RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy672
(314 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 = 42.5 bits (99), Expect = 1e-04
Identities = 41/313 (13%), Positives = 87/313 (27%), Gaps = 73/313 (23%)
Query: 12 FSKDVVLNIIFPLARNVLETNTMQG-VKQPP----MTRLLAVIQFYATGNFQIFTGDSHG 66
F + + + +++L + + RL + Q F +
Sbjct: 29 FVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVL- 87
Query: 67 VSQPTMCRLVKEVSKALAQAHVNYVKFPEQLAPTKVAFQGIGNFPGVVGCVDCTHVPIQL 126
+ L+ + Q + + EQ + F +
Sbjct: 88 --RINYKFLMSPIKTEQRQPSMMTRMYIEQRDRL---YNDNQVFA-----------KYNV 131
Query: 127 PSVENGENFRNRKGTFSLNVQVIGGPNLEIWDVVSGWPGS-----------------VHD 169
++ R+ L N+ ++ G GS D
Sbjct: 132 SRLQPYLKL--RQALLELRP----AKNV----LIDGVLGSGKTWVALDVCLSYKVQCKMD 181
Query: 170 SRIF-TNSRVCHRFERGEVRGILLGDSGYAQNTFLYTPLLNPTTPQEQRYNKAHIKTRNS 228
+IF N + C+ E V +L Q +T + ++ + R + +
Sbjct: 182 FKIFWLNLKNCNSPE--TVLEMLQ--KLLYQIDPNWTSRSDHSSNIKLRIHSI----QAE 233
Query: 229 VERLFGIWKRRFACL-------RRKLANS-PVTCTHIVTA--CAVLHNIAVQTRQELPAE 278
+ RL K CL K N+ ++C ++T V ++ T + +
Sbjct: 234 LRRLL-KSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLD 292
Query: 279 DEV----EEEVEE 287
+EV+
Sbjct: 293 HHSMTLTPDEVKS 305
>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 = 38.1 bits (88), Expect = 0.004
Identities = 38/263 (14%), Positives = 67/263 (25%), Gaps = 100/263 (38%)
Query: 22 FP---LARNVLETNTMQGVKQP-PMTRLLAVIQFYATGNFQIFTGDSHGVSQPTMCRLVK 77
+P L ++LE + P PM L++ ++Q + V
Sbjct: 314 YPNTSLPPSILEDSLENNEGVPSPM---LSIS----------------NLTQEQVQDYVN 354
Query: 78 EVSKALAQA-HV---------NYV--KFPEQLAPTKVAFQGIGNFPGVVGCVDCTHVPIQ 125
+ + L V N V P+ L + + G+ D + +P
Sbjct: 355 KTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGL----DQSRIP-- 408
Query: 126 LPSVENGENFRNRKGTFSLNVQVIGGPNLEIWDVVSGWPGSVHDSRIFT--NSRVCHRFE 183
F RK FS + P H S + + +
Sbjct: 409 ---------FSERKLKFSNRFLPVASP--------------FH-SHLLVPASDLINKDLV 444
Query: 184 RGEVRGILLGDSGYAQNTFLYTPLLNPTTPQEQRYNKAHIKTRNSVERLFGIWKRRFACL 243
+ V + P+ + + R I ER+
Sbjct: 445 KNNVS--FNAKD-------IQIPVYDTFDGSDLRVLSGSI-----SERIV---------- 480
Query: 244 RRKLANSPV--------TCTHIV 258
+ PV THI+
Sbjct: 481 -DCIIRLPVKWETTTQFKATHIL 502
>4fld_A Regulation of nuclear PRE-mRNA domain-containing 1B; structural
genomics consortium, SGC, protein binding; 2.00A {Homo
sapiens}
Length = 135
Score = 28.0 bits (62), Expect = 2.1
Identities = 7/22 (31%), Positives = 11/22 (50%)
Query: 218 YNKAHIKTRNSVERLFGIWKRR 239
+A + +ERL IW+ R
Sbjct: 93 AREADEGCKKPLERLLNIWQER 114
>1sz9_A PCF11 protein; RNA polymerase II CTD interacting domain, arm
repeats, transcription; 2.10A {Saccharomyces cerevisiae}
SCOP: a.118.9.4 PDB: 1sza_A* 2bf0_X
Length = 144
Score = 28.1 bits (62), Expect = 2.3
Identities = 5/24 (20%), Positives = 8/24 (33%)
Query: 218 YNKAHIKTRNSVERLFGIWKRRFA 241
Y TR + +F +W
Sbjct: 94 YLLVDNTTRTKLINMFKLWLNPND 117
>2km4_A Regulator of TY1 transposition protein 103; CTD-interacting domain,
RNA polymerase II binding protein, phosphoprotein; NMR
{Saccharomyces cerevisiae} PDB: 2l0i_A*
Length = 142
Score = 27.3 bits (60), Expect = 3.7
Identities = 4/22 (18%), Positives = 8/22 (36%)
Query: 218 YNKAHIKTRNSVERLFGIWKRR 239
+ + + R+ I K R
Sbjct: 95 NQEFPRDLKKKLSRVVNILKER 116
>1r5t_A Cytidine deaminase; zinc dependent deaminase, RNA editing,
apobec-1 related protein, hydrolase; 2.00A
{Saccharomyces cerevisiae} SCOP: c.97.1.1
Length = 142
Score = 26.7 bits (59), Expect = 5.8
Identities = 6/30 (20%), Positives = 11/30 (36%)
Query: 65 HGVSQPTMCRLVKEVSKALAQAHVNYVKFP 94
G+ + L + KA ++ Y F
Sbjct: 4 GGIEDRQLEALKRAALKACELSYSPYSHFR 33
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl RED
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 1688
Score = 27.5 bits (61), Expect = 8.2
Identities = 10/54 (18%), Positives = 16/54 (29%), Gaps = 18/54 (33%)
Query: 254 CTHIVTACAV-LHNI--AVQTRQELPAEDEVEEEVEEDVVVNDGVGRNGAGAVI 304
V ACA + ++ V+T A + + VG G
Sbjct: 1099 IKTPVGACATSVESVDIGVETILSGKA----------RICI---VG--GYDDFQ 1137
>3ft1_A PHL P 3 allergen; beta-barrel; 1.79A {Phleum pratense} PDB: 3ft9_A
Length = 100
Score = 25.6 bits (56), Expect = 9.3
Identities = 8/53 (15%), Positives = 16/53 (30%), Gaps = 7/53 (13%)
Query: 127 PSVENGENFR-----NRKGTFSLNVQVIGGPNLEIWDVV-SGW-PGSVHDSRI 172
P + G + G F+ GG +V+ + + G +
Sbjct: 45 PLTKKGNVWEVKSSKPLVGPFNFRFMSKGGMRNVFDEVIPTAFSIGKTYKPEE 97
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
0.321 0.137 0.417
Gapped
Lambda K H
0.267 0.0570 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,882,682
Number of extensions: 289740
Number of successful extensions: 518
Number of sequences better than 10.0: 1
Number of HSP's gapped: 516
Number of HSP's successfully gapped: 13
Length of query: 314
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 221
Effective length of database: 4,105,140
Effective search space: 907235940
Effective search space used: 907235940
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (26.1 bits)