYLWVFIILMSLFLMTIYPEFIAPLFDKYTPL 433
+ F+Y W+F +++SL L+TIY ++IAPLFDK+TPL
Sbjct: 194 ------------------------DYFFIYAWLFTLVVSLVLVTIYADYIAPLFDKFTPL 229
Query: 434 PDGELKSRIEQLSASVKFPLKKLYVVEGSKRSEHSNAYFYGFFKNKRIVLFDTLLKDYVP 493
P+G+LK IE ++ S+ FPL K+YVVEGSKRS HSNAYFYGFFKNKRIVLFDTLL++Y
Sbjct: 230 PEGKLKEEIEVMAKSIDFPLTKVYVVEGSKRSSHSNAYFYGFFKNKRIVLFDTLLEEYSV 289
Query: 494 LNADKKDKA---------GDSEPLISTEGANKKGCDTEEVLAVLAHELGHWKYNHVLKSM 544
LN D ++ + G+SE + + K+GC EEVLAVL HELGHWK H +K++
Sbjct: 290 LNKDIQEDSGMEPRNEEEGNSEEIKAKVKNKKQGCKNEEVLAVLGHELGHWKLGHTVKNI 349
Query: 545 IL 546
I+
Sbjct: 350 II 351
Score = 144 bits (363), Expect = 2e-37
Identities = 112/263 (42%), Positives = 152/263 (57%), Gaps = 9/263 (3%)
Query: 9 IFYGIIGFSWIVFLFEFYLSIRQRRVYHETTIVPHQIAHGMDAESFEKSRRYSLDKNVFS 68
+ II F +L + T + + + + +
Sbjct: 184 LLLYIIKIGGDYFFIYAWLFTLVVSLVLVTIYADYIAPLFDKFTPLPEGKLKEEIEVMAK 243
Query: 69 MFKETVSNVMNTVSSKRSEHSNAYFYGFFKNKRIVLFDTLLKDYVPLNADKKDKS----- 123
++ V SKRS HSNAYFYGFFKNKRIVLFDTLL++Y LN D ++ S
Sbjct: 244 SIDFPLTKVYVVEGSKRSSHSNAYFYGFFKNKRIVLFDTLLEEYSVLNKDIQEDSGMEPR 303
Query: 124 ----GDSEPLISTEGANKKGCDTEEVLAVLAHELGHWKYNHVLKSMIVMQLNLLFMLYSF 179
G+SE + + K+GC EEVLAVL HELGHWK H +K++I+ Q+N + F
Sbjct: 304 NEEEGNSEEIKAKVKNKKQGCKNEEVLAVLGHELGHWKLGHTVKNIIISQMNSFLCFFLF 363
Query: 180 QYLFQYPPLYSAFGFYDSQPILLGLIIVLQYVFAPYNQLVQFLMTCMTRRFEFQADAFGK 239
L L++AFGFYDSQP L+GL+I+ Q++F+PYN+++ F +T ++RRFEFQADAF K
Sbjct: 364 AVLIGRKELFAAFGFYDSQPTLIGLLIIFQFIFSPYNEVLSFCLTVLSRRFEFQADAFAK 423
Query: 240 SLGKAIFLRKALLKINKDNLGFP 262
LGKA L AL+K+NKDNLGFP
Sbjct: 424 KLGKAKDLYSALIKLNKDNLGFP 446
Score = 76.5 bits (187), Expect = 7e-15
Identities = 36/81 (44%), Positives = 51/81 (62%)
Query: 1 MEFTLEFQIFYGIIGFSWIVFLFEFYLSIRQRRVYHETTIVPHQIAHGMDAESFEKSRRY 60
E E +IF ++ FSW V+L+E +L+ RQRR+Y TT VP ++ MD+E+FEKSR Y
Sbjct: 11 WEMPAEKRIFGAVLLFSWTVYLWETFLAQRQRRIYKTTTHVPPELGQIMDSETFEKSRLY 70
Query: 61 SLDKNVFSMFKETVSNVMNTV 81
LDK+ FS + S T+
Sbjct: 71 QLDKSTFSFWSGLYSETEGTL 91
>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 = 50.4 bits (120), Expect = 2e-06
Identities = 84/515 (16%), Positives = 153/515 (29%), Gaps = 177/515 (34%)
Query: 7 FQIFYGIIGFSWIV----FLF------EFYLSIRQR-RVY---HETTIVPHQIAH--GMD 50
+ +G + +V F +F + + + E T + G
Sbjct: 9 LTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYV 68
Query: 51 AESFEKSRRYSLD---KNVFSMFKETV---SNVMNTVSSKRSEHSNAYFYGFFKNKRIVL 104
+ E S+ D + F+ +++ H+ A + +V
Sbjct: 69 SSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDI----------HALAAKLLQENDTTLVK 118
Query: 105 FDTLLKDYVPLNA---DKKDKSGDSEPLISTEGANKK--------GCDTEEVLAVLAHEL 153
L+K+Y+ DK +S + N + G +T++ L +L
Sbjct: 119 TKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQG-NTDDYFEELR-DL 176
Query: 154 GHWK-YNHVLKSMIVMQLNLLFML----YSFQYLFQY--------------PPLYSAFGF 194
++ Y+ ++ +I L L + +F P +
Sbjct: 177 --YQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKD----Y 230
Query: 195 YDSQPILLGLIIVLQYVFAPYNQLVQFLMTCMTRRF---EFQA----------------- 234
S PI LI V+Q L +++T F E ++
Sbjct: 231 LLSIPISCPLIGVIQ--------LAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVA 282
Query: 235 -------DAFGKSLGKAI---F--------------LRKALLKINKDN-LGFPA-LLVCN 268
++F S+ KAI F L ++L+ + +N G P+ +L +
Sbjct: 283 IAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSIS 342
Query: 269 GLPYFWSKSEELGETYFGFHKNEIVTSCLFIVLFN---IFSTVI-GLPISFYHHFVLE-E 323
L E++ + + + + I L N V+ G P S Y L
Sbjct: 343 NLTQ-----EQVQDYVNKTNSHLPAGKQVEISLVNGAKNL--VVSGPPQSLY-GLNLTLR 394
Query: 324 KHGFNKQTYGFFVKDQIK--------SFIVS-LILSIP-----LTGAVVYIIQ-----TY 364
K K G DQ + F L ++ P L A I +
Sbjct: 395 KA---KAPSG---LDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNV 448
Query: 365 GFFVKDQIKSFIVSLILSIPLTGAVVYIIQVGGNM 399
F KD + IP VY G ++
Sbjct: 449 SFNAKD----------IQIP-----VYDTFDGSDL 468
Score = 42.0 bits (98), Expect = 6e-04
Identities = 84/610 (13%), Positives = 169/610 (27%), Gaps = 241/610 (39%)
Query: 78 MNTVSSKRS--------EHS-----NAYFYGFFKNKRIVLFDTLLKDYVPLNADKKDKSG 124
M+ S+ R EH ++F L + K L + +
Sbjct: 1 MDAYST-RPLTLSHGSLEHVLLVPTASFFIAS------QLQEQFNKI---LPEPTEGFAA 50
Query: 125 DSEP------------LISTEGANKKGCDTEEVL-AVLAH-ELGHWKYN--HVL------ 162
D EP +S+ K ++VL L E + + N H L
Sbjct: 51 DDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQ 110
Query: 163 --KSMIVMQLNLLFMLYSFQYLFQYPP------------------LYSAFGFYDSQPILL 202
+ +V L+ + + + + P L + FG Q
Sbjct: 111 ENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFG---GQ---- 163
Query: 203 GLIIV----LQYVFAPYNQLVQFLMTCMTRRFEFQADAFGKSLGKAIFLRKALLKINKDN 258
G L+ ++ Y+ LV L+ F + L ++ +
Sbjct: 164 GNTDDYFEELRDLYQTYHVLVGDLIK---------------------FSAETLSELIRTT 202
Query: 259 LGFPALLVCNGLPYF-WSKSEEL--GETYFGFHKNEIVTSCLFIVLFNIFSTVIGLPISF 315
L + GL W ++ + Y S + + IG+ I
Sbjct: 203 LDAEKVF-TQGLNILEWLENPSNTPDKDYL--------LSIP--ISCPL----IGV-IQL 246
Query: 316 YHHFVLEEKHGFNKQTYGFFVKDQIKSFIVSLILSIPLTGAVVYIIQTYGFFVKDQIKSF 375
H+ V + GF ++ +K TG +
Sbjct: 247 AHYVVTAKLLGFTPGE----LRSYLKG----------ATGHS---------------QGL 277
Query: 376 IVSLILSIPLTGAVVYIIQVGGNMVFLYLWVFII-LMSLFLMTIYPEF-IAPLFDKY--- 430
+ ++ ++ + + ++ +F I + YP + P +
Sbjct: 278 VTAVAIAETDSWESFF-----VSVRKAITVLFFIGVRCY---EAYPNTSLPPSILEDSLE 329
Query: 431 ------TP------LPDGELKSRIEQLSASVKFPLKKLY----------VVEGSKRSEHS 468
+P L +++ + + ++ + K++ VV G +S
Sbjct: 330 NNEGVPSPMLSISNLTQEQVQDYVNKTNSHLP-AGKQVEISLVNGAKNLVVSGPPQS--- 385
Query: 469 NAYFYGFFKN------------------KRIVLFDT------------LLKDYVP-LNAD 497
YG +R + F LL +N D
Sbjct: 386 ---LYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKD 442
Query: 498 --KKDKAGDSE----PLISTE-GAN---KKGCDTEEVLAVLAHELGHW------KYNHVL 541
K + + +++ P+ T G++ G +E ++ + W K H+L
Sbjct: 443 LVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHIL 502
Query: 542 KSMILKKEFG 551
+FG
Sbjct: 503 -------DFG 505
Score = 31.2 bits (70), Expect = 1.4
Identities = 30/161 (18%), Positives = 50/161 (31%), Gaps = 53/161 (32%)
Query: 462 SKRS--------EHS-----NAYFYGFFKNKRIVLFDTLLKDYVPLNADKKDKAGDSEP- 507
S R EH ++F L + K L + A D EP
Sbjct: 5 STRPLTLSHGSLEHVLLVPTASFFIAS------QLQEQFNKI---LPEPTEGFAADDEPT 55
Query: 508 -----------LISTEGANKKGCDTEEVL-AVLAH-ELGHWKYN--HVLKSMILKKEFGV 552
+S+ K ++VL L E + + N H L + +L++
Sbjct: 56 TPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTT 115
Query: 553 ANKEREASVMR-YVT------------KESELITARQDREA 580
K +E +++ Y+T S L A + A
Sbjct: 116 LVKTKE--LIKNYITARIMAKRPFDKKSNSALFRAVGEGNA 154
>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 = 49.1 bits (116), Expect = 4e-06
Identities = 93/654 (14%), Positives = 190/654 (29%), Gaps = 173/654 (26%)
Query: 43 HQIAHGMDAESFEKSRRYS-------------LD-KNVFSMFKETVSN--VMNTVSSKRS 86
H H MD E+ E +Y D K+V M K +S + + + SK +
Sbjct: 1 HHHHHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDA 60
Query: 87 EHSNAYFYGFF--KNKRIV-LF--DTLLKDY----VPLNADKKDKSGDSEPLISTEGANK 137
+ K + +V F + L +Y P+ +++ S + I
Sbjct: 61 VSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQR---D 117
Query: 138 KGCDTEEVLA---VLAHELGHWKYNHVLKSMIVMQLNLLF-ML--------------YSF 179
+ + +V A V + + K L + + L+ +L Y
Sbjct: 118 RLYNDNQVFAKYNVSRLQP-YLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKV 176
Query: 180 QYLFQYPPLYSAFGFYDSQPILLGLIIVLQYVFAPYNQLVQFLMTCMTRRFEFQADAFGK 239
Q + + +S +L ++ L Y P + + R +
Sbjct: 177 QCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAEL-R 235
Query: 240 SLGKAIFLRKALLKINKDNLGFPALLVCNGLPYFWSKSEELGETYFGFHKNEIVTSCLFI 299
L K+ LL + N V N W+ F C +
Sbjct: 236 RLLKSKPYENCLLVL--LN-------VQN--AKAWN--------AFNLS-------CKIL 269
Query: 300 VLFNIFSTVIGLPISFYHHFVLEE-KHGFNK-QTYGFFVK-------------DQIKSFI 344
+ L + H L+ + +K
Sbjct: 270 LTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRR 329
Query: 345 VSLILSIPLTGAVV----YIIQTYGFFVKDQIKSFI-VSL-ILSIPLTGAVVY----IIQ 394
+S+I + + D++ + I SL +L P ++ +
Sbjct: 330 LSII------AESIRDGLATWDNWKHVNCDKLTTIIESSLNVLE-PAEYRKMFDRLSVFP 382
Query: 395 VGGN---MVFLYLW-------VFIIL---------------MSLFLMTIYPEFIAPLFDK 429
+ ++ +W V +++ ++ + +IY E L ++
Sbjct: 383 PSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENE 442
Query: 430 YTPLPDGEL-KSRIEQLSASVKFPLKKLYVVEGSKRSEHSNAYFYGFF--------KNKR 480
Y L +S ++ + F L + + YFY +R
Sbjct: 443 Y------ALHRSIVDHYNIPKTFDSDDLIP-------PYLDQYFYSHIGHHLKNIEHPER 489
Query: 481 IVLFDTLLKDYVPLNADKKDKAGDSEPLISTEGANKKGCDTEEVLAVLAHELGHWKYNHV 540
+ LF + D+ L ++K + A L L + N
Sbjct: 490 MTLFRMVFLDFRFL--EQK--------IRHDSTAWNASGSILNTLQQLKFYKPYICDNDP 539
Query: 541 LKSMILK--KEFGVANKEREASVMRYVTKESELI-TARQDREAAEKKYKEAMKE 591
++ +F + E +++ K ++L+ A + E ++EA K+
Sbjct: 540 KYERLVNAILDF---LPKIEENLICS--KYTDLLRIALMAED--EAIFEEAHKQ 586
Score = 36.8 bits (84), Expect = 0.023
Identities = 53/352 (15%), Positives = 111/352 (31%), Gaps = 100/352 (28%)
Query: 320 VLEEKHGFNKQTYGFFVKDQIK---SFIVSLI---LSIPLTGAVVYIIQ---TYG---FF 367
L K ++ FV++ ++ F++S I P +YI Q Y F
Sbjct: 70 TLLSK---QEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVF 126
Query: 368 VKD---------QIKSFIVSL------IL--------SIPLTGAVVYIIQVGGNMVFLYL 404
K +++ ++ L ++ + + V +V M F
Sbjct: 127 AKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTW-VALDVCLSYKVQCKMDFKIF 185
Query: 405 WV----------FIILMSLFLMTIYPEFIA-PLFDKYTPLPDGELKSRIEQLSASVKFPL 453
W+ + ++ L I P + + L +++ + +L S +
Sbjct: 186 WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYE- 244
Query: 454 KKLYVVEGSKRSEHSNAYFYGFFKNK-RIVLF--DTLLKDYVPLNADKKDKAGDSEPLIS 510
L V+ + ++ NA F +I+L + D++ IS
Sbjct: 245 NCLLVLLNVQNAKAWNA-----FNLSCKILLTTRFKQVTDFLSAATTTH---------IS 290
Query: 511 TEGANKKGCDTEEVLAVLAHELGHWKYNHVLKSMILKKEFGVANKEREASVMRYVTKES- 569
+ + +EV ++L L + L +E V +
Sbjct: 291 LDH-HSMTLTPDEVKSLLLKYLD-------CRPQDLPRE---------------VLTTNP 327
Query: 570 ---ELITAR-QDREAAEKKYKEAMKEK-DNVMAK-LKVLSTDKARLTQLYDD 615
+I +D A +K +K ++ L VL + R +++D
Sbjct: 328 RRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYR--KMFDR 377
>3c37_A Peptidase, M48 family; Q74D82, GSR143A, structural genomics,
protein structure initiative, northeast structural
genomics consortium; 1.70A {Geobacter sulfurreducens
pca}
Length = 253
Score = 37.7 bits (88), Expect = 0.007
Identities = 30/138 (21%), Positives = 41/138 (29%), Gaps = 43/138 (31%)
Query: 140 CDTEEVLA-VLAHELGHWKYNHVLKSMIVMQLNLLFMLYSFQYLFQYPPLYSAFGFYDSQ 198
D E LA VLAHE+ H H + M L + G +
Sbjct: 94 ADNETELAGVLAHEINHAVARHGTRQMTQEYGYSLVLS-------------LVLGDNPNM 140
Query: 199 PILLGLIIVLQYVFAPYNQLVQFLMTCMTRRFEFQADAFGKSLGKAIFLRKALLKINKDN 258
L + + Y +R +E QAD G + KA
Sbjct: 141 LAQLAGQLFGKAGMMSY-----------SREYENQADFLG-----VETMYKA-------- 176
Query: 259 LGFPALLVCNGLPYFWSK 276
G+ NGL F+ K
Sbjct: 177 -GYNP----NGLTSFFQK 189
Score = 30.8 bits (70), Expect = 1.1
Identities = 12/27 (44%), Positives = 14/27 (51%), Gaps = 1/27 (3%)
Query: 519 CDTEEVLA-VLAHELGHWKYNHVLKSM 544
D E LA VLAHE+ H H + M
Sbjct: 94 ADNETELAGVLAHEINHAVARHGTRQM 120
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 36.3 bits (83), Expect = 0.012
Identities = 18/75 (24%), Positives = 29/75 (38%), Gaps = 22/75 (29%)
Query: 565 VTKESELI-------TAR-QDREAAEKKYKEAMKEK------------DNVMAKLKVLS- 603
+T+E E I R Q+ +AA K ++ +EK + K K+ +
Sbjct: 80 LTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNR 139
Query: 604 -TDKARLTQLYDDKV 617
DKA Q D +
Sbjct: 140 IADKAFYQQPDADII 154
>3cqb_A Probable protease HTPX homolog; heat shock protein HTPX domain,
PSI-2, protein structure INI structural genomics; HET:
MSE; 1.86A {Vibrio parahaemolyticus rimd 2210633}
Length = 107
Score = 32.6 bits (75), Expect = 0.091
Identities = 8/28 (28%), Positives = 14/28 (50%)
Query: 141 DTEEVLAVLAHELGHWKYNHVLKSMIVM 168
+E AVLAHE+ H ++ ++
Sbjct: 79 TRDEAEAVLAHEVSHIANGDMVTMTLMQ 106
Score = 31.8 bits (73), Expect = 0.17
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 520 DTEEVLAVLAHELGH 534
+E AVLAHE+ H
Sbjct: 79 TRDEAEAVLAHEVSH 93
>1zoy_C Large cytochrome binding protein, FAD-binding protein; succinate,
ubiquinone oxidoreductase, mitochondrial respiratory
complex II; HET: FAD HEM EPH UQ1; 2.40A {Sus scrofa}
PDB: 1zp0_C* 3abv_C* 3ae1_C* 3ae2_C* 3ae3_C* 3ae4_C*
3ae5_C* 3ae6_C* 3ae7_C* 3ae8_C* 3ae9_C* 3aea_C* 3aeb_C*
3aec_C* 3aed_C* 3aee_C* 3aef_C* 3aeg_C* 3sfd_C* 3sfe_C*
Length = 140
Score = 32.6 bits (74), Expect = 0.14
Identities = 14/101 (13%), Positives = 32/101 (31%), Gaps = 6/101 (5%)
Query: 260 GFPALLVCNGLPYFWSKSEELGETYFGFHKNEIVTSCLFIVLFNIFSTVIGLPISFYHHF 319
G + E++ K+ + L I++ G+ +H
Sbjct: 46 GIALSAGVSLFGLSALLLPGNFESHLELVKSLCLGPTL------IYTAKFGIVFPLMYHT 99
Query: 320 VLEEKHGFNKQTYGFFVKDQIKSFIVSLILSIPLTGAVVYI 360
+H G + +S +V LIL++ + + +
Sbjct: 100 WNGIRHLIWDLGKGLTIPQLTQSGVVVLILTVLSSVGLAAM 140
>2h88_C Succinate dehydrogenase cytochrome B, large subun; complex II,
membrane protein, heme protein, iron sulfur PROT
cytochrome B, oxidoreductase; HET: FAD BHG HEM UNL;
1.74A {Gallus gallus} PDB: 2h89_C* 1yq3_C* 1yq4_C*
2fbw_C* 2wqy_C*
Length = 140
Score = 31.9 bits (72), Expect = 0.23
Identities = 17/98 (17%), Positives = 30/98 (30%), Gaps = 6/98 (6%)
Query: 260 GFPALLVCNGLPYFWSKSEELGETYFGFHKNEIVTSCLFIVLFNIFSTVIGLPISFYHHF 319
G L + E Y K+ ++ L L +H
Sbjct: 46 GVALSLGVSLFSLAALLLPEQFPHYVAVVKSLSLSPALIYSA------KFALVFPLSYHT 99
Query: 320 VLEEKHGFNKQTYGFFVKDQIKSFIVSLILSIPLTGAV 357
+H GF + +S +V LIL++ + A+
Sbjct: 100 WNGIRHLVWDMGKGFKLSQVEQSGVVVLILTLLSSAAI 137
>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 = 31.5 bits (70), Expect = 0.40
Identities = 12/61 (19%), Positives = 15/61 (24%), Gaps = 38/61 (62%)
Query: 450 KFPLKKLYVVEGSKRSEHSNAYFYGFFKNKRIVLFDTLLKDYVPLNADKKDKAGDSEPLI 509
K LKKL + S LK Y DS P +
Sbjct: 19 KQALKKL---QAS-------------------------LKLYAD----------DSAPAL 40
Query: 510 S 510
+
Sbjct: 41 A 41
Score = 29.9 bits (66), Expect = 1.5
Identities = 8/36 (22%), Positives = 12/36 (33%), Gaps = 15/36 (41%)
Query: 98 KN--KRIVLFDTLLKDYVPLNADKKDKSGDSEPLIS 131
K K++ LK Y DS P ++
Sbjct: 19 KQALKKL---QASLKLYAD----------DSAPALA 41
Score = 29.1 bits (64), Expect = 2.4
Identities = 7/19 (36%), Positives = 11/19 (57%), Gaps = 5/19 (26%)
Query: 439 KSRIEQLSASVKFPLKKLY 457
K +++L AS+ KLY
Sbjct: 19 KQALKKLQASL-----KLY 32
Score = 28.0 bits (61), Expect = 5.4
Identities = 8/22 (36%), Positives = 14/22 (63%), Gaps = 3/22 (13%)
Query: 586 KEAMKEKDNVMAKLKVLSTDKA 607
K+A+K+ + A LK+ + D A
Sbjct: 19 KQALKK---LQASLKLYADDSA 37
>3vr8_C Cytochrome B-large subunit; membrane protein, reductase,
mitochondria MEMB oxidoreductase; HET: FAD HEM RQX EPH;
2.81A {Ascaris suum} PDB: 3vrb_C*
Length = 188
Score = 31.4 bits (70), Expect = 0.59
Identities = 11/105 (10%), Positives = 27/105 (25%), Gaps = 7/105 (6%)
Query: 258 NLGFPALLVCNGLPYFWSKSEELG-ETYFGFHKNEIVTSCLFIVLFNIFSTVIGLPISFY 316
+ A+ + L T+ F + + + +
Sbjct: 76 RVTGCAMAGTLLIGGVGFSVLPLDFTTFVEFIRGLGIPWVILDT------FKFIIAFPIA 129
Query: 317 HHFVLEEKHGFNKQTYGFFVKDQIKSFIVSLILSIPLTGAVVYII 361
H + + G + + + L L+ ++ AVV
Sbjct: 130 FHTLNGIRFIGFDMAKGTDIPSIYRGAYLVLGLAALISLAVVVYP 174
>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1
PDB: 2tma_A 2w49_A 2w4u_A
Length = 284
Score = 30.0 bits (67), Expect = 2.3
Identities = 10/71 (14%), Positives = 25/71 (35%)
Query: 546 LKKEFGVANKEREASVMRYVTKESELITARQDREAAEKKYKEAMKEKDNVMAKLKVLSTD 605
+KK+ + ++E ++ R E++ A + E + K+ +L S
Sbjct: 4 IKKKMQMLKLDKENALDRADEAEADKKAAEDRSKQLEDELVSLQKKLKATEDELDKYSEA 63
Query: 606 KARLTQLYDDK 616
+ +
Sbjct: 64 LKDAQEKLELA 74
>2b9c_A Striated-muscle alpha tropomyosin; alpha-helix, coiled coil,
alanine, axial stagger, radius, SIDE-chain packing,
crystal packing; 2.30A {Rattus norvegicus} SCOP: h.1.5.1
Length = 147
Score = 28.1 bits (62), Expect = 4.6
Identities = 13/49 (26%), Positives = 22/49 (44%), Gaps = 4/49 (8%)
Query: 568 ESELITARQDREAAEKKYKEAMKEKDNVMAKLKVL----STDKARLTQL 612
E EL A++ A +K +EA K D +KV+ D+ ++
Sbjct: 9 EEELDRAQERLATALQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQ 57
>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon,
coiled post-transcriptional, gene regulation, chaperone;
HET: EPE; 2.20A {Helicobacter pylori}
Length = 256
Score = 28.5 bits (63), Expect = 5.4
Identities = 8/65 (12%), Positives = 22/65 (33%)
Query: 536 KYNHVLKSMILKKEFGVANKEREASVMRYVTKESELITARQDREAAEKKYKEAMKEKDNV 595
+ + ++E N E + + R E+ + + + +K ++ KE +
Sbjct: 78 SIQKKMSEIKSERELRSLNIEEDIAKERSNQANREIENLQNEIKRKSEKQEDLKKEMLEL 137
Query: 596 MAKLK 600
Sbjct: 138 EKLAL 142
>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter,
lipid flippase, hydrolase, inner membrane, lipid
transport, membrane; 5.50A {Vibrio cholerae}
Length = 582
Score = 28.7 bits (65), Expect = 6.3
Identities = 19/130 (14%), Positives = 45/130 (34%), Gaps = 24/130 (18%)
Query: 335 FVKDQIKSFIVSLILSIPLTGAVVYIIQTYGFFVKDQIKSFIVSLILSIPLTGAVVYIIQ 394
+++ +VS I + A Y+I + + + + + +P + ++
Sbjct: 19 YIRLYKAGLVVSTIALVINAAADTYMISLLKPLLDEGFGNAESNFLRILPFMILGLMFVR 78
Query: 395 VGGNMVFLYLWVFI---ILMSLFLMTIYPEFIAPLFDKYTPLPD--------GELKSRI- 442
Y ++ ++M + LF+ + +P G L SRI
Sbjct: 79 GLSGFASSYCLSWVSGNVVMQMRRR---------LFNHFMHMPVRFFDQESTGGLLSRIT 129
Query: 443 ---EQLSASV 449
EQ++ +
Sbjct: 130 YDSEQVAGAT 139
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
0.325 0.140 0.411
Gapped
Lambda K H
0.267 0.0762 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 9,355,651
Number of extensions: 566915
Number of successful extensions: 1429
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1397
Number of HSP's successfully gapped: 35
Length of query: 623
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 524
Effective length of database: 3,937,614
Effective search space: 2063309736
Effective search space used: 2063309736
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 60 (26.8 bits)