RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1367
(381 letters)
>2yim_A Probable alpha-methylacyl-COA racemase MCR (2-methylacyl-COA
racemase) (2-arylpropionyl-COA...; isomerase, methyl-COA
racemase; HET: MC4; 1.41A {Mycobacterium tuberculosis}
PDB: 2gce_A* 1x74_A* 2gd0_A* 2gd2_A* 2gd6_A* 2gci_A*
Length = 360
Score = 520 bits (1341), Expect = 0.0
Identities = 158/360 (43%), Positives = 216/360 (60%), Gaps = 11/360 (3%)
Query: 1 MA--LKGITVLEFAGLAPAPFCGMILNEFGATVIRIDKHGAQPFV-QDTVGYGKKSLCIN 57
MA L G+ V+E AG+ P P MIL + GA V+RID+ + + +D + ++ + +
Sbjct: 1 MAGPLSGLRVVELAGIGPGPHAAMILGDLGADVVRIDRPSSVDGISRDAMLRNRRIVTAD 60
Query: 58 LKKAKGLSVMKNLANQSDVILEPFRKGVMEKLQLGPDVLCKSNPRLIYARLSGYGQDGPY 117
LK +GL + L ++DV++E +R GV E+L LGP+ K N RLIYAR++G+GQ GP
Sbjct: 61 LKSDQGLELALKLIAKADVLIEGYRPGVTERLGLGPEECAKVNDRLIYARMTGWGQTGPR 120
Query: 118 SSMAGHDINYLGLSGILSLLGWRNRNPTPPCNLAADFGGGGLMCALGIVMALFERSKSGR 177
S AGHDINY+ L+GIL +G + P PP NL DFGGG + +GI+ AL+ER SG+
Sbjct: 121 SQQAGHDINYISLNGILHAIGRGDERPVPPLNLVGDFGGGSMFLLVGILAALWERQSSGK 180
Query: 178 GQVIDCNMVEGSAYLGSWLTRTQDTFLWDKPRGENLLDGGAHFYDTYETKDGRFMAVGAL 237
GQV+D MV+GS+ L + + T +W RG N+LDGGA +YDTYE DGR++AVGA+
Sbjct: 181 GQVVDAAMVDGSSVLIQMMWAMRATGMWTDTRGANMLDGGAPYYDTYECADGRYVAVGAI 240
Query: 238 ESQFYAQLLAGLGMTEEELPQH----EVETGRAKLTEKFKEKTQAEWCEIFDNTDACVTP 293
E QFYA +LAGLG+ ELP RA LTE F + W +F N+DACVTP
Sbjct: 241 EPQFYAAMLAGLGLDAAELPPQNDRARWPELRALLTEAFASHDRDHWGAVFANSDACVTP 300
Query: 294 VLSLSQATSHPHNVHRGSFIPNRAGVVAPAPAPRLSRTPGTSKITEHNPAPGVHTREVLR 353
VL+ + + PH + R +F G P PAPR SRT + PA + VL
Sbjct: 301 VLAFGEVHNEPHIIERNTFY-EANGGWQPMPAPRFSRTASS---QPRPPAATIDIEAVLT 356
>2g04_A Probable fatty-acid-COA racemase FAR; isomerase; 2.70A
{Mycobacterium tuberculosis}
Length = 359
Score = 508 bits (1310), Expect = 0.0
Identities = 153/357 (42%), Positives = 213/357 (59%), Gaps = 12/357 (3%)
Query: 2 ALKGITVLEFAGLAPAPFCGMILNEFGATVIRIDKHGAQPFV---QDTVGYGKKSLCINL 58
L G+ V+E G+ P P GM+L + GA V+R+ + G +D + GK+ + +++
Sbjct: 6 PLAGVKVIELGGIGPGPHAGMVLADLGADVVRVRRPGGLTMPSEDRDLLHRGKRIVDLDV 65
Query: 59 KKAKGLSVMKNLANQSDVILEPFRKGVMEKLQLGPDVLCKSNPRLIYARLSGYGQDGPYS 118
K M LA ++DV+L+ FR G E+L +GPD NPRLI+AR++G+GQDGP +
Sbjct: 66 KTQPQ--AMLELAAKADVLLDCFRPGTCERLGIGPDDCASVNPRLIFARITGWGQDGPLA 123
Query: 119 SMAGHDINYLGLSGILSLLGWRNRNPTPPCNLAADFGGGGLMCALGIVMALFERSKSGRG 178
S AGHDINYL +G L+ G+ +R P PP NL ADFGGG ++ LGIV+AL+ER +SG G
Sbjct: 124 STAGHDINYLSQTGALAAFGYADRPPMPPLNLVADFGGGSMLVLLGIVVALYERERSGVG 183
Query: 179 QVIDCNMVEGSAYLGSWLTRTQDTFLWDKPRGENLLDGGAHFYDTYETKDGRFMAVGALE 238
QV+D MV+G + L + + R LLDGGA FY YET DG++MAVGA+E
Sbjct: 184 QVVDAAMVDGVSVLAQMMWTMKGIGSLRDQRESFLLDGGAPFYRCYETSDGKYMAVGAIE 243
Query: 239 SQFYAQLLAGLGMTEEELP-QHEVETG---RAKLTEKFKEKTQAEWCEIFDNTDACVTPV 294
QF+A LL+GLG++ ++P Q +V E+F +T+ EW +F TDACVTPV
Sbjct: 244 PQFFAALLSGLGLSAADVPTQLDVAGYPQMYDIFAERFASRTRDEWTRVFAGTDACVTPV 303
Query: 295 LSLSQATSHPHNVHRGSFIPNRAGVVAPAPAPRLSRTPGTSKITEHNPAPGVHTREV 351
L+ S+A ++ H R + I GV APAPR SRTP PA E+
Sbjct: 304 LAWSEAANNDHLKARSTVI-TAHGVQQAAPAPRFSRTPAG--PVRPPPAAATPIDEI 357
>1q7e_A Hypothetical protein YFDW; structural genomics, intertwined dimer,
PSI, protein structu initiative; HET: MSE; 1.60A
{Escherichia coli} SCOP: c.123.1.1 PDB: 1pqy_A* 1q6y_A*
1pt7_A 1pt5_A 1pt8_A*
Length = 428
Score = 280 bits (719), Expect = 1e-91
Identities = 94/423 (22%), Positives = 155/423 (36%), Gaps = 61/423 (14%)
Query: 2 ALKGITVLEFAGLAPAPFCGMILNEFGATVIRIDKHGA--------QPFVQDTVGY---- 49
L+GI VL+F G+ P C +L FGA VI+I++ G + Y
Sbjct: 6 PLQGIKVLDFTGVQSGPSCTQMLAWFGADVIKIERPGVGDVTRHQLRDIPDIDALYFTML 65
Query: 50 --GKKSLCINLKKAKGLSVMKNLANQSDVILEPFRKGVMEKLQLGPDVLCKSNPRLIYAR 107
K+S+ +N K A+G VM+ L ++D+++E F G ++ + + + + NPRLI+
Sbjct: 66 NSNKRSIELNTKTAEGKEVMEKLIREADILVENFHPGAIDHMGFTWEHIQEINPRLIFGS 125
Query: 108 LSGYGQDGPYSSMAGHDINYLGLSGILSLLGWRNRNPTPPCNLAADFGGGGLMCALGIVM 167
+ G+ + PY ++ ++ G S G+ + P D G+ +G++
Sbjct: 126 IKGFDECSPYVNVKAYENVAQAAGGAASTTGFWDGPPLVSAAALGDS-NTGMHLLIGLLA 184
Query: 168 ALFERSKSGRGQVIDCNMVEGSAYLGSWLTRTQDTFLWDKPRGENLLD------------ 215
AL R K+GRGQ + +M + L R Q E
Sbjct: 185 ALLHREKTGRGQRVTMSMQDAVLNLCRVKLRDQQRLDKLGYLEEYPQYPNGTFGDAVPRG 244
Query: 216 GGAHF---------YDTYETKDGRFMAVGALESQFYAQLLAGLGMTEEELPQHE------ 260
G A +ET ++ E + +G E
Sbjct: 245 GNAGGGGQPGWILKCKGWETDPNAYIYFTIQEQNW-ENTCKAIGK--PEWITDPAYSTAH 301
Query: 261 -----VETGRAKLTEKFKEKTQAEWCEIFDNTDACVTPVLSLSQATSHPHNVHRGSFI-- 313
+ A++ + + E D PVLS+ + + P GS +
Sbjct: 302 ARQPHIFDIFAEIEKYTVTIDKHEAVAYLTQFDIPCAPVLSMKEISLDPSLRQSGSVVEV 361
Query: 314 --PNRAGVVAPAPAPRLSRTPGTSKITEHNPAP--GVHTREVLRHFGYSDANIEELIRED 369
P R + + S K AP G HT VL+ GYSD I + +
Sbjct: 362 EQPLRGKYLTVGCPMKFSAFTPDIK-----AAPLLGEHTAAVLQELGYSDDEIAAMKQNH 416
Query: 370 VIE 372
IE
Sbjct: 417 AIE 419
>1xk7_A Crotonobetainyl-COA:carnitine COA-transferase; CAIB,
montreal-kingston bacterial structural genomics
initiative, BSGI, structural genomics; 1.60A
{Escherichia coli} SCOP: c.123.1.1 PDB: 1xk6_A 1xvt_A*
1xvu_A* 1xvv_A* 1xa3_A* 1xa4_A*
Length = 408
Score = 275 bits (705), Expect = 1e-89
Identities = 89/403 (22%), Positives = 153/403 (37%), Gaps = 43/403 (10%)
Query: 2 ALKGITVLEFAGLAPAPFCGMILNEFGATVIRI------DKHGAQPFVQDTVGYGKKSLC 55
L G+ V+ PF G + E+GA VI I D QP +L
Sbjct: 14 PLAGLRVVFSGIEIAGPFAGQMFAEWGAEVIWIENVAWADTIRVQPNYPQLSRRNLHALS 73
Query: 56 INLKKAKGLSVMKNLANQSDVILEPFRKGVMEKLQLGPDVLCKSNPRLIYARLSGYGQDG 115
+N+ K +G L +D+ +E + + + +VL + NP+L+ A LSG+GQ G
Sbjct: 74 LNIFKDEGREAFLKLMETTDIFIEASKGPAFARRGITDEVLWQHNPKLVIAHLSGFGQYG 133
Query: 116 P--YSSMAGHDINYLGLSGILSLLGWRNRNPTPPCNLAADFGGGGLMCALGIVMALFERS 173
Y+++ ++ SG L G ++ AD+ GL + AL +
Sbjct: 134 TEEYTNLPAYNTIAQAFSGYLIQNGDVDQPMPAFPYT-ADY-FSGLTATTAALAALHKVR 191
Query: 174 KSGRGQVIDCNMVEGSAYLGSWLTRTQDTFLWDKPRGENLLDGGAHF----YDTYETKDG 229
++G+G+ ID M E +G + PR + G Y+ DG
Sbjct: 192 ETGKGESIDIAMYEVMLRMGQYFMMDYFNGGEMCPR----MSKGKDPYYAGCGLYKCADG 247
Query: 230 RFMAVGALESQFYAQLLAGLGMTEEELPQHE--------VETGR--------AKLTEKFK 273
++ + + + +G+ L + KL
Sbjct: 248 -YIVMELVGITQIEECFKDIGL--AHLLGTPEIPEGTQLIHRIECPYGPLVEEKLDAWLA 304
Query: 274 EKTQAEWCEIFDNTDACVTPVLSLSQATSHPHNVHRGSFI----PNRAGVVAPAPAPRLS 329
T AE E F + VL++ + S+P V R S + P P+
Sbjct: 305 THTIAEVKERFAELNIACAKVLTVPELESNPQYVARESITQWQTMDGRTCKGPNIMPKFK 364
Query: 330 RTPGTSKITEHNPAPGVHTREVLRHFGYSDANIEELIREDVIE 372
PG I P+ G+ T +L++ GYS+ +I+EL+ + + +
Sbjct: 365 NNPGQ--IWRGMPSHGMDTAAILKNIGYSENDIQELVSKGLAK 405
>2vjq_A Formyl-coenzyme A transferase; class III COA transferase; HET: EPE;
1.8A {Oxalobacter formigenes} PDB: 2vjp_A 2vjm_A*
2vjl_A* 2vjk_A* 1p5h_A 1p5r_A* 2vjn_A* 1t4c_A* 2vjo_A*
2vjm_B* 1vgr_A* 1t3z_A* 1t4c_B* 1vgq_A*
Length = 428
Score = 267 bits (685), Expect = 2e-86
Identities = 84/432 (19%), Positives = 151/432 (34%), Gaps = 69/432 (15%)
Query: 2 ALKGITVLEFAGLAPAPFCGMILNEFGATVIRIDKHGA--------QPFVQDTVGY---- 49
L GI VL+F + P C ++ GA VI+I++ G+ Q Y
Sbjct: 4 PLDGINVLDFTHVQAGPACTQMMGFLGANVIKIERRGSGDMTRGQLQDKPNVDSLYFTMF 63
Query: 50 --GKKSLCINLKKAKGLSVMKNLANQSDVILEPFRKGVMEKLQLGPDVLCKSNPRLIYAR 107
K+S+ +++K +G +++ + ++DV++E F G ++++ + + + NPR+I A
Sbjct: 64 NCNKRSIELDMKTPEGKELLEQMIKKADVMVENFGPGALDRMGFTWEYIQELNPRVILAS 123
Query: 108 LSGYGQDGPYSSMAGHDINYLGLSGILSLLGWRNRNPTPPCNLAADFGGGGLMCALGIVM 167
+ GY + + ++ G + G+ + PT D G+ +GI+
Sbjct: 124 VKGYAEGHANEHLKVYENVAQCSGGAAATTGFWDGPPTVSGAALGDS-NSGMHLMIGILA 182
Query: 168 ALFERSKSGRGQVIDCNMVEGSAYLGSWLTRTQDTFLWDKPRGENLLD------------ 215
AL R K+GRGQ + M + L R Q E
Sbjct: 183 ALEIRHKTGRGQKVAVAMQDAVLNLVRIKLRDQQRLERTGILAEYPQAQPNFAFDRDGNP 242
Query: 216 ------------GGAHF----YDTYETK-----DGRFMAVGALESQFYAQLLAGLGMTEE 254
G A + K ++ + + Q+ +
Sbjct: 243 LSFDNITSVPRGGNAGGGGQPGWMLKCKGWETDADSYVYFTIAANMW-PQICDMIDK--P 299
Query: 255 ELPQHE-----------VETGRAKLTEKFKEKTQAEWCEIFDNTDACVTPVLSLSQATSH 303
E + + + KF +K + E E PV+S+ +
Sbjct: 300 EWKDDPAYNTFEGRVDKLMDIFSFIETKFADKDKFEVTEWAAQYGIPCGPVMSMKELAHD 359
Query: 304 PHNVHRGSFI----PNRAGVVAPAPAPRLSRTPGTSKITEHNPAPGVHTREVLRHFGYSD 359
P G+ + R + + S P G HT EVL+ G D
Sbjct: 360 PSLQKVGTVVEVVDEIRGNHLTVGAPFKFSGFQPE---ITRAPLLGEHTDEVLKELGLDD 416
Query: 360 ANIEELIREDVI 371
A I+EL + V+
Sbjct: 417 AKIKELHAKQVV 428
>3ubm_A COAT2, formyl-COA:oxalate COA-transferase; HET: COA; 1.99A
{Acetobacter aceti}
Length = 456
Score = 268 bits (687), Expect = 2e-86
Identities = 94/433 (21%), Positives = 156/433 (36%), Gaps = 71/433 (16%)
Query: 2 ALKGITVLEFAGLAPAPFCGMILNEFGATVIRIDKHGA--------QPFVQDTVGY---- 49
L GI V++F G+ P +L +GA VI+I++ G + Y
Sbjct: 30 PLDGIKVIDFGGVQSVPSAAQLLAWYGADVIKIERVGVGDITRNQLRDIPDADALYFTML 89
Query: 50 --GKKSLCINLKKAKGLSVMKNLANQSDVILEPFRKGVMEKLQLGPDVLCKSNPRLIYAR 107
K+S+ +N K +G +V + +D++LE FR G ME++ + L + NPRLIY
Sbjct: 90 NCNKRSVELNTKTPEGKAVFEKCIKWADILLENFRPGAMERMGFTWEYLQQLNPRLIYGT 149
Query: 108 LSGYGQDGPYSSMAGHDINYLGLSGILSLLGWRNRNPTPPCNLAADFGGG---------- 157
+ G+G++ P++ ++ ++ G S G+ N P + G
Sbjct: 150 VKGFGENSPWAGVSAYENVAQCAGGATSTTGYWNGAPLVDGQAPGNNNGPLVSAAALGDS 209
Query: 158 --GLMCALGIVMALFERSKSGRGQVIDCNMVEGSAYLGSWLTRTQDTFLWDKPRGENLLD 215
G +G++ ALF R ++G+GQ I +M + L R Q E
Sbjct: 210 NTGNHLLIGVLAALFGRERTGKGQKISVSMQDAVLNLCRVKLRDQQRLERVGYLEEYPQY 269
Query: 216 ------------GGAHF---------YDTYETKDGRFMAVGALESQFYAQLLAGLGMTEE 254
G A +ET D ++ E + +G
Sbjct: 270 PNGKFGDTVPRGGNAGGGGQPGWILKCKGWETDDNAYIYCTVQEQDW-GPTCEAIGK--P 326
Query: 255 ELPQHE-----------VETGRAKLTEKFKEKTQAEWCEIFDNTDACVTPVLSLSQATSH 303
E + A + + +KT+ E +PVLS+ +
Sbjct: 327 EWATDPKYNTAKARETHMFEIFAAIEKAIADKTKYEAVAHLAKYRVPCSPVLSMKEIAEA 386
Query: 304 PHNVHRGSFIP---NRAGVVAPAPAPRLSRTPGTSKITEHNPAP--GVHTREVLRHFGYS 358
P G+ + + G + S K AP G HT EVL GYS
Sbjct: 387 PDLRESGTIVEVQQPKRGTFLTINPIKFSGFTPEIK-----AAPLLGQHTDEVLAELGYS 441
Query: 359 DANIEELIREDVI 371
I+ L + +
Sbjct: 442 AEEIKSLRDKKIT 454
>4ed9_A CAIB/BAIF family protein; ssgcid, NIH, niaid, SBRI, UW, emerald
biostructures, structu genomics; HET: NHE; 1.95A
{Brucella suis}
Length = 385
Score = 241 bits (617), Expect = 9e-77
Identities = 94/401 (23%), Positives = 157/401 (39%), Gaps = 68/401 (16%)
Query: 1 MALKGITVLEFAGLAPAPFCGMILNEFGATVIRIDKHG-------AQPFVQDTVG----Y 49
L G+ V+E A + P+ G L + GA VI+++ PF+ Y
Sbjct: 8 TPLDGLKVVELARILAGPWVGQTLCDLGADVIKVESPEGDDTRTWGPPFIDVEGERSAAY 67
Query: 50 ------GKKSLCINLKKAKGLSVMKNLANQSDVILEPFRKGVMEKLQLGPDVLCKSNPRL 103
GK+S+ + + +G +++ L ++DV++E F+ G ++K L + L NP+L
Sbjct: 68 FHACNRGKRSITADFRTEEGRELVRRLVAEADVVIENFKLGGLDKYGLDYESLKAINPQL 127
Query: 104 IYARLSGYGQDGPYSSMAGHDINYLGLSGILSLLGWRNRNPT----PPCNLAADFGGGGL 159
IY ++G+G GPY+ AG+D G+ GI+ L G +R P ++ GL
Sbjct: 128 IYCSITGFGHTGPYAERAGYDFMIQGMGGIMDLTGEPDREPQKIGVAFADIFT-----GL 182
Query: 160 MCALGIVMALFERSKSGRGQVIDCNMVEGS----AYLGS-WLTRTQDTFLWDKPRGENLL 214
+ I AL R+++G+GQ ID + + A +L +
Sbjct: 183 YSVIAIQSALIMRARTGKGQHIDMALFDCMSGVLANQAMNYLASGKSPKRM--------- 233
Query: 215 DGGAHF----YDTYETKDGRFM-AVGALESQFYAQLLAGLGMTEEELPQHE--------- 260
G AH Y T DG F+ A G + QF +L LG+ EL + E
Sbjct: 234 -GNAHPNIAPYQTLSVSDGYFIIACGN-DGQF-GKLSTLLGI--GELAKDERFATNSARV 288
Query: 261 --VETGRAKLTEKFKEKTQAEWCEIFDNTDACVTPVLSLSQATSHPHNVHRGSFIPNRAG 318
A L E+ K+ + + P+ +++ + P RG I + G
Sbjct: 289 ANRAALTALLEERTKQWKRDDLLAELAKIGVPAGPINTVADVFADPQFKARGMKI-DPQG 347
Query: 319 VVAPAPAPRLSRTPGTSKITEHNPAP--GVHTREVLRHFGY 357
V R S + +P H +
Sbjct: 348 VPGLRTPIRFSDADLKL----DSRSPKLNEHGAAIRAELDK 384
>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 = 50.0 bits (119), Expect = 9e-07
Identities = 63/369 (17%), Positives = 117/369 (31%), Gaps = 124/369 (33%)
Query: 40 QPFVQDTVGYGKKSLCINLKKAKGLSVMKNLANQSDVILEPFRKG--VMEKLQLGPDVLC 97
V D + + ++L L + + F +G ++E L+ P
Sbjct: 181 HVLVGDLIKFSAETL-------------SELIRTTLDAEKVFTQGLNILEWLE-NPS--- 223
Query: 98 KSNPRLIYARLSGYGQDGPYSSMAGHDINYLGLSGILSL---------LGWRNRNPTPPC 148
+ P Y L P S L G++ L LG+ P
Sbjct: 224 -NTPDKDY--LLSI----PIS---------CPLIGVIQLAHYVVTAKLLGFT------PG 261
Query: 149 NLAADFGGGGLMCALGIVMALFERSKSGRGQVIDCNMVEGSAYLGSWL-TRTQDTFLWDK 207
L + G + G+V A+ +++ + ++ + L ++ R + +
Sbjct: 262 ELRSYLKGA-TGHSQGLVTAVA-IAETDSWESFFVSVRKAITVL-FFIGVRCYEAY---- 314
Query: 208 PRGE---NLLDGGAHFYDTYETKDGR--FM-AVGALESQFYAQLLAGLGMTEEELPQHE- 260
P ++L+ D+ E +G M ++ L Q+ + T LP +
Sbjct: 315 PNTSLPPSILE------DSLENNEGVPSPMLSISNLT---QEQVQDYVNKTNSHLPAGKQ 365
Query: 261 VETGRAKLTEKFKEKTQAEWCEIFDNTDAC--VT-PVLSLSQATSHPHNVHRGSFIPNRA 317
VE L N V+ P SL
Sbjct: 366 VEIS---LV----------------NGAKNLVVSGPPQSLYGLNLTLRKAK--------- 397
Query: 318 GVVAPAPAPRLSRTPGTS-KITEHN---P--APGVHTREVLRHFGYSDANIEELIREDVI 371
AP+ + SR P + K+ N P +P H+ H A+ +LI +D++
Sbjct: 398 ---APSGLDQ-SRIPFSERKLKFSNRFLPVASP-FHS-----HL-LVPAS--DLINKDLV 444
Query: 372 EETIEMNSK 380
+ + N+K
Sbjct: 445 KNNVSFNAK 453
Score = 47.4 bits (112), Expect = 7e-06
Identities = 56/261 (21%), Positives = 81/261 (31%), Gaps = 93/261 (35%)
Query: 2 ALKGITVLEFAGL-------------------------APAP---FCGMILNEFGATVIR 33
K ITVL F G+ P+P + + V +
Sbjct: 296 VRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNK 355
Query: 34 IDKH-------------GAQPFVQDTV-G-----YGKKSLCINLKKAKGLSVMKNLANQS 74
+ H GA+ V V G YG L + L+KAK S + +QS
Sbjct: 356 TNSHLPAGKQVEISLVNGAKNLV---VSGPPQSLYG---LNLTLRKAKAPSGL----DQS 405
Query: 75 DVILEPFRKGVMEKLQLGPDVLCKSNP----------RLIYARLSGYGQDGPYSSMA--- 121
+ PF + KL+ L ++P LI L +
Sbjct: 406 RI---PFSE---RKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPV 459
Query: 122 -----GHDINYLGLSGILSLLGWRNRNP---TPPCNLAA----DFGGGGLMCALGIVMAL 169
G D+ L S ++ R P A DFG GG LG L
Sbjct: 460 YDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGA-SGLG---VL 515
Query: 170 FERSKSGRG-QVIDCNMVEGS 189
R+K G G +VI ++ +
Sbjct: 516 THRNKDGTGVRVIVAGTLDIN 536
Score = 44.7 bits (105), Expect = 5e-05
Identities = 38/199 (19%), Positives = 61/199 (30%), Gaps = 52/199 (26%)
Query: 21 GMILNEFGATVI------RIDKHGAQPF---VQDTVGYGKKSLCINLKKAKGLSVMKNL- 70
GM ++ + + R D H + + D V +L I+ KG + +N
Sbjct: 1630 GMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYS 1689
Query: 71 ----ANQSD--VILEPFRKGVMEKLQL----GPDVLCK--SN--PRL------IYARLSG 110
D + E K + E L P L + L
Sbjct: 1690 AMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKS 1749
Query: 111 YGQDGPYSSMAGHDINYLG-------LSGILS------LLGWRNRNPTPPCNLAADFGGG 157
G ++ AGH LG L+ ++S ++ R T + D G
Sbjct: 1750 KGLIPADATFAGHS---LGEYAALASLADVMSIESLVEVV--FYRGMTMQVAVPRDELGR 1804
Query: 158 GL--MCAL--GIVMALFER 172
M A+ G V A F +
Sbjct: 1805 SNYGMIAINPGRVAASFSQ 1823
Score = 39.6 bits (92), Expect = 0.002
Identities = 71/451 (15%), Positives = 116/451 (25%), Gaps = 194/451 (43%)
Query: 34 IDKHGAQPFVQDTVGYGKKSLCINLKKAKGLSVMKNLANQSDVILEPFRKGVMEKLQ-LG 92
+D + +P T+ +G SL L V + + E F K + E +
Sbjct: 1 MDAYSTRPL---TLSHG--SL------EHVLLVPTASFFIASQLQEQFNKILPEPTEGFA 49
Query: 93 PDVLCKSNPRLIYARLSGY-------GQDGPYSS-------------MAGHDI------- 125
D + L + GY + G + + G+DI
Sbjct: 50 ADDEPTTPAEL-VGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKL 108
Query: 126 ----------------NYLGLSGILSLLGWRNRNPTPPCNL--AADFGGGGLMCALGIVM 167
NY+ + R + L A G L+
Sbjct: 109 LQENDTTLVKTKELIKNYITARIMAK----RPFDKKSNSALFRAVGEGNAQLV------- 157
Query: 168 ALFERSKSGRGQVIDCNMVEGSAYLGSWLTRTQDTFLWDKPRGENLLDGGAHFYDTYETK 227
A+F G GQ G+ T D F E L Y TY
Sbjct: 158 AIF-----G-GQ-------------GN----TDDYF-------EEL----RDLYQTYHVL 183
Query: 228 DGRFMAVGALESQFYAQLLAGLGMTEEELPQHEVETGRAKLTEKFKEKTQAEWCEIFDNT 287
G + +F A+ L EL + ++ + T+ EW E NT
Sbjct: 184 VGDLI-------KFSAETL-------SELIRTTLDAEKV-FTQGLNIL---EWLENPSNT 225
Query: 288 -------DACVT-PVLSLSQ-----ATSHPHNVHRGSFIPNRAG--------VVAPAPA- 325
++ P++ + Q T+ G G V A A A
Sbjct: 226 PDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAE 285
Query: 326 -----------------------------PRLSRTPGTSKITEHN----PAP--GVHTRE 350
P S P + + N P+P +
Sbjct: 286 TDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSIS--- 342
Query: 351 VLRHFGYSDANIEELIREDVIEETIEMNSKL 381
+ +++ + + NS L
Sbjct: 343 -----NLTQEQVQDYVN--------KTNSHL 360
Score = 32.7 bits (74), Expect = 0.27
Identities = 42/257 (16%), Positives = 77/257 (29%), Gaps = 95/257 (36%)
Query: 164 GIVMALFERSKSGRGQV---IDCNMVEGSAYLGSWLTRTQD-----TFLWDKPRGENLLD 215
G+ M L++ SK+ + V D + + Y S L + T + +G+ + +
Sbjct: 1630 GMGMDLYKTSKAAQ-DVWNRADNHFKD--TYGFSILDIVINNPVNLTIHFGGEKGKRIRE 1686
Query: 216 GGAHFYD--TYET-KDGR------FMAVGALESQ--FYAQLLAGLGMTEEELPQHEVETG 264
Y +ET DG+ F + + F ++ + L
Sbjct: 1687 N----YSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSE--------KGLL-------- 1726
Query: 265 RAKLTEKFKEKTQ--------AEWCEI----FDNTD--------------ACVTPVLSLS 298
T+ F TQ A + ++ D A + V+S+
Sbjct: 1727 --SATQ-F---TQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIE 1780
Query: 299 QATSHPHNVH-RGSFIPNRAGVVAPAPAPRLSRTPGTSKITEHNPAPGVHTREVLRHFGY 357
V RG + A PR + NP R +
Sbjct: 1781 SLVEV---VFYRGMTM-QVA-------VPRDELGRSNYGMIAINPG-----RVAA---SF 1821
Query: 358 SDANIEELIREDVIEET 374
S ++ ++ E V + T
Sbjct: 1822 SQEALQYVV-ERVGKRT 1837
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 29.6 bits (66), Expect = 1.2
Identities = 14/60 (23%), Positives = 24/60 (40%), Gaps = 25/60 (41%)
Query: 146 PPC-----NLAADFGGGGLMCAL-GIVMALFERSKSGRGQVIDCNMVEGSAYLGSWLTRT 199
P C + F G ++CAL G+V++ ++ ++D S W RT
Sbjct: 25 PECKVYPPKIVERFSEGDVVCALCGLVLS--DK-------LVD----TRSE----W--RT 65
>1s6i_A CDPK, calcium-dependent protein kinase SK5; EF-hand,
helix-loop-helix, calcium-binding, calmodulin
superfamily, transferase, plant protein; NMR {Glycine
max} SCOP: a.39.1.5
Length = 188
Score = 29.1 bits (66), Expect = 1.6
Identities = 6/20 (30%), Positives = 14/20 (70%)
Query: 349 REVLRHFGYSDANIEELIRE 368
++ + FG D +I+++I+E
Sbjct: 105 QQACKDFGLDDIHIDDMIKE 124
>2aao_A CDPK, calcium-dependent protein kinase, isoform AK1;
calmodulin-like domain, EF calcium binding protein,
transferase; 2.00A {Arabidopsis thaliana}
Length = 166
Score = 28.6 bits (65), Expect = 2.0
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 349 REVLRHFGYSDANIEELIRE 368
++ FG D IEEL+R+
Sbjct: 122 QQACEEFGVEDVRIEELMRD 141
>3hfq_A Uncharacterized protein LP_2219; Q88V64_lacpl, NESG, LPR118,
structural genomics, PSI-2, protein structure
initiative; 1.96A {Lactobacillus plantarum}
Length = 347
Score = 28.5 bits (64), Expect = 3.7
Identities = 23/159 (14%), Positives = 39/159 (24%), Gaps = 35/159 (22%)
Query: 83 KGVMEKLQLGPDV-----LCKSNPRLIYARLSGYGQDGPYSSMAGHDINYLGLSGILSLL 137
+ L L S +Y+ ++ +A I+ L
Sbjct: 27 AKTLTNDGLLAATQNPTYLALSAKDCLYS----VDKEDDEGGIAAWQID----GQTAHKL 78
Query: 138 GWRNRNPTPPCNLAADFGGGGLMCA--LGIVMALFERSKSGRGQVIDCNMVEGSAYLGSW 195
TPP +A D + A + + + G + D G
Sbjct: 79 NTVVAPGTPPAYVAVDEARQLVYSANYHKGTAEVMKIAADGALTLTDTVQHSGH------ 132
Query: 196 LTRTQDTFLWDKPRGENLLDGGAHFYDTYETKDGRFMAV 234
G G+H + T T D R +
Sbjct: 133 --------------GPRPEQDGSHIHYTDLTPDNRLAVI 157
>3qnq_A PTS system, cellobiose-specific IIC component; membrane protein,
transporter, enzyme IIC, phosphoenolpyruva
phosphotransferase system; HET: CBS ZDM MAL CIT; 3.29A
{Bacillus cereus}
Length = 442
Score = 27.3 bits (61), Expect = 9.6
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 154 FGGGGLMCALGIVMALFERSKSGR 177
GG G AL + M LF RS+ +
Sbjct: 295 MGGSGATLALVVGMLLFARSQQLK 318
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
0.318 0.137 0.413
Gapped
Lambda K H
0.267 0.0814 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,915,985
Number of extensions: 360383
Number of successful extensions: 834
Number of sequences better than 10.0: 1
Number of HSP's gapped: 786
Number of HSP's successfully gapped: 24
Length of query: 381
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 286
Effective length of database: 4,049,298
Effective search space: 1158099228
Effective search space used: 1158099228
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 (26.0 bits)