RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8033
(267 letters)
>3nr5_A MAF1, repressor of RNA polymerase III transcription MAF; RNA-POL
III transcriptional repressor, RNA-POL III; 1.55A {Homo
sapiens}
Length = 164
Score = 120 bits (301), Expect = 5e-34
Identities = 54/80 (67%), Positives = 67/80 (83%)
Query: 178 WVMNAIDSNLSTTAGEQYRTLRPHLWAALEDEIVLPECDIYSYNPDLTSDPFSEDGSLWS 237
WV+NA++ +L + E ++ L+P LW A+++EI L ECDIYSYNPDL SDPF EDGSLWS
Sbjct: 85 WVVNAVNCSLFSAVREDFKDLKPQLWNAVDEEICLAECDIYSYNPDLDSDPFGEDGSLWS 144
Query: 238 FNYFFYNKKLKRIVFFSCRA 257
FNYFFYNK+LKRIVFFSCR+
Sbjct: 145 FNYFFYNKRLKRIVFFSCRS 164
Score = 36.6 bits (84), Expect = 0.003
Identities = 17/30 (56%), Positives = 22/30 (73%)
Query: 3 ARFEALNRALCINVGDSKIVGRIESYSCKM 32
+ FEA+N L + GD+ I+GRIESYSCK
Sbjct: 13 SSFEAINSQLTVETGDAHIIGRIESYSCKP 42
>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 = 46.8 bits (110), Expect = 5e-06
Identities = 49/310 (15%), Positives = 84/310 (27%), Gaps = 111/310 (35%)
Query: 8 LNRALCI--NVGDSKIVGRIESY--SCK--MAGNDKQFYKKFNSEQGTTPQDLQALSPPQ 61
L + NV ++K ++ SCK + KQ + T + +L
Sbjct: 243 YENCLLVLLNVQNAKA---WNAFNLSCKILLTTRFKQV---TDFLSAATTTHI-SLDHHS 295
Query: 62 SGLGISPGRSHYRIESYSCKMAGNDKQFYKKFNSEQGTTPQDLQALSPPQSGLGISPGRS 121
L + K + PQDL P + L +P
Sbjct: 296 MTLT----------PDEVKSL------LLKYLDCR----PQDL----PREV-LTTNP--- 327
Query: 122 HYSYSCKMAG----NDK---QFYKKFNSEQGTTPQD--LQALSPPQ-----SGLGISPVA 167
+ + +K N ++ TT + L L P + L + P +
Sbjct: 328 ---RRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPS 384
Query: 168 ASLVMRKVL--YW-------VMNAIDSNLSTTAGEQ------------YRTLRPHL--WA 204
A + +L W VM ++ + E+ Y L+ L
Sbjct: 385 A-HIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEY 443
Query: 205 ALEDEIV---------------LPECDIYSYN----------PDLTSDPFSEDGSLWSFN 239
AL IV P D Y Y+ F +
Sbjct: 444 ALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRM----VFLD 499
Query: 240 YFFYNKKLKR 249
+ F +K++
Sbjct: 500 FRFLEQKIRH 509
Score = 34.4 bits (78), Expect = 0.037
Identities = 33/175 (18%), Positives = 49/175 (28%), Gaps = 48/175 (27%)
Query: 117 SPGRSHYSYSCKMAGNDKQFYKKFN---SEQGTTPQD-LQALSPPQ-------SGLGISP 165
S Y ND Q + K+N + + L L P + G G +
Sbjct: 106 SMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTW 165
Query: 166 VAASLVMR--KVL-------YWVMNAIDSNLSTTAGEQYRTLRPHLWAALEDEIVLPECD 216
VA V KV +W +N + N T E + L + D D
Sbjct: 166 VALD-VCLSYKVQCKMDFKIFW-LNLKNCNSPETVLEMLQKLLYQI-----DPNWTSRSD 218
Query: 217 IYSYNPDLTSDPFSEDGSLWSFNYFFYNKKLKR--IV------------F-FSCR 256
+S N L +K + +V F SC+
Sbjct: 219 -HSSNIKLRIHSIQA-----ELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCK 267
>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 = 43.5 bits (102), Expect = 5e-05
Identities = 52/292 (17%), Positives = 84/292 (28%), Gaps = 97/292 (33%)
Query: 35 NDKQFYKKFNSEQGTTP------QDLQALSPPQSGLGISPGRSHYRIESYSCKMAGNDKQ 88
+ Q F QG T +DL G I S + +K
Sbjct: 152 GNAQLVAIFGG-QGNTDDYFEELRDLYQTYHVLVGDLIK--FSAETLSELIRTTLDAEKV 208
Query: 89 FYKKFNSEQ-----GTTP-QDLQALSP---PQSGLGISPGRSHYSYSCKMAGNDKQFYKK 139
F + N + TP +D P P G+ I +HY + K+ G
Sbjct: 209 FTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGV-IQ--LAHYVVTAKLLG-------- 257
Query: 140 FNSEQGTTPQDLQALSPPQSGLGISPVAASLV---------------MRKVLYWV----- 179
TP +L++ +G V A + VL+++
Sbjct: 258 ------FTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCY 311
Query: 180 ----MNAIDSNL---STTAGEQYRTLRPHL------WAALEDEI-----VLPECD---IY 218
++ ++ S E + P L ++D + LP I
Sbjct: 312 EAYPNTSLPPSILEDSLENNEGVPS--PMLSISNLTQEQVQDYVNKTNSHLPAGKQVEIS 369
Query: 219 SYN-PD---LTSDPFSEDGSLWSFNYFFYNKKLK--------RIVFFSCRAI 258
N ++ P SL+ N +K K RI FS R +
Sbjct: 370 LVNGAKNLVVSGPP----QSLYGLNLTL--RKAKAPSGLDQSRIP-FSERKL 414
Score = 35.4 bits (81), Expect = 0.022
Identities = 43/242 (17%), Positives = 72/242 (29%), Gaps = 85/242 (35%)
Query: 1 MTARFEALNRALCINVGDSKIVGRIESYSCKMAGNDKQ-----FYKKFNSEQGTTPQDLQ 55
T + L A+ I DS ES+ + ++ F+ P
Sbjct: 270 ATGHSQGLVTAVAIAETDSW-----ESF----FVSVRKAITVLFFIGVRC-YEAYPN--T 317
Query: 56 ALSP------PQSGLGI-SP-----GRSHYRIESY---SCKMAGNDKQFY-KKFNSEQ-- 97
+L P ++ G+ SP + +++ Y + KQ N +
Sbjct: 318 SLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNL 377
Query: 98 ---GTTPQDLQALS--------PP---QSG--------------LGIS-PGRSHYSYSCK 128
G PQ L L+ P QS L ++ P SH
Sbjct: 378 VVSGP-PQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPAS 436
Query: 129 ------MAGNDKQFYKK------FNSEQGTTPQDLQALSPPQSGLGISPVAASLVMRKVL 176
+ N+ F K +++ G DL+ LS IS ++R +
Sbjct: 437 DLINKDLVKNNVSFNAKDIQIPVYDTFDG---SDLRVLSGS-----ISERIVDCIIRLPV 488
Query: 177 YW 178
W
Sbjct: 489 KW 490
>3caw_A O-succinylbenzoate synthase; structural genomics, PSI-2, NYSGXRC,
target 9462A, protein structure initiative; 1.87A
{Bdellovibrio bacteriovorus HD100}
Length = 330
Score = 29.0 bits (65), Expect = 1.6
Identities = 8/76 (10%), Positives = 23/76 (30%), Gaps = 10/76 (13%)
Query: 159 SGLGISPVAASLVMRKVLYWVMNAIDSNLSTTAGEQYRTLRPHLWAALEDEI--VLPECD 216
+ + A + V + +D + + L+D+ ++ E
Sbjct: 230 AKTDVDKAVAQCQKWNLKLAVTSYMDHPVGVVHAV-------GVAMELKDKYGDMILESG 282
Query: 217 IYSYNPDLTSDPFSED 232
++ D F+ +
Sbjct: 283 CLTHR-LYQMDSFAAE 297
>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 = 27.2 bits (59), Expect = 3.5
Identities = 9/41 (21%), Positives = 16/41 (39%), Gaps = 15/41 (36%)
Query: 133 DKQFYKKFNSEQGTTPQDLQALSPPQSGLGISP---VAASL 170
+KQ KK + L+ L S +P + A++
Sbjct: 18 EKQALKKLQAS-------LK-LYADDS----APALAIKATM 46
Score = 26.1 bits (56), Expect = 8.5
Identities = 8/35 (22%), Positives = 12/35 (34%), Gaps = 12/35 (34%)
Query: 36 DKQFYKKFNSEQGTTPQDLQALSP---PQSGLGIS 67
+KQ KK + L+ + P L I
Sbjct: 18 EKQALKKLQAS-------LKLYADDSAP--ALAIK 43
Score = 26.1 bits (56), Expect = 8.5
Identities = 8/35 (22%), Positives = 12/35 (34%), Gaps = 12/35 (34%)
Query: 86 DKQFYKKFNSEQGTTPQDLQALSP---PQSGLGIS 117
+KQ KK + L+ + P L I
Sbjct: 18 EKQALKKLQAS-------LKLYADDSAP--ALAIK 43
>2xry_A Deoxyribodipyrimidine photolyase; DNA damage, DNA repair; HET: FAD;
1.50A {Methanosarcina mazei} PDB: 2xrz_A*
Length = 482
Score = 27.7 bits (62), Expect = 4.3
Identities = 12/47 (25%), Positives = 20/47 (42%), Gaps = 1/47 (2%)
Query: 187 LSTTAGEQYRTLRPHLWAALEDEIV-LPECDIYSYNPDLTSDPFSED 232
S T RP L+A L + + PE + S P+L++ +
Sbjct: 170 ASQKHEYAAHTFRPKLYALLPEFLEEFPELEPNSVTPELSAGAGMVE 216
>3umv_A Deoxyribodipyrimidine photo-lyase; CPD cyclobutane pyrimidine
dimers, UV damaged DNA, DNA repai flavoprotein; HET:
FAD; 1.71A {Oryza sativa japonica group}
Length = 506
Score = 27.0 bits (60), Expect = 8.2
Identities = 7/47 (14%), Positives = 14/47 (29%), Gaps = 1/47 (2%)
Query: 187 LSTTAGEQYRTLRPHLWAALEDEIV-LPECDIYSYNPDLTSDPFSED 232
S +T R + +++ +V PE + D
Sbjct: 177 ASAKMEYSAKTFRGKVSKVMDEYLVEFPELPAVVPWDREQPEGVDWD 223
>1m2o_A SEC23, protein transport protein SEC23, SEC23P; zinc-finger, beta
barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A
{Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1
c.62.1.2 d.109.2.1 g.41.10.1 PDB: 1m2v_A 2qtv_A*
Length = 768
Score = 26.9 bits (58), Expect = 9.3
Identities = 19/97 (19%), Positives = 30/97 (30%), Gaps = 17/97 (17%)
Query: 58 SPPQSGLGI-------SPGRSHYRIESYSCKMAGNDKQFYKKFN---SEQGTTPQDLQAL 107
P G+ P RSH+ I+S + +FY + + G T D+ A
Sbjct: 290 GPGTVAPGLIVNSELKDPLRSHHDIDSDHAQHYKKACKFYNQIAQRVAANGHTV-DIFAG 348
Query: 108 SPPQSGLGISPGRSHYSYSCKMAGNDKQFYKKFNSEQ 144
Q G+ S G F++
Sbjct: 349 CYDQIGM------SEMKQLTDSTGGVLLLTDAFSTAI 379
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
0.316 0.133 0.399
Gapped
Lambda K H
0.267 0.0680 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,106,791
Number of extensions: 231947
Number of successful extensions: 420
Number of sequences better than 10.0: 1
Number of HSP's gapped: 419
Number of HSP's successfully gapped: 17
Length of query: 267
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 175
Effective length of database: 4,133,061
Effective search space: 723285675
Effective search space used: 723285675
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 (21.6 bits)
S2: 56 (25.4 bits)