RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13564
(323 letters)
>3tj1_A RNA polymerase I-specific transcription initiatio RRN3; heat
repeat, transcription factor, nucleus; 2.85A
{Saccharomyces cerevisiae}
Length = 649
Score = 182 bits (463), Expect = 7e-53
Identities = 48/292 (16%), Positives = 100/292 (34%), Gaps = 58/292 (19%)
Query: 2 LFNELLAVFESTILPTHGITHVPFLVFYFCSLRLSIGENFIEFLWKKIANVKIYNIFRQS 61
+FN L +F++ +LPT+ + +++F+ +L + ++F+ L V +
Sbjct: 382 VFNTLTTLFKTHVLPTYYTRSIQYIMFHVSQQQLELMDSFLVTLIDISFAVNEAAEKKIK 441
Query: 62 CCHYVSSLLIHAHFMPVSIGENFIEFLWKKIANVKIYNIFRQSCCHYVSSLLIHAHFMPV 121
Y+ S + A + +
Sbjct: 442 SLQYLGSYIARAKKLSRT------------------------------------------ 459
Query: 122 RVIKTCLNEMSQWCHSYLDNTDLTDEEACSPVKHPVFYSVCQALFSVITYKHSILVDSKK 181
I + ++ W + Y+ + ++ + FY+ QAL + ++H+I D+
Sbjct: 460 -QIIFVASYLTSWLNRYVIEREEEVDQRGGMERFKHFYAAFQALCYIFCFRHNIFRDTDG 518
Query: 182 NMKFLQSLNLTRLVMSQLNPLRSCNAEIVSHFASITNTYQIVYCYNVIHQNARLNVLPIV 241
N + R+V+S+ NPL+ CN ++ FA I + YC+++I N + I+
Sbjct: 519 NWECELDKFFQRMVISKFNPLKFCNENVMLMFARIAQQESVAYCFSIIENNNNERLRGII 578
Query: 242 STDALGNIIKLNTV---------------NALDQYSPFSTFLLVRCKSIITP 278
L Y P+ L K ++
Sbjct: 579 GKADSDKKENSAQANTTSSSWSLATRQQFIDLQSYFPYDPLFLKNYKILMKE 630
>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 = 6e-07
Identities = 70/446 (15%), Positives = 140/446 (31%), Gaps = 161/446 (36%)
Query: 3 FNELLAV----FESTILPTHGITHVPFLVFYFCSLRLSIGENFIEFLWKKIANVKIY--- 55
F+++L + FE+ L + I H +L + + L K +K Y
Sbjct: 80 FDQVLNLCLTEFENCYLEGNDI-H---------ALAAKLLQENDTTLVKTKELIKNYITA 129
Query: 56 -NIFRQSCCHYVSSLLI------HAHFMPVSIGENF-----IEFLWKKIANV-KIYNIFR 102
+ ++ +S L +A + + F + ++++ ++ + Y++
Sbjct: 130 RIMAKRPFDKKSNSALFRAVGEGNAQLVAI-----FGGQGNTDDYFEELRDLYQTYHVLV 184
Query: 103 QSCCHYVSSLLIHAHFMPVRVIKTC---LNEMSQWCHSYLDNTDLT-DEE--ACSPVKHP 156
+ + L + K LN + +W L+N T D++ P+ P
Sbjct: 185 GDLIKFSAETLSELIRTTLDAEKVFTQGLNIL-EW----LENPSNTPDKDYLLSIPISCP 239
Query: 157 V--------FYSVCQA-----------LFSVITYKHSILV-------DSKKNMKFLQSLN 190
+ + + L + ++ DS ++ F S+
Sbjct: 240 LIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWES--FFVSVR 297
Query: 191 --LTRL----VMSQ-------LNP-------------------LRSCNAEIVSHFASITN 218
+T L V L P + + E V + + TN
Sbjct: 298 KAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTN 357
Query: 219 TY----QIVYCYNVIHQNARLN-VL--PIVSTDALGNII-KLNTVNALDQ----YS---- 262
++ + V V N N V+ P S L + K + LDQ +S
Sbjct: 358 SHLPAGKQVEISLV---NGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKL 414
Query: 263 -----------PFSTFLLVRCKSIIT---PEIHCQADP----IPV--TTN--------TN 294
PF + LLV +I + + + IPV T + +
Sbjct: 415 KFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGS 474
Query: 295 RTQNL---LIADPV-----SSKQADH 312
++ + +I PV + +A H
Sbjct: 475 ISERIVDCIIRLPVKWETTTQFKATH 500
Score = 38.9 bits (90), Expect = 0.002
Identities = 47/262 (17%), Positives = 87/262 (33%), Gaps = 75/262 (28%)
Query: 45 LWKKIANVKIYNIFRQSCCHYV----SSLLIHAHFMPVS---IGENFIEFLWKKI--ANV 95
+W + A+ + + S V +L IH F I EN+ +++ I +
Sbjct: 1645 VWNR-ADNHFKDTYGFSILDIVINNPVNLTIH--FGGEKGKRIRENYSAMIFETIVDGKL 1701
Query: 96 KIYNIFRQSCCHYVSSLLIHAHFMPVRVI-KT-------CLNEMSQWCHSYLDNTDLTDE 147
K IF++ + S+ ++ T L E + + L + L
Sbjct: 1702 KTEKIFKEI--NEHSTSYTFRS--EKGLLSATQFTQPALTLMEKAAF--EDLKSKGLIPA 1755
Query: 148 EACSPVKHPVF-------YS--VCQALFSVITYKHSI-LVDSKKNMKFLQ------SLNL 191
+A F Y+ A V++ + + +V +Q L
Sbjct: 1756 DA-------TFAGHSLGEYAALASLA--DVMSIESLVEVV--FYRGMTMQVAVPRDELGR 1804
Query: 192 TRLVMSQLNPLR---SCNAE----IVSHFASITNTY-QIVYCYNVIHQNARLNVLPIVST 243
+ M +NP R S + E +V T +IV YNV +Q V+
Sbjct: 1805 SNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIV-NYNVENQQ-------YVAA 1856
Query: 244 ------DALGNIIKLNTVNALD 259
D + N++ + +D
Sbjct: 1857 GDLRALDTVTNVLNFIKLQKID 1878
>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 = 44.5 bits (104), Expect = 3e-05
Identities = 43/292 (14%), Positives = 94/292 (32%), Gaps = 92/292 (31%)
Query: 5 ELLAVFESTI------LPTHGITHVPFLVFYFCSLRLSIGENFIEFL-----WKKIANVK 53
E+ ++ + LP +T P + S+ I E+ + L WK + K
Sbjct: 302 EVKSLLLKYLDCRPQDLPREVLTTNPRRL----SI---IAESIRDGLATWDNWKHVNCDK 354
Query: 54 IYNIFRQSCCHYVSSLLIHAHFMPVSIGENFIEFLWKKIANVKIYNIFRQSCCHYVSSLL 113
+ I +S + + F +S+ F + I
Sbjct: 355 LTTII-ESSLNVLEPAEYRKMFDRLSV---FPP-------SAHI---------------- 387
Query: 114 IHAHFMPVRVIKTCLNEMSQWCHSYLDNTDLTDEEACSPVKHPVFYSVCQALFSVITYK- 172
P ++ W D+ + V YS+ + T
Sbjct: 388 ------PTILLSLI------WF-------DVIKSDVMVVVNKLHKYSLVEKQPKESTISI 428
Query: 173 HSILVDSKKNMKFLQSLNLTRLVMSQLNPLRSCNAE--------------IVSHFASITN 218
SI ++ K ++ +L+ R ++ N ++ +++ I H +I +
Sbjct: 429 PSIYLELKVKLENEYALH--RSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEH 486
Query: 219 T-----YQIVYC-YNVIHQNARLNVLPIVSTDALGNIIKLNTVNALDQYSPF 264
+++V+ + + Q R + ++ ++ LNT+ L Y P+
Sbjct: 487 PERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSI-----LNTLQQLKFYKPY 533
Score = 39.1 bits (90), Expect = 0.002
Identities = 46/326 (14%), Positives = 89/326 (27%), Gaps = 107/326 (32%)
Query: 8 AVFESTILPTHGITHVPFLVFYFCSLRLSIGENFIE--------FLWKKIANVKIYNIFR 59
+ I+ ++ L + S + + + F+E FL I R
Sbjct: 49 EEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTE-----QR 103
Query: 60 QSCCHYVSSLLIHAHFMPVSIGENFIEF---LWKKIANVKIYNIFRQSCCHYVSSLLIHA 116
Q P + +IE L+ YN+ R
Sbjct: 104 Q----------------PSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQ------------ 135
Query: 117 HFMPVRVIKTCLNEMSQWCHSYLD--------NTDLTDEEACSPVKHPVFYSVCQALFSV 168
P ++ L E+ + T + + C K C+ F +
Sbjct: 136 ---PYLKLRQALLELRP--AKNVLIDGVLGSGKTWVA-LDVCLSYK-----VQCKMDFKI 184
Query: 169 --ITYKHSILVDSKKNMKFLQSLNLTRLVMSQLNPLRSCNAEIVSHFASITNTYQIVYCY 226
+ K+ ++ ++ LQ L + ++ I SI + +
Sbjct: 185 FWLNLKNCNSPETV--LEMLQ--KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKS 240
Query: 227 NVIHQNARLNVLPIVSTDALGNIIKLNTVNALDQYSPFSTFLLVRCKSIITPEIHCQADP 286
++N L VL N+ NA + + CK ++T
Sbjct: 241 KP-YENC-LLVL-----L---NVQNAKAWNAFN----------LSCKILLT--------- 271
Query: 287 IPVTTNTNRTQNLLIADPVSSKQADH 312
T+ + D +S+ H
Sbjct: 272 ---------TRFKQVTDFLSAATTTH 288
Score = 38.3 bits (88), Expect = 0.003
Identities = 48/336 (14%), Positives = 90/336 (26%), Gaps = 132/336 (39%)
Query: 24 PFLVFYFCSLRLSIG-----ENFIEFLWKKIANVKIYNIFRQSCCHYVSSLLIHAHFMPV 78
F +F+ L++ E +E L + Q ++ +S H+ + +
Sbjct: 181 DFKIFW-----LNLKNCNSPETVLEMLQ---------KLLYQIDPNW-TSRSDHSSNIKL 225
Query: 79 SIGENFIEFLWKKIANVKIYNIFRQSCCHYVSSLLIHAHFMPVRVIKTCLNEMSQWCHSY 138
I ++ + + Y + LL+
Sbjct: 226 RIHS----------IQAELRRLLKSK--PYENCLLV------------------------ 249
Query: 139 LDNTDLTDEEACSPVKHP----VFYSVCQALF-----------SVITYKHSILVDSKKNM 183
L N V++ F C+ L S T H L +
Sbjct: 250 LLN-----------VQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTL 298
Query: 184 KFLQSLNLTRLV-----------MSQLNPLR-SCNAEIVSHFASITNTYQIVYCYNVIHQ 231
+ +L + NP R S AE + + + ++ H
Sbjct: 299 TPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWK--------HV 350
Query: 232 NARLNVLPIVSTDALGNIIKLNTVNALD------QYSPFSTFLLVRCKSI-ITPEIHC-- 282
N D L II+ ++N L+ + S F S I +
Sbjct: 351 N----------CDKLTTIIES-SLNVLEPAEYRKMFDRLSVFP----PSAHIPTILLSLI 395
Query: 283 -----QADPIPVTTNTNRTQNLLIADPVSSKQADHD 313
++D + V N +L+ P S +
Sbjct: 396 WFDVIKSDVMVV-VNKLHKYSLVEKQPKESTISIPS 430
Score = 32.9 bits (74), Expect = 0.14
Identities = 49/291 (16%), Positives = 80/291 (27%), Gaps = 89/291 (30%)
Query: 72 HAHFMPVSIGENFIEFLWKKIANVKIYNIFRQSCCHYVSSLLIHAHFMPVRVIKTCLNEM 131
H H M GE ++ +K I +V C V + + I
Sbjct: 3 HHHHMDFETGE--HQYQYKDILSVFEDAFVDNFDCKDVQDMP--------KSI------- 45
Query: 132 SQWCHSYLDNTDLTDEEACSPVKHPVFYSVCQALFSVITYKHSILVDS------KKNMKF 185
L+ EE + S LF + K +V + N KF
Sbjct: 46 ------------LSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKF 93
Query: 186 L---------QSLNLTRLVMSQLNPLRSCNAEIVSHFASITNTYQIVYCYNVIHQNA-RL 235
L Q +TR+ + Q + L + N + S Y + Q L
Sbjct: 94 LMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQ------PYLKLRQALLEL 147
Query: 236 NVLPIVSTDALGNIIK--LNTVNALDQYS-----PFSTFLLV--RCKS------------ 274
V D + K + ++ Y F F L C S
Sbjct: 148 RPAKNVLIDGVLGSGKTWV-ALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLL 206
Query: 275 -IITPEIHCQAD---PIPVTTNTNRT------------QNLLIADPVSSKQ 309
I P ++D I + ++ + LL+ V + +
Sbjct: 207 YQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAK 257
>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 = 28.8 bits (63), Expect = 1.7
Identities = 8/30 (26%), Positives = 15/30 (50%), Gaps = 2/30 (6%)
Query: 180 KKNMKFLQSLNLTRLVMSQLNPLRSCNAEI 209
K+ +K LQ+ +L +L P + A +
Sbjct: 19 KQALKKLQA-SL-KLYADDSAPALAIKATM 46
>1vfy_A Phosphatidylinositol-3-phosphate binding FYVE domain of protein
VPS27; endosome maturation, intracellular trafficking;
1.15A {Saccharomyces cerevisiae} SCOP: g.50.1.1
Length = 73
Score = 25.4 bits (56), Expect = 6.8
Identities = 8/32 (25%), Positives = 12/32 (37%)
Query: 99 NIFRQSCCHYVSSLLIHAHFMPVRVIKTCLNE 130
+F Q L + PVRV +C +
Sbjct: 35 GVFCQEHSSNSIPLPDLGIYEPVRVCDSCFED 66
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
0.326 0.137 0.424
Gapped
Lambda K H
0.267 0.0531 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,812,779
Number of extensions: 268420
Number of successful extensions: 519
Number of sequences better than 10.0: 1
Number of HSP's gapped: 511
Number of HSP's successfully gapped: 12
Length of query: 323
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 229
Effective length of database: 4,077,219
Effective search space: 933683151
Effective search space used: 933683151
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 57 (26.2 bits)