RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 016215
(393 letters)
>3so4_A Methionine-adenosyltransferase; structural genomics, medical
structural genomics of pathogen protozoa, MSGPP; 3.18A
{Entamoeba histolytica}
Length = 415
Score = 748 bits (1935), Expect = 0.0
Identities = 233/387 (60%), Positives = 284/387 (73%), Gaps = 5/387 (1%)
Query: 1 METFLFTSESVNEGHPDKLCDQISDAVLDACLEQDPESKVACETCTKTNMVMVFGEITTK 60
F FTSESV+ GHPDK+CDQISDA+LDACL QDP+S VACET TKT +++V GEITT
Sbjct: 20 GSRFFFTSESVSGGHPDKMCDQISDAILDACLAQDPKSHVACETATKTGLILVLGEITTN 79
Query: 61 AKVDYEKIVRDTCRSIGFVSDDVGLDADHCKVLVNIEQQSPDIAQGVHGHFTKRPEDIGA 120
A +D KIVR +SIG+ + G D C VL +EQQS DIA+GVH K+ EDIGA
Sbjct: 80 AVIDIPKIVRGVVKSIGYDDTNKGFDYQTCSVLSCVEQQSQDIAKGVHVE--KKEEDIGA 137
Query: 121 GDQGHMFGYATDETSEFMPLSHVLATKLGARLTEVRKNSTCSWLRPDGKTQVTVEYYNDN 180
GDQG MFGYATDE+ E MPL+HVL+TKL RL E R+ WLRPD K+QVT+EY
Sbjct: 138 GDQGIMFGYATDESKEMMPLTHVLSTKLILRLQECREKGILPWLRPDSKSQVTLEYEEVE 197
Query: 181 GAMVPVRVHTVLISTQHDETVTNDEIAADLKEHVIKPVIPEKYLDEKTIFHLNPSGRFVI 240
G + P+RVHT++ISTQH + V+N+EIA L+E V + VIP++ +D+K + + NPSGRFVI
Sbjct: 198 GHLKPIRVHTIVISTQHADNVSNEEIAKGLEEEVTQKVIPKELMDDKMLRYYNPSGRFVI 257
Query: 241 GGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKSIVANGLAR 300
GGP GDAGLTGRKII+DTYGGWGAHGGGAFSGKD +KVDRSGAY R AKS+V GL
Sbjct: 258 GGPMGDAGLTGRKIIVDTYGGWGAHGGGAFSGKDSSKVDRSGAYCARWIAKSLVHAGLCH 317
Query: 301 RCIVQVSYAIGVPEPLSVFVDSYGTGKIPDKEILKIVKESFDFRPGMMTINLDLKRGGNG 360
R +VQ+SYAIGV PLS+ V++YGTG + ++ IV ++FD RPGM+ L L R
Sbjct: 318 RVLVQLSYAIGVSHPLSINVNTYGTGICDESILVDIVNKNFDMRPGMIIKELGLTR---P 374
Query: 361 RFLKTAAYGHFGRDDPDFTWEVVKPLK 387
F KTA GHFGR+DPDF WE K L+
Sbjct: 375 IFQKTAVGGHFGRNDPDFKWEFPKELE 401
>2p02_A S-adenosylmethionine synthetase isoform type-2; structural
genomics, structural genomics consortium, SGC,
transferase; HET: SAM; 1.21A {Homo sapiens} SCOP:
d.130.1.1 d.130.1.1 d.130.1.1 PDB: 1qm4_A 1o92_A*
1o93_A* 1o90_A* 1o9t_A 2obv_A*
Length = 396
Score = 742 bits (1917), Expect = 0.0
Identities = 251/388 (64%), Positives = 299/388 (77%), Gaps = 7/388 (1%)
Query: 1 METFLFTSESVNEGHPDKLCDQISDAVLDACLEQDPESKVACETCTKTNMVMVFGEITTK 60
TFLFTSESV EGHPDK+CDQISDAVLDA L+QDP++KVACET KT M+++ GEIT++
Sbjct: 16 EGTFLFTSESVGEGHPDKICDQISDAVLDAHLQQDPDAKVACETVAKTGMILLAGEITSR 75
Query: 61 AKVDYEKIVRDTCRSIGFVSDDVGLDADHCKVLVNIEQQSPDIAQGVHGHFTKRPEDIGA 120
A VDY+K+VR+ + IG+ G D C VLV +EQQSPDIAQGVH + EDIGA
Sbjct: 76 AAVDYQKVVREAVKHIGYDDSSKGFDYKTCNVLVALEQQSPDIAQGVHL--DRNEEDIGA 133
Query: 121 GDQGHMFGYATDETSEFMPLSHVLATKLGARLTEVRKNSTCSWLRPDGKTQVTVEYYNDN 180
GDQG MFGYATDET E MPL+ VLA KL A+L E+R+N T WLRPD KTQVTV+Y D
Sbjct: 134 GDQGLMFGYATDETEECMPLTIVLAHKLNAKLAELRRNGTLPWLRPDSKTQVTVQYMQDR 193
Query: 181 GAMVPVRVHTVLISTQHDETVTNDEIAADLKEHVIKPVIPEKYLDEKTIFHLNPSGRFVI 240
GA++P+RVHT++IS QHDE V DE+ LKE VIK V+P KYLDE TI+HL PSGRFVI
Sbjct: 194 GAVLPIRVHTIVISVQHDEEVCLDEMRDALKEKVIKAVVPAKYLDEDTIYHLQPSGRFVI 253
Query: 241 GGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKSIVANGLAR 300
GGP GDAGLTGRKII+DTYGGWGAHGGGAFSGKD TKVDRS AY R AKS+V GL R
Sbjct: 254 GGPQGDAGLTGRKIIVDTYGGWGAHGGGAFSGKDYTKVDRSAAYAARWVAKSLVKGGLCR 313
Query: 301 RCIVQVSYAIGVPEPLSVFVDSYGTGKIPDKEILKIVKESFDFRPGMMTINLDLKRGGNG 360
R +VQVSYAIGV PLS+ + YGT + ++E+L+IVK++FD RPG++ +LDLK+
Sbjct: 314 RVLVQVSYAIGVSHPLSISIFHYGTSQKSERELLEIVKKNFDLRPGVIVRDLDLKK---P 370
Query: 361 RFLKTAAYGHFGRDDPDFTWEVVKPLKW 388
+ +TAAYGHFGRD F WEV K LK+
Sbjct: 371 IYQRTAAYGHFGRD--SFPWEVPKKLKY 396
>3iml_A S-adenosylmethionine synthetase; structural genomics, ATP-BI
cobalt, magnesium, metal-binding, nucleotide-binding,
one-C metabolism; 2.35A {Burkholderia pseudomallei}
Length = 399
Score = 717 bits (1853), Expect = 0.0
Identities = 206/381 (54%), Positives = 258/381 (67%), Gaps = 8/381 (2%)
Query: 1 METFLFTSESVNEGHPDKLCDQISDAVLDACLEQDPESKVACETCTKTNMVMVFGEITTK 60
+LFTSESV+EGHPDK+ DQISDA+LDA L QD S+VA ET T +V++ GEITT
Sbjct: 6 ANDYLFTSESVSEGHPDKVADQISDAILDAILAQDKYSRVAAETLCNTGLVVLAGEITTT 65
Query: 61 AKVDYEKIVRDTCRSIGFVSDDVGLDADHCKVLVNIEQQSPDIAQGVHGHFTKRPEDIGA 120
A +DY +I RDT + IG+ + D G+D C VLV ++QSPDIAQGV D GA
Sbjct: 66 ANIDYIQIARDTIKRIGYDNTDYGIDYRGCAVLVAYDKQSPDIAQGVD-RAHDNNLDQGA 124
Query: 121 GDQGHMFGYATDETSEFMPLSHVLATKLGARLTEVRKNSTCSWLRPDGKTQVTVEYYNDN 180
GDQG MFGYA DET E MPL L+ +L R +R++ WLRPD K+QVTV Y +
Sbjct: 125 GDQGLMFGYACDETPELMPLPIHLSHRLVERQANLRRDGRLPWLRPDAKSQVTVRYVDGK 184
Query: 181 GAMVPVRVHTVLISTQHDETVTNDEIAADLKEHVIKPVIPEKYLDEKTIFHLNPSGRFVI 240
P + TV++STQH + + + E VIKP +P + F +NP+GRFVI
Sbjct: 185 ----PHSIDTVVLSTQHAPEIDLPALREAVIEEVIKPTLPADLIKGDIKFLVNPTGRFVI 240
Query: 241 GGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKSIVANGLAR 300
GGP GD GLTGRKII+DTYGG HGGGAFSGKDP+KVDRS AY R AK+IVA GLA
Sbjct: 241 GGPQGDCGLTGRKIIVDTYGGAAPHGGGAFSGKDPSKVDRSAAYAGRYVAKNIVAAGLAS 300
Query: 301 RCIVQVSYAIGVPEPLSVFVDSYGTGKIPDKEILKIVKESFDFRPGMMTINLDLKRGGNG 360
R ++QVSYAIGV EP SV V+++GTG++ D+ I K+V+E FD RP + LDL R
Sbjct: 301 RALIQVSYAIGVAEPTSVMVNTFGTGRVSDETITKLVREHFDLRPKGIIQMLDLLR---P 357
Query: 361 RFLKTAAYGHFGRDDPDFTWE 381
+ KTAAYGHFGR++P+F+WE
Sbjct: 358 IYEKTAAYGHFGREEPEFSWE 378
>3s82_A S-adenosylmethionine synthase; seattle structural genomics center
for infectious disease, S adenosylmethionine synthetase,
transferase; 1.73A {Mycobacterium avium} PDB: 3tde_A
3rv2_A
Length = 407
Score = 694 bits (1794), Expect = 0.0
Identities = 204/396 (51%), Positives = 251/396 (63%), Gaps = 22/396 (5%)
Query: 1 METFLFTSESVNEGHPDKLCDQISDAVLDACLEQDPESKVACETCTKTNMVMVFGEITTK 60
+ LFTSESV EGHPDK+CD ISD+VLDA L QDP S+VA ET T V V GE+TT
Sbjct: 7 EKGRLFTSESVTEGHPDKICDAISDSVLDALLAQDPRSRVAVETLVTTGQVHVVGEVTTT 66
Query: 61 AK---VDYEKIVRDTCRSIGFVSDDVGLDADHCKVLVNIEQQSPDIAQGVH-------GH 110
AK D VR+ IG+ S D G D C V + I QSPDIAQGV
Sbjct: 67 AKEAFADITNTVRERILDIGYDSSDKGFDGASCGVNIGIGAQSPDIAQGVDTAHETRVEG 126
Query: 111 FTKRPEDIGAGDQGHMFGYATDETSEFMPLSHVLATKLGARLTEVRKNSTCSWLRPDGKT 170
+ GAGDQG MFGYA ++T E MPL LA +L RLTEVRKN +LRPDGKT
Sbjct: 127 AADPLDAQGAGDQGLMFGYAINDTPERMPLPIALAHRLSRRLTEVRKNGVLPYLRPDGKT 186
Query: 171 QVTVEYYNDNGAMVPVRVHTVLISTQHDETVTND-----EIAADLKEHVIKPVIPEKYLD 225
QVT+E+ +D VPVR+ TV+ISTQH + + +I + V+ + +
Sbjct: 187 QVTIEFEDD----VPVRLDTVVISTQHAADIDLENTLTPDIREKVLNTVLNDLAHDTLDT 242
Query: 226 EKTIFHLNPSGRFVIGGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYI 285
T +NP+G+FV+GGP GDAGLTGRKII+DTYGGW HGGGAFSGKDP+KVDRS AY
Sbjct: 243 SSTRLLVNPTGKFVVGGPMGDAGLTGRKIIVDTYGGWARHGGGAFSGKDPSKVDRSAAYA 302
Query: 286 VRQAAKSIVANGLARRCIVQVSYAIGVPEPLSVFVDSYGTGKIPDKEILKIVKESFDFRP 345
+R AK+IVA GLA R VQV+YAIG P+ +F++++GT + +I KIV E FD RP
Sbjct: 303 MRWVAKNIVAAGLAERVEVQVAYAIGKAAPVGLFIETFGTATVDPVKIEKIVPEVFDLRP 362
Query: 346 GMMTINLDLKRGGNGRFLKTAAYGHFGRDDPDFTWE 381
G + +LDL R + +TAAYGHFGR D + WE
Sbjct: 363 GAIIRDLDLLR---PIYAQTAAYGHFGRTDVELPWE 395
>1p7l_A S-adenosylmethionine synthetase; AMPPNP, SAM, transferase; HET: SAM
ANP PPK; 2.50A {Escherichia coli} SCOP: d.130.1.1
d.130.1.1 d.130.1.1 PDB: 1fug_A 1mxb_A* 1mxc_A* 1mxa_A*
1rg9_A* 1xra_A 1xrb_A 1xrc_A
Length = 383
Score = 686 bits (1774), Expect = 0.0
Identities = 212/378 (56%), Positives = 261/378 (69%), Gaps = 12/378 (3%)
Query: 4 FLFTSESVNEGHPDKLCDQISDAVLDACLEQDPESKVACETCTKTNMVMVFGEITTKAKV 63
LFTSESV+EGHPDK+ DQISDAVLDA LEQDP+++VACET KT MV+V GEITT A V
Sbjct: 3 HLFTSESVSEGHPDKIADQISDAVLDAILEQDPKARVACETYVKTGMVLVGGEITTSAWV 62
Query: 64 DYEKIVRDTCRSIGFVSDDVGLDADHCKVLVNIEQQSPDIAQGVHGHFTKRPEDIGAGDQ 123
D E+I R+T R IG+V D+G DA+ C VL I +QSPDI QGV P + GAGDQ
Sbjct: 63 DIEEITRNTVREIGYVHSDMGFDANSCAVLSAIGKQSPDINQGVD---RADPLEQGAGDQ 119
Query: 124 GHMFGYATDETSEFMPLSHVLATKLGARLTEVRKNSTCSWLRPDGKTQVTVEYYNDNGAM 183
G MFGYAT+ET MP A +L R EVRKN T WLRPD K+QVT +Y +
Sbjct: 120 GLMFGYATNETDVLMPAPITYAHRLVQRQAEVRKNGTLPWLRPDAKSQVTFQYDDG---- 175
Query: 184 VPVRVHTVLISTQHDETVTNDEIAADLKEHVIKPVIPEKYLDEKTIFHLNPSGRFVIGGP 243
V + V++STQH E + + + E +IKP++P ++L T F +NP+GRFVIGGP
Sbjct: 176 KIVGIDAVVLSTQHSEEIDQKSLQEAVMEEIIKPILPAEWLTSATKFFINPTGRFVIGGP 235
Query: 244 HGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKSIVANGLARRCI 303
GD GLTGRKII+DTYGG HGGGAFSGKDP+KVDRS AY R AK+IVA GLA RC
Sbjct: 236 MGDCGLTGRKIIVDTYGGMARHGGGAFSGKDPSKVDRSAAYAARYVAKNIVAAGLADRCE 295
Query: 304 VQVSYAIGVPEPLSVFVDSYGTGKIPDKEILKIVKESFDFRPGMMTINLDLKRGGNGRFL 363
+QVSYAIGV EP S+ V+++GT K+P +++ +V+E FD RP + LDL +
Sbjct: 296 IQVSYAIGVAEPTSIMVETFGTEKVPSEQLTLLVREFFDLRPYGLIQMLDLLH---PIYK 352
Query: 364 KTAAYGHFGRDDPDFTWE 381
+TAAYGHFGR+ F WE
Sbjct: 353 ETAAYGHFGRE--HFPWE 368
>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 = 47.0 bits (111), Expect = 8e-06
Identities = 76/520 (14%), Positives = 140/520 (26%), Gaps = 224/520 (43%)
Query: 4 FL-FTSESVNEGHPDKLCDQISDAVLD----------------ACLEQDPESKV------ 40
FL + S V + DQ+ + L A L Q+ ++ +
Sbjct: 64 FLGYVSSLVEPSKVGQF-DQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKEL 122
Query: 41 ------ACETCTK------------------TNMVMVFG----------EI----TTKAK 62
A + +V +FG E+ T
Sbjct: 123 IKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQT--- 179
Query: 63 VDYEKIVRDTCRSIGFVSDDVGLDADHCKVLVNIEQQSPDI-AQGVH-GHFTKRPEDIGA 120
Y +V D + A+ L+ + + QG++ + + P +
Sbjct: 180 --YHVLVGDLIKFS----------AETLSELIRTTLDAEKVFTQGLNILEWLENPSN--T 225
Query: 121 GDQGHMFGYATDETSEFMP------LSH--VLATKLGARLTEVRKN----STC------- 161
D+ ++ + S P L+H V A LG E+R +
Sbjct: 226 PDKDYL---LSIPIS--CPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTA 280
Query: 162 -------SWLRPDGKTQVTVEYYNDNGAM-------VPVRVH-----TVLISTQHDETVT 202
SW E + + + VR + T L + ++++
Sbjct: 281 VAIAETDSW-----------ESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLE 329
Query: 203 NDEIAA-------DLKEHVIKPVIPE--KYLDEKTIFHL---NPSGRFVIGGPHGDAGLT 250
N+E +L + ++ + + +L + N + V+ GP L
Sbjct: 330 NNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQS--LY 387
Query: 251 G-----RKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKSIVANGLARRCIVQ 305
G RK A SG D +++ S R+
Sbjct: 388 GLNLTLRKA-------------KAPSGLDQSRIPFSE-----------------RKLKFS 417
Query: 306 VSY-AIGVPEPLSVFVDSYGTGKIPDKEILKIVKESFDFRPGMMTINLDLKRGG---NGR 361
+ + P F L + IN DL + N +
Sbjct: 418 NRFLPVASP-----FHSHL----------LVPASD---------LINKDLVKNNVSFNAK 453
Query: 362 FLKTAAYGHF--GRD----DPDFTWEVV-----KPLKWEK 390
++ Y G D + +V P+KWE
Sbjct: 454 DIQIPVY-DTFDGSDLRVLSGSISERIVDCIIRLPVKWET 492
Score = 31.6 bits (71), Expect = 0.65
Identities = 40/266 (15%), Positives = 69/266 (25%), Gaps = 96/266 (36%)
Query: 164 LRP----DGKTQVTVEYYNDNGAMVPVRVH---TVL----IST---------QHDETVTN 203
RP G + + +VP + L DE T
Sbjct: 6 TRPLTLSHGSLEHVL--------LVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTP 57
Query: 204 DEIAADLKEHVIKPVIPEK------------------YLDEKTIFHLNPSGRFVIG-GPH 244
E+ +V V P K YL+ I H
Sbjct: 58 AELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDI-HA-----LAAKLLQE 111
Query: 245 GDAGLTGRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKSIVANGLARRCIV 304
D L K +I Y A + + K S + +A G A+
Sbjct: 112 NDTTLVKTKELIKNY--ITAR---IMAKRPFDKKSNSALF---RAVGE----GNAQ---- 155
Query: 305 QVSYAI----GVPEP----LSVFVDSYGTGKIP-----DKEILKIVKESFDFRPGMMTIN 351
AI G + L +Y + + ++++ + D + T
Sbjct: 156 --LVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEK-VFTQG 212
Query: 352 LDLKRGGNGRFLKTAAYGHFGRDDPD 377
L++ +L+ + + PD
Sbjct: 213 LNIL-----EWLENPS------NTPD 227
>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 = 42.9 bits (100), Expect = 1e-04
Identities = 42/318 (13%), Positives = 87/318 (27%), Gaps = 98/318 (30%)
Query: 18 KLCDQISDAVLDACLEQDPESKVACETCTKTNMVMVFGEITTKAKVDYEK---IVRDTCR 74
KL QI D + + K+ + + + + K+K YE ++ +
Sbjct: 204 KLLYQI-DPNWTSRSDHSSNIKLRIHS-IQAELRRLL-----KSK-PYENCLLVLLN--- 252
Query: 75 SIGFVSDDVGLDA-D-HCKVLVNIEQQSPDIAQGVHGHFTKRPEDIGAGDQGHMFGYATD 132
V + +A + CK+L+ + + + T H D
Sbjct: 253 ----VQNAKAWNAFNLSCKILLTTRFKQ--VTDFLSAATTTHISLD-----HHSMTLTPD 301
Query: 133 ETSEFMPLSHVLATK------------------LGARLTEVRKNSTCSWLRPDGKTQVTV 174
E L L + + + + + +W + T+
Sbjct: 302 EVKSL--LLKYLDCRPQDLPREVLTTNPRRLSIIAESIRD-GLATWDNWKHVNCDKLTTI 358
Query: 175 --------------EYYND-----NGAMVPVRVHTVL---ISTQHDETVTNDE-----IA 207
+ ++ A +P + +++ + V N +
Sbjct: 359 IESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVE 418
Query: 208 ADLKEHVIKPVIPEKYLDEKTIFHLNPSGRFVIGGPHGDAGLTGRKIIIDTYGGWGAHGG 267
KE I IP YL+ K + + + H + I+D Y
Sbjct: 419 KQPKESTIS--IPSIYLELK----VKLENEYAL---H--------RSIVDHYNIPKTFDS 461
Query: 268 GAFSGKDPTKVDRSGAYI 285
P +D+ Y
Sbjct: 462 DDLI---PPYLDQ---YF 473
Score = 31.4 bits (70), Expect = 0.60
Identities = 16/99 (16%), Positives = 33/99 (33%), Gaps = 18/99 (18%)
Query: 304 VQVSYAIGVPEPLSVFVDSYGTGKIPD--KEILK------IVKESFDFRPGMMTINLDLK 355
Q Y + FVD++ + D K IL I+ + L
Sbjct: 14 HQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLS 73
Query: 356 RGGNG--RFLKTAAYGHFGRDDPDFTWEVVKPLKWEKPQ 392
+ +F++ ++ + ++ P+K E+ Q
Sbjct: 74 KQEEMVQKFVEEV-------LRINYKF-LMSPIKTEQRQ 104
>2ee0_A Protocadherin-9; Ca domain, structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 114
Score = 33.2 bits (77), Expect = 0.033
Identities = 8/42 (19%), Positives = 16/42 (38%), Gaps = 3/42 (7%)
Query: 55 GEITTKAKVDYEKIVRDTCRSIGFVSDDVGLDADHCKVLVNI 96
G IT + +D E+ + ++ D V +N+
Sbjct: 72 GLITVQRSLDREET---AIHKVTVLASDGSSTPARATVTINV 110
>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 = 32.7 bits (74), Expect = 0.12
Identities = 9/56 (16%), Positives = 16/56 (28%), Gaps = 14/56 (25%)
Query: 33 EQDPESKVACETCTKTNMVMVFGEITTKAKVDYEK--IVRDTCRSIGFVSDDVGLD 86
+ + C C +V + + +V C G V D +D
Sbjct: 15 GPNLNIVLTCPECKVYPPKIVE---------RFSEGDVV---CALCGLVLSDKLVD 58
>2yst_A Protocadherin-7; BH-PCDH, beta-sandwich, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 119
Score = 30.5 bits (70), Expect = 0.30
Identities = 9/44 (20%), Positives = 19/44 (43%), Gaps = 5/44 (11%)
Query: 55 GEITTKAKVDYEKIVRDTCRSIGFVSDDVGLD--ADHCKVLVNI 96
G ++ ++D E++ ++ D G D V++NI
Sbjct: 71 GWLSVLHRIDREEV---NQLRFTVMARDRGQPPKTDKATVVLNI 111
>4a18_N RPL27, ribosomal protein L22; ribosome, eukaryotic initiation
factor 6, EIF6, transla large ribosomal subunit, rRNA;
3.52A {Tetrahymena thermophila} PDB: 4a19_N 4a1b_N
4a1d_N
Length = 144
Score = 30.9 bits (69), Expect = 0.37
Identities = 24/111 (21%), Positives = 42/111 (37%), Gaps = 5/111 (4%)
Query: 131 TDETSEFMPLSHVLATKLGARLTEVRKNSTCSWLRPDGKTQVTVEYYNDNGAMVPVRVHT 190
+++ ++ HVL + +V K ++ + ++Y N N M P R ++
Sbjct: 29 SEDGTKDRKFGHVLVAGVERSPKKVTKRMGSKKIQKRTSVKPFIKYVNLNHIM-PTR-YS 86
Query: 191 VLISTQHDETVTNDEIAADLKEHV---IKPVIPEKYLDEKTIFHLNPSGRF 238
V E V D+I + K V +K V EKY +F
Sbjct: 87 VKELCDFKELVKEDKIKNNAKSEVRDTLKKVFVEKYRTINPEEKSASHTKF 137
>3k44_A Purine-rich binding protein-alpha, isoform B; PUR-alpha, PUR
repeat, PUR domain, whirly fold, DNA binding protein,
RNA binding protein; 2.10A {Drosophila melanogaster}
Length = 146
Score = 28.9 bits (64), Expect = 1.6
Identities = 25/90 (27%), Positives = 37/90 (41%), Gaps = 5/90 (5%)
Query: 277 KVDRSGAYIVRQAAKSIVANGLARRCIVQVSYAIGVPEPLSVFVDSYGTGKIPDKEILKI 336
K +R G +I I A+G + + +S A + LS F D Y + P+ + L
Sbjct: 22 KQNRRGRFI---KVAEIGADGRRSQIYLALSTAAEFRDHLSSFSDYYASLGPPNTDNLPE 78
Query: 337 VKE--SFDFRPGMMTINLDLKRGGNGRFLK 364
+ S LDLK GRFL+
Sbjct: 79 DGKLKSEMMIKDYRRYYLDLKENARGRFLR 108
>2fiq_A Putative tagatose 6-phosphate kinase 1; structural genomics, PSI,
protein structure initiative, NEW research center for
structural genomics; 2.25A {Escherichia coli} SCOP:
c.1.10.7
Length = 420
Score = 28.9 bits (64), Expect = 3.0
Identities = 17/67 (25%), Positives = 25/67 (37%)
Query: 24 SDAVLDACLEQDPESKVACETCTKTNMVMVFGEITTKAKVDYEKIVRDTCRSIGFVSDDV 83
V++A L D S +N V FG T D+ + V +GF + +
Sbjct: 23 HPLVIEAALAFDRNSTRKVLIEATSNQVNQFGGYTGMTPADFREFVFAIADKVGFARERI 82
Query: 84 GLDADHC 90
L DH
Sbjct: 83 ILGGDHL 89
>1xq6_A Unknown protein; structural genomics, protein structure initiative,
CESG, AT5G02240, NADP, center for eukaryotic structural
genomics; HET: NAP; 1.80A {Arabidopsis thaliana} SCOP:
c.2.1.2 PDB: 1ybm_A* 2q46_A* 2q4b_A*
Length = 253
Score = 28.7 bits (64), Expect = 3.4
Identities = 19/112 (16%), Positives = 31/112 (27%), Gaps = 11/112 (9%)
Query: 247 AGLTGRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKSIVANGLARRCIVQV 306
+ G G+ P +VD G AAK G+ IV V
Sbjct: 77 TSAVPKMKPGFDPTKGGRPEFIFEDGQYPEQVDWIGQKNQIDAAK---VAGVKH--IVVV 131
Query: 307 SYAIGVPEPLSVFVDSYGTGKIPDK-EILKIVKES-FD---FRPGMMTINLD 353
++G P + K + + + +S R G +
Sbjct: 132 G-SMGGTNPDHPLNKLGNGNILVWKRKAEQYLADSGTPYTIIRAGGLLDKEG 182
>1xhn_A CREG, cellular repressor of E1A-stimulated genes; beta-barrel,
unknown function; HET: MSE; 1.95A {Homo sapiens} SCOP:
b.45.1.1
Length = 184
Score = 27.8 bits (61), Expect = 5.2
Identities = 15/121 (12%), Positives = 38/121 (31%), Gaps = 6/121 (4%)
Query: 124 GHMFGYATDETSEFMPLSHVLATKLGARLTEVRKNSTCSWLRPDGKTQVTVEYYNDNGAM 183
+ + + + + L ++ +++N + +T ++ D
Sbjct: 50 ADVLSLSDGPPGAGSGVPYFYLSPLQLSVSNLQENPYATLTMTLAQTNFCKKHGFD--PQ 107
Query: 184 VPVRVHTVLISTQHDETVTNDEIAADLKEHVIKPVIPEKYLDEK--TIFHLNPSGRFVIG 241
P+ VH +L T V E+ I+ + + LN + +V+
Sbjct: 108 SPLCVHIMLSGTV--TKVNETEMDIAKHSLFIRHPEMKTWPSSHNWFFAKLNITNIWVLD 165
Query: 242 G 242
Sbjct: 166 Y 166
>3txv_A Probable tagatose 6-phosphate kinase; structural genomics,
PSI-biology, NEW YORK structural genomi research
consortium, nysgrc; 2.80A {Sinorhizobium meliloti}
Length = 450
Score = 28.1 bits (62), Expect = 5.6
Identities = 14/67 (20%), Positives = 22/67 (32%)
Query: 24 SDAVLDACLEQDPESKVACETCTKTNMVMVFGEITTKAKVDYEKIVRDTCRSIGFVSDDV 83
V++A + + K N V G T D+ + V I F + +
Sbjct: 30 HPLVIEAAMLRAHREKAPVLIEATCNQVNQDGGYTGMTPEDFTRFVGAIADRIEFPREKI 89
Query: 84 GLDADHC 90
L DH
Sbjct: 90 LLGGDHL 96
>1hdo_A Biliverdin IX beta reductase; foetal metabolism, HAEM degradation,
flavin reductase, diaphorase, green HAEM binding
protein; HET: NAP; 1.15A {Homo sapiens} SCOP: c.2.1.2
PDB: 1he2_A* 1he3_A* 1he4_A* 1he5_A*
Length = 206
Score = 27.7 bits (62), Expect = 5.8
Identities = 15/86 (17%), Positives = 30/86 (34%), Gaps = 10/86 (11%)
Query: 268 GAFSGKDPTKVDRSGAYIVRQAAKSIVANGLARRCIVQVSYAIGVPEPLSVFVDSYGTGK 327
G + PT V GA + A K A+G+ + +V + + + +
Sbjct: 76 GTRNDLSPTTVMSEGARNIVAAMK---AHGVDK--VVACT-SAFLLWDPTKVPPRLQAVT 129
Query: 328 IPDKEILKIVKES-FD---FRPGMMT 349
+ K+++ES P +
Sbjct: 130 DDHIRMHKVLRESGLKYVAVMPPHIG 155
>1p1x_A Deoxyribose-phosphate aldolase; alpha-beta barrel, TIM barrel,
lyase; 0.99A {Escherichia coli} SCOP: c.1.10.1 PDB:
1jcl_A 1jcj_A* 1ktn_A 3npv_B 3npu_A 3npw_A 3nq2_A 3npx_A
3nq8_A 3q2d_A* 3nr0_A 3nqv_A
Length = 260
Score = 27.6 bits (62), Expect = 6.1
Identities = 19/70 (27%), Positives = 28/70 (40%), Gaps = 9/70 (12%)
Query: 13 EGHPDKLCDQISDAVLDACLEQDPESKVACETC--TKTNMVMVFGEITTKAKVDYEKIVR 70
G+ D + A +AC + KV ET ++ EI+ KA D+ K
Sbjct: 113 AGNEQVGFDLVK-ACKEACAAANVLLKVIIETGELKDEALIRKASEISIKAGADFIK--- 168
Query: 71 DTCRSIGFVS 80
T S G V+
Sbjct: 169 -T--STGKVA 175
>2zu9_A Mannosyl-3-phosphoglycerate synthase; GT-A fold,
glycosyltransferase, GT55, GDP, cytoplasm, magnesium,
transferase; HET: GDP; 2.00A {Pyrococcus horikoshii}
PDB: 2zu7_A* 2zu8_A*
Length = 394
Score = 27.4 bits (60), Expect = 8.9
Identities = 11/66 (16%), Positives = 27/66 (40%)
Query: 293 IVANGLARRCIVQVSYAIGVPEPLSVFVDSYGTGKIPDKEILKIVKESFDFRPGMMTINL 352
++A + + V +P ++ +V Y G + + +V+ + +P + L
Sbjct: 154 LLAKAIGAEYVGFVDADNYIPGAVNEYVKDYAAGFLMSESEYTMVRLHWRHKPKVTKGTL 213
Query: 353 DLKRGG 358
K+ G
Sbjct: 214 YFKKWG 219
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 0.414
Gapped
Lambda K H
0.267 0.0486 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,409,036
Number of extensions: 411720
Number of successful extensions: 874
Number of sequences better than 10.0: 1
Number of HSP's gapped: 852
Number of HSP's successfully gapped: 26
Length of query: 393
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 297
Effective length of database: 4,021,377
Effective search space: 1194348969
Effective search space used: 1194348969
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 (26.7 bits)