RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13206
(478 letters)
>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 = 51.8 bits (123), Expect = 4e-07
Identities = 67/472 (14%), Positives = 134/472 (28%), Gaps = 141/472 (29%)
Query: 74 LYIISWLLVIFTKHVYVLYVVRFMQGLAMGIVFTVAPMY--IGEISGAKCRG--ALSTFF 129
+ W L+ + + V +F++ + + Y + + R ++ +
Sbjct: 64 TLRLFWTLLSKQEEM----VQKFVEEV-------LRINYKFLMSPIKTEQRQPSMMTRMY 112
Query: 130 IGMLNTGILLEYTVGPYVDYDTLAYVSLVIPVVFLMTFIW-MPESPYFLI--MKG----- 181
I + L + Y+ VS + P + L + + + LI + G
Sbjct: 113 IEQRDR---LYNDNQVFAKYN----VSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTW 165
Query: 182 ------RDVDARKSL----FWLRGGRESSKDKINLELSNIKQDVEREMKLSDDFMDIIST 231
+ + FWL +S + + L + ++ D I
Sbjct: 166 VALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKL 225
Query: 232 PAN---------------RRSLLI---VQIVAVAD---------VISGMSAVLPYASSTF 264
+ LL+ VQ + + + V + S+
Sbjct: 226 RIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAA- 284
Query: 265 ARTEGSLI------TPDECTLLLGILV-FLSTFPTAFLVDRTGRRPLLLVSCFGSGISQL 317
T SL TPDE + +L+ +L P + P L S I
Sbjct: 285 TTTHISLDHHSMTLTPDE---VKSLLLKYLDCRPQDLPREVLTTNPRRL-SIIAESIRDG 340
Query: 318 IAGTYYLLSENY-TVDLSKFNWIPLISITCFAVIYSIGLGPLVPTLQGEF-----FPSNT 371
+A +N+ V+ K I S+ L P + F FP +
Sbjct: 341 LA-----TWDNWKHVNCDKLTTIIESSLNV--------LEP--AEYRKMFDRLSVFPPSA 385
Query: 372 RGLAGGVTTITLTV-----ISFLVMKMYQVIC-----DHYGVYLNFYIYSLGCIICGVLV 421
+ TI L++ I VM + + + I S+
Sbjct: 386 H-----IPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSI--------- 431
Query: 422 YFIIPESKGKTFAQIQEELNKHIAHKSKLKEQRKQNKINRNNEKADNNNVTK 473
Y + +++ E H + + K D++++
Sbjct: 432 YL-------ELKVKLENEYALH----RSIVDHYNIPK------TFDSDDLIP 466
Score = 41.8 bits (97), Expect = 5e-04
Identities = 53/318 (16%), Positives = 88/318 (27%), Gaps = 99/318 (31%)
Query: 67 C--LLTTGPLYIISWLLVIFTKHVYVLYVVR-FMQGLAMGI---------------VFTV 108
C LLTT + +L T H+ + + + V T
Sbjct: 266 CKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTT 325
Query: 109 APMYIGEISGAKCRGALSTFFIGMLNTGILLEYTVGPYVDYDTLA--------------- 153
P + I R L+T+ + +V+ D L
Sbjct: 326 NPRRLSII-AESIRDGLATW-----------DNW--KHVNCDKLTTIIESSLNVLEPAEY 371
Query: 154 ---YVSLVIPVVFLMTFIWMPES---PYFLIMKGRDVDARKSLFWLRGGRESSKDKINLE 207
+ L + F P S P L+ SL W + +N +
Sbjct: 372 RKMFDRLSV---F-------PPSAHIPTILL----------SLIWFDVIKSDVMVVVN-K 410
Query: 208 LSN----IKQDVEREMKLSDDFMDIISTPANRRSL--LIVQIVAVADVISGMSAVLPYAS 261
L KQ E + + ++++ N +L IV + + PY
Sbjct: 411 LHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLD 470
Query: 262 STFARTEG---SLITPDECTLLLGILVFLSTFPTAFL----VDRTGRRPLLLVSCFGSGI 314
F G I E L F FL +++ R + GS +
Sbjct: 471 QYFYSHIGHHLKNIEHPERMTL---------FRMVFLDFRFLEQKIRHDSTAWNASGSIL 521
Query: 315 SQLIAGTYYLLSENYTVD 332
+ L +Y + Y D
Sbjct: 522 NTLQQLKFY---KPYICD 536
>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 = 2e-05
Identities = 59/380 (15%), Positives = 103/380 (27%), Gaps = 160/380 (42%)
Query: 221 LSDDFMDIISTPANRRSL---------LIVQIVA-VADVISG---------MSAVLPYAS 261
L + F I+ P + L+ + + V+ ++ ++ L
Sbjct: 33 LQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFE 92
Query: 262 STFARTE------GSLITPDECTLLLGILVFLSTFPTAFLVDRTGRRP----LL------ 305
+ + L+ ++ TL+ + + + R + L
Sbjct: 93 NCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEG 152
Query: 306 ---LVSCFGSG---------------------ISQLIAGTYYLLSE----------NYTV 331
LV+ FG G + LI + LSE +T
Sbjct: 153 NAQLVAIFG-GQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQ 211
Query: 332 DLSKFNWI-------------------PLISIT---CFAVI-YSIGLGPLVPTLQGEFFP 368
L+ W+ PLI + + V +G P GE
Sbjct: 212 GLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTP------GELRS 265
Query: 369 SNTRGLAG---GVTTITLTVI-------SFL--VMKMYQVICDHYGVYLNFYIYSLGCII 416
+G G G+ +T I SF V K V+ F+I G
Sbjct: 266 Y-LKGATGHSQGL--VTAVAIAETDSWESFFVSVRKAITVL---------FFI---GV-- 308
Query: 417 CGVLVY--FIIPES-------------------KGKTFAQIQ---EELNKHIAHKSKLKE 452
Y +P S T Q+Q + N H+ ++
Sbjct: 309 RCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQV-- 366
Query: 453 QRKQNKINRNNEKADNNNVT 472
+I+ N A N V+
Sbjct: 367 -----EISLVN-GAKNLVVS 380
Score = 43.1 bits (101), Expect = 2e-04
Identities = 63/344 (18%), Positives = 112/344 (32%), Gaps = 120/344 (34%)
Query: 59 VDYVGRKPCLLTTGPLYIISWLLVIFTK--HVYVL---------YVVRFMQGL---AMGI 104
DY L + P IS L+ + H V + +++G + G+
Sbjct: 228 KDY-------LLSIP---ISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGL 277
Query: 105 VFTVAPMYIGEISGAK--------CRGALST-FFIG------------------------ 131
V VA I+ R A++ FFIG
Sbjct: 278 VTAVA------IAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENN 331
Query: 132 ------MLN-TGILLEYTVGPYVDY-------DTLAYVSLVI-PVVFLMT-FIWMPESPY 175
ML+ + + E V YV+ +SLV +++ P+S Y
Sbjct: 332 EGVPSPMLSISNLTQE-QVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGP---PQSLY 387
Query: 176 FLIMKGRDVDARKSLFWLRGGRESSKDKINLELSNIKQDVEREMKLSDDFMDIISTPANR 235
L + R A S D+ + S ER++K S+ F+ + ++P +
Sbjct: 388 GLNLTLRKAKA-----------PSGLDQSRIPFS------ERKLKFSNRFLPV-ASPFHS 429
Query: 236 RSLL------IVQIVAVADV-ISGMSAVLP-YASSTFA--RTEGSLITPDECTLLLGILV 285
LL I + + +V + +P Y + + R I+ ++ + V
Sbjct: 430 -HLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPV 488
Query: 286 F----LSTFPTAFLV----DRTGRRPLLLVSCFGSGISQLIAGT 321
T L +G L + G+G+ ++AGT
Sbjct: 489 KWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIVAGT 532
Score = 31.2 bits (70), Expect = 0.89
Identities = 32/188 (17%), Positives = 48/188 (25%), Gaps = 80/188 (42%)
Query: 252 GMSAVLPYASSTFAR---TEGSLITPDECTL-LLG--ILVFLSTFPTAFLVDRTGRRPLL 305
GM L Y +S A+ D G IL + P +
Sbjct: 1630 GMGMDL-YKTSKAAQDVWNRA-----DNHFKDTYGFSILDIVINNPVNLTIH-------- 1675
Query: 306 LVSCFGSGISQLIAGTYYLLSENYTVD---------------LSKFNW------------ 338
FG + I Y + VD + + +
Sbjct: 1676 ----FGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQF 1731
Query: 339 ----IPLISITCFAVIYSIGLGPLVPT-----LQGEFFPSNTRGLA--GGVTTITLTVIS 387
+ L+ F + S GL P T L GE+ + LA V+S
Sbjct: 1732 TQPALTLMEKAAFEDLKSKGLIPADATFAGHSL-GEY--A---ALASLAD-------VMS 1778
Query: 388 F-----LV 390
+V
Sbjct: 1779 IESLVEVV 1786
>2cfq_A Lactose permease; transport, transport mechanism, lactose/H+
symport, sugar transport, transmembrane, formylation;
2.95A {Escherichia coli} SCOP: f.38.1.2 PDB: 1pv7_A*
1pv6_A 2cfp_A 2v8n_A 2y5y_A*
Length = 417
Score = 45.3 bits (107), Expect = 3e-05
Identities = 16/123 (13%), Positives = 39/123 (31%), Gaps = 11/123 (8%)
Query: 55 IGFLVDYVGRKPCLLTTGPLYIISWLLVIFTKHVYVLYVVRFMQGLAMGIVFTVAPMYIG 114
+++ +G K LL G + + + F + +++ + + + YI
Sbjct: 279 APLIINRIGGKNALLLAGTIMSVRIIGSSFATSALEVVILKTLHMFEVPFLLVGCFKYIT 338
Query: 115 EISGAKCRGALSTFF----------IGMLNTGILLEYTVGPYVDYDTLAYVSLVIPVVFL 164
+ + + G + E +G Y L V+L ++ +
Sbjct: 339 SQFEVRFSATIYLVCFCFFKQLAMIFMSVLAGNMYES-IGFQGAYLVLGLVALGFTLISV 397
Query: 165 MTF 167
T
Sbjct: 398 FTL 400
>2gfp_A EMRD, multidrug resistance protein D; membrane protein, multidrug
transporter; 3.50A {Escherichia coli}
Length = 375
Score = 38.0 bits (89), Expect = 0.005
Identities = 15/49 (30%), Positives = 27/49 (55%)
Query: 55 IGFLVDYVGRKPCLLTTGPLYIISWLLVIFTKHVYVLYVVRFMQGLAMG 103
G + D VGR+P +L +++++ L+ + T + VL MQG+ G
Sbjct: 55 YGPISDRVGRRPVILVGMSIFMLATLVAVTTSSLTVLIAASAMQGMGTG 103
>1pw4_A Glycerol-3-phosphate transporter; transmembrane, inner membrane,
major facilitator superfamily, secondary active membrane
transporter; 3.30A {Escherichia coli} SCOP: f.38.1.1
Length = 451
Score = 36.9 bits (86), Expect = 0.011
Identities = 29/185 (15%), Positives = 53/185 (28%), Gaps = 33/185 (17%)
Query: 287 LSTFPTAFLVDRTGRRPLLLVSCFGSGISQLIAGTYYLLSENYTVDLSKFNWIPLISITC 346
S F + DR+ R L + L G + SI
Sbjct: 77 FSKFIMGSVSDRSNPRVFLPAGLILAAAVMLFMGFVPWAT---------------SSIAV 121
Query: 347 FAVIYSI-GL--GPLVPTLQ---GEFFPSNTRGLAGGV----TTITLTVISFLVMKMYQV 396
V+ + G G P ++ RG V + + L +
Sbjct: 122 MFVLLFLCGWFQGMGWPPCGRTMVHWWSQKERGGIVSVWNCAHNVGGGIPPLLFLLGMAW 181
Query: 397 ICDHYGVYLNFYIYSLGCIICGVLVYFII---PESKGKTFAQIQEELNKHIAHKSKLKEQ 453
+ Y+ + I+ + + ++ P+S G I+E N + ++ EQ
Sbjct: 182 ---FNDWHAALYMPAFCAILVALFAFAMMRDTPQSCG--LPPIEEYKNDYPDDYNEKAEQ 236
Query: 454 RKQNK 458
K
Sbjct: 237 ELTAK 241
Score = 36.6 bits (85), Expect = 0.016
Identities = 26/152 (17%), Positives = 49/152 (32%), Gaps = 29/152 (19%)
Query: 298 RTGRRPLLLVSCFGSGISQLIAGTYYLLSENYTVDLSKFNWIPLISITCFAVIYSIGLGP 357
R R + I+ + + N TVD + + + F + G
Sbjct: 317 RGNRGATGVFFMTLVTIA--TIVYWMNPAGNPTVD------MICMIVIGFLIY---GPVM 365
Query: 358 LVPTLQGEFFPSNTRGLAGGVT---------TITLTVISFLVMKMYQVICDHYGVYLNFY 408
L+ E P G A G T ++ + V D +G F
Sbjct: 366 LIGLHALELAPKKAAGTAAGFTGLFGYLGGSVAASAIVGYTV--------DFFGWDGGFM 417
Query: 409 IYSLGCIICGVLVYFIIPESKGKTFAQIQEEL 440
+ G I+ +L+ ++ + + Q+ +EL
Sbjct: 418 VMIGGSILAVILLIVVMI-GEKRRHEQLLQEL 448
Score = 32.3 bits (74), Expect = 0.38
Identities = 25/154 (16%), Positives = 53/154 (34%), Gaps = 14/154 (9%)
Query: 32 MTSAESSWVVSIIELGNLVTPIPIGFLVDYV---GRKPCLLTTGPLYIISWLLVIFTKHV 88
+SSW + E + + G++ D V R + L I+ ++
Sbjct: 285 FALDKSSWAYFLYEYAGIPGTLLCGWMSDKVFRGNRGATGVFFMTLVTIATIVYWMNPAG 344
Query: 89 YVLYVVRFMQGLAMGIVFTVAP--MYIGEISGAKCRGALSTFF------IGMLNTGILLE 140
+ M + I V ++ E++ K G + F G + ++
Sbjct: 345 NPTVDMICMIVIGFLIYGPVMLIGLHALELAPKKAAGTAAGFTGLFGYLGGSVAASAIVG 404
Query: 141 YTVGPYVDYDTLAYVSLVIPVV--FLMTFIWMPE 172
YTV + +D V + ++ L+ + + E
Sbjct: 405 YTVDFF-GWDGGFMVMIGGSILAVILLIVVMIGE 437
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 35.1 bits (80), Expect = 0.024
Identities = 7/42 (16%), Positives = 18/42 (42%), Gaps = 2/42 (4%)
Query: 427 ESKGKTFAQIQEELNKHIA--HKSKLKEQRKQNKINRNNEKA 466
+ + +E+ K + ++ + ++ K NR +KA
Sbjct: 103 AASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKA 144
>3o7q_A L-fucose-proton symporter; transporter, multi-PASS membrane protei
transport protein; HET: BNG; 3.14A {Escherichia coli}
PDB: 3o7p_A*
Length = 438
Score = 35.3 bits (81), Expect = 0.041
Identities = 27/160 (16%), Positives = 58/160 (36%), Gaps = 11/160 (6%)
Query: 31 EMTSAESSWVVSIIELGNLVTPIPIGFLVDYVGRKPCLLTTGPLYIISWLLVIFTKHV-- 88
+T+ ++ + S G + PIP G L+ + K ++T LY + L +
Sbjct: 57 TLTNFQAGLIQSAFYFGYFIIPIPAGILMKKLSYKAGIITGLFLYALGAALFWPAAEIMN 116
Query: 89 YVLYVV-RFMQGLAMGIVFTVAPMYIGEISGAKCRGALSTFF-----IGMLNTGILLEYT 142
Y L++V F+ +G + T A ++ + G + + +
Sbjct: 117 YTLFLVGLFIIAAGLGCLETAANPFVTVLGPESSGHFRLNLAQTFNSFGAIIAVVFGQSL 176
Query: 143 VGPYVDYDTLAYVSLVIPVVFLMTFIWMPES---PYFLIM 179
+ V + + + + P + S PY +I+
Sbjct: 177 ILSNVPHQSQDVLDKMSPEQLSAYKHSLVLSVQTPYMIIV 216
>3fyr_A Sporulation inhibitor SDA; helical hairpin, histidine kinase
inhibitor, sporulation regulation, alternative
initiation; 1.97A {Bacillus subtilis} PDB: 1pv0_A
3d36_C*
Length = 48
Score = 28.4 bits (63), Expect = 0.66
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 217 REMKLSDDFMDIISTPANRRSL 238
EM L+ DF+++I RRSL
Sbjct: 19 TEMNLNRDFIELIENEIKRRSL 40
>1vp2_A Putative xanthosine triphosphate pyrophosphatase/ protein homolog;
structural genomics, joint center for structural
genomics, JCSG; 1.78A {Thermotoga maritima} SCOP:
c.51.4.1
Length = 208
Score = 29.8 bits (68), Expect = 1.4
Identities = 11/25 (44%), Positives = 15/25 (60%), Gaps = 1/25 (4%)
Query: 425 IPESKGKTFAQIQEELNKHIAHKSK 449
IP+ KTF +I K I+H+SK
Sbjct: 167 IPDGYDKTFGEIPHLKEK-ISHRSK 190
>3lvl_A NIFU-like protein; protein-protein complex, structural genomics,
montreal-kings bacterial structural genomics initiative,
BSGI; HET: PLP; 3.00A {Escherichia coli} PDB: 2l4x_A
2kqk_A 1q48_A 1r9p_A 1wfz_A
Length = 129
Score = 28.1 bits (63), Expect = 3.2
Identities = 14/65 (21%), Positives = 26/65 (40%), Gaps = 1/65 (1%)
Query: 390 VMKMYQVICDHYGVYLNFYIYSLGCIICGVLVYFIIPESKGKTFAQIQEELNKHIAHKSK 449
VMK+ + + G+ + + GC + KGK+ + Q N IA + +
Sbjct: 41 VMKLQ-IKVNDEGIIEDARFKTYGCGSAIASSSLVTEWVKGKSLDEAQAIKNTDIAEELE 99
Query: 450 LKEQR 454
L +
Sbjct: 100 LPPVK 104
>3hxl_A Uncharacterized protein DSY3957; alpha-beta three-domained
protein., structural genomics, PSI protein structure
initiative; 1.90A {Desulfitobacterium hafniense}
Length = 446
Score = 27.8 bits (61), Expect = 8.4
Identities = 11/88 (12%), Positives = 29/88 (32%), Gaps = 10/88 (11%)
Query: 93 VVRFMQGLAMGIVFTVAPMYIGEIS-----GAKCRGALSTFFIGMLNTGILLEYTVGPYV 147
V+R + G+ V + YIG++S + + + + + + +
Sbjct: 346 VIRVLDGINNDFVRIFSKFYIGKVSNNADGRNLLKSECINYMNTLQDIDAIKNFDGQTDL 405
Query: 148 DYDTLA-----YVSLVIPVVFLMTFIWM 170
+ Y+ V + I++
Sbjct: 406 TVQSGNDVDAVYIEAYAWPVDSIEKIYV 433
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 0.141 0.422
Gapped
Lambda K H
0.267 0.0706 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,165,784
Number of extensions: 434931
Number of successful extensions: 1057
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1043
Number of HSP's successfully gapped: 26
Length of query: 478
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 381
Effective length of database: 3,993,456
Effective search space: 1521506736
Effective search space used: 1521506736
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: 59 (26.6 bits)