RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17733
(388 letters)
>1t77_A Lipopolysaccharide-responsive and beige-like anchor protein,
CDC4-like protein; PH-beach domains, vesicle
trafficking, signal transduction; 2.40A {Homo sapiens}
SCOP: a.169.1.1 b.55.1.6 PDB: 1mi1_A
Length = 414
Score = 51.7 bits (123), Expect = 2e-07
Identities = 27/45 (60%), Positives = 38/45 (84%)
Query: 279 GPVNISTRARLISPGVSAQGTLSITSTELYFEVDEDCPDFRNTDP 323
GPV++ST A+L++P V +GTLS+TS+ELYFEVDE+ P+F+ DP
Sbjct: 1 GPVSLSTPAQLVAPSVVVKGTLSVTSSELYFEVDEEDPNFKKIDP 45
Score = 51.7 bits (123), Expect = 2e-07
Identities = 27/45 (60%), Positives = 38/45 (84%)
Query: 343 GPVNISTRARLISPGVSAQGTLSITSTELYFEVDEDCPDFRNTDP 387
GPV++ST A+L++P V +GTLS+TS+ELYFEVDE+ P+F+ DP
Sbjct: 1 GPVSLSTPAQLVAPSVVVKGTLSVTSSELYFEVDEEDPNFKKIDP 45
>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 = 43.1 bits (101), Expect = 1e-04
Identities = 71/477 (14%), Positives = 131/477 (27%), Gaps = 151/477 (31%)
Query: 15 HAGLAFIELINEGRLLSHAMKDHIVRVANEAEFILNRMRADDVLKHAELLSHAMKDHIVR 74
HA A + N+ L+ +++ A + R K L A+ + +
Sbjct: 102 HALAAKLLQENDTTLVK---TKELIKNYITARIMAKRPFDK---KSNSALFRAVGEGNAQ 155
Query: 75 VA-------------NE------------AEFILNRMRADDVLK-----HAEFESHCAQT 104
+ E + I + + L + E Q
Sbjct: 156 LVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLI---KFSAETLSELIRTTLDAEKVFTQG 212
Query: 105 LQ-----ERRDEERLCDHLISAA----------------------------RRRDQGTAG 131
L E D+L+S R +G G
Sbjct: 213 LNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATG 272
Query: 132 RILDKVSNILSNKHGAWA-YNEAA------------RTQEFWKLDSWEDDARRRKRFVRN 178
V+ + + +W + + R E + S + + N
Sbjct: 273 HSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSIL--EDSLEN 330
Query: 179 PRGTSHPNATLEKVAQKEVPEDAIAHANQEF----HAQVAVVSQSSQANGANTC------ 228
G P ++ + Q++V +D + N ++++V NGA
Sbjct: 331 NEGVPSPMLSISNLTQEQV-QDYVNKTNSHLPAGKQVEISLV------NGAKNLVVSGPP 383
Query: 229 SELMDDSELIEGEVAV--VSQS----SQ--ANGAN-----TC---SELMDDS-ELIEG-- 269
L + + A + QS S+ +N S L+ + +LI
Sbjct: 384 QSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDL 443
Query: 270 -GGDIDI---DLTGPVNISTR----ARLISPGVSAQGTLSITSTELYFEVDEDCPDFRNT 321
++ D+ PV T R++S +S + I + +E F+ T
Sbjct: 444 VKNNVSFNAKDIQIPV-YDTFDGSDLRVLSGSISERIVDCIIRLPVKWE---TTTQFKAT 499
Query: 322 DPERSVISGVVVSRTPDLEFGGPVNISTRARLISPGVSAQGTLSITSTELYFEVDED 378
+ L+FG P S L G I + L D+D
Sbjct: 500 ----HI-----------LDFG-PGGASGLGVLTHRNKDGTGVRVIVAGTLDINPDDD 540
Score = 40.8 bits (95), Expect = 8e-04
Identities = 35/208 (16%), Positives = 59/208 (28%), Gaps = 79/208 (37%)
Query: 1 MLLCSQEWQTSLQKHAGLA----------FIELINEGRLLSHAMKDHIVRVANEAE---- 46
ML S Q +Q + I L+N G ++V V+ +
Sbjct: 338 MLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVN-GA-------KNLV-VSGPPQSLYG 388
Query: 47 --FILNRMRADDVLK------------------------HAELLSHAMKDHIVRVANEAE 80
L + +A L H+ LL A ++
Sbjct: 389 LNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPA-----------SD 437
Query: 81 FILNRMRADDVLKHAE------FESHCAQTLQERRDE--ERLCDHLISAA---RRRDQGT 129
I + ++V +A+ +++ L+ ER+ D +I Q
Sbjct: 438 LINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFK 497
Query: 130 AGRILD----KVSNILS----NKHGAWA 149
A ILD S + NK G
Sbjct: 498 ATHILDFGPGGASGLGVLTHRNKDGTGV 525
>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 = 35.6 bits (81), Expect = 0.029
Identities = 52/363 (14%), Positives = 119/363 (32%), Gaps = 67/363 (18%)
Query: 30 LSHAMKDHIVRVANEAEFI--LNRMRADDVLKHAELLSHAMKDHIVRVANEAEFILNRMR 87
+ KD I+ V E F+ + D+ K +LS DHI+ + L R
Sbjct: 14 HQYQYKD-ILSV-FEDAFVDNFDCKDVQDMPK--SILSKEEIDHIIMSKDAVSGTL---R 66
Query: 88 ADDVLKHAEFESHCAQTLQERRDEERLCDH--LISAARRRDQGTAGRILDKVS--NILSN 143
L S + +Q+ +E ++ L+S + + + + + L N
Sbjct: 67 LFWTL-----LSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYN 121
Query: 144 KHGAWAYNEAARTQEFWKLDSWEDDARRRKRFV-----------------RNPRGTSHPN 186
+ +A +R Q + KL + R K + + + +
Sbjct: 122 DNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMD 181
Query: 187 ATLE--KVAQKEVPEDAIAHANQEFHAQVAVVSQSSQANGANTCSELMDDSELIEGEVAV 244
+ + PE + + + + + + ++ + + + +
Sbjct: 182 FKIFWLNLKNCNSPETVLEMLQKLLY----QIDPNWTSRSDHSSNIKLRIHSIQAELRRL 237
Query: 245 VSQSSQANGANTCSELMDD---SELIEGGGDIDIDLTGPVNISTRARLISPGVSAQGTLS 301
+ N C ++ + ++ +L+ + ++TR + ++ +SA
Sbjct: 238 LKSKPYEN----CLLVLLNVQNAKAWN-----AFNLSCKILLTTRFKQVTDFLSAA---- 284
Query: 302 ITSTELYFEVDEDCPDFRNTDPE-RSVISGVVVSRTPDL----EFGGPVNISTRARLISP 356
T + +D T E +S++ + R DL P +S A I
Sbjct: 285 ---TTTHISLDHHSMTL--TPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRD 339
Query: 357 GVS 359
G++
Sbjct: 340 GLA 342
Score = 34.8 bits (79), Expect = 0.055
Identities = 51/426 (11%), Positives = 114/426 (26%), Gaps = 136/426 (31%)
Query: 28 RLLSHAMKDHIVRVANEAE---FILNRMRA----------DDVLK--HAELLSHAMKDHI 72
+LS DHI+ + + + + ++VL+ + L+S +
Sbjct: 44 SILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQR 103
Query: 73 VRVANEAEFI--LNRMRADDVL--KH----AEFESHCAQTLQERRDEERLCDH------- 117
+I +R+ D+ + K+ + Q L E R + +
Sbjct: 104 QPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGK 163
Query: 118 --LISAARR-----------------RDQGTAGRILDKVSNILSNKHGAWAYNEAARTQE 158
+ ++ + +L+ + +L W +
Sbjct: 164 TWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNI 223
Query: 159 FWKLDSWEDDARRRKRFVRNPRGTSHPNA--TLEKVAQKEVPEDAIAHANQEFHAQVAVV 216
++ S + +R +++ + N L V + N ++ +
Sbjct: 224 KLRIHSIQA---ELRRLLKSKP---YENCLLVLLNVQNAKA----WNAFN--LSCKILLT 271
Query: 217 SQSSQ----ANGANTCSELMDDSE--LIEGEVAVVSQSSQANGANTCSELMDDSELIEGG 270
++ Q + A T +D L E +S + +L
Sbjct: 272 TRFKQVTDFLSAATTTHISLDHHSMTLTPDE----VKSLLLKYLD-----CRPQDL---- 318
Query: 271 GDIDIDLTGPVNISTRARLISPGVSAQGTLSITSTELYFEVDEDCPD----FR--NTDPE 324
P +P LSI + + D ++ N D
Sbjct: 319 ---------PR----EVLTTNPRR-----LSIIAESI-----RDGLATWDNWKHVNCDKL 355
Query: 325 RSVISGVVVSRTPDLE---------FGGPVNISTRARLISPGVSAQGTLSITSTELYFEV 375
++I + P F +I T LS+ ++F+V
Sbjct: 356 TTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPT------------ILLSL----IWFDV 399
Query: 376 DEDCPD 381
+
Sbjct: 400 IKSDVM 405
Score = 27.5 bits (60), Expect = 9.2
Identities = 14/90 (15%), Positives = 32/90 (35%), Gaps = 22/90 (24%)
Query: 18 LAFIE--LINEGRLLSHAM------------KDHIVRVANEAEFILNR-----MRADDVL 58
F+E + ++ + + K +I + E ++N + ++ L
Sbjct: 500 FRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENL 559
Query: 59 ---KHAELLSHAMKDHIVRVANEAEFILNR 85
K+ +LL A+ + EA + R
Sbjct: 560 ICSKYTDLLRIALMAEDEAIFEEAHKQVQR 589
>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 = 33.8 bits (76), Expect = 0.040
Identities = 10/42 (23%), Positives = 13/42 (30%), Gaps = 22/42 (52%)
Query: 157 QEFWKLDS----WEDDARRRKRFVRNPRGTSHP----NATLE 190
Q KL + + DD S P AT+E
Sbjct: 20 QALKKLQASLKLYADD--------------SAPALAIKATME 47
>2qgs_A Protein Se1688; alpha-helical protein, structural genomics,
PSI-2, protein S initiative, northeast structural
genomics consortium; 2.00A {Staphylococcus epidermidis}
SCOP: a.211.1.1
Length = 225
Score = 28.9 bits (64), Expect = 2.4
Identities = 14/65 (21%), Positives = 23/65 (35%), Gaps = 6/65 (9%)
Query: 31 SHAMKDHIVRVANEAEFILNRMRADDVLK-HAELLSHAMKD----HIVRVANEAEFILNR 85
H + H+ RV N A +I R D L L H D + ++ + L+
Sbjct: 24 GHDI-AHVERVYNNACYIAKRENITDTLVIELSSLLHDTVDSKLTDEILAYDQLKQFLST 82
Query: 86 MRADD 90
+
Sbjct: 83 LDLSS 87
>1tht_A Thioesterase; 2.10A {Vibrio harveyi} SCOP: c.69.1.13
Length = 305
Score = 28.8 bits (64), Expect = 2.8
Identities = 18/103 (17%), Positives = 35/103 (33%), Gaps = 10/103 (9%)
Query: 29 LLSHAMKDHIVRVANEAEFILNRMRADDV-LKHAELLSHAMKDH------IVRVANEAEF 81
+ A D V+ E +L +R L SH + ++ + +A
Sbjct: 204 IAFTANNDDWVKQ-EEVYDMLAHIRTGHCKLYSLLGSSHDLGENLVVLRNFYQSVTKAAI 262
Query: 82 ILNRMRADDVLKHAE--FESHCAQTLQERRDEERLCDHLISAA 122
++ + + E FE T+ ERR + + + A
Sbjct: 263 AMDGGSLEIDVDFIEPDFEQLTIATVNERRLKAEIENRTPEMA 305
>3dto_A BH2835 protein; all alpha-helical protein, structural genomics,
PSI-2, protein structure initiative; 3.30A {Bacillus
halodurans} SCOP: a.211.1.1
Length = 223
Score = 28.1 bits (62), Expect = 3.9
Identities = 11/60 (18%), Positives = 19/60 (31%), Gaps = 5/60 (8%)
Query: 36 DHIVRVANEAEFILNRMRAD-DVLKHAELL----SHAMKDHIVRVANEAEFILNRMRADD 90
HI RV A+ I + + D V++ A L + D + +
Sbjct: 28 YHIRRVTLMAKAIGEQEKVDVFVVQIAALFHDLIDDKLVDDPETAKQQLIDWMEAAGVPS 87
Score = 27.8 bits (61), Expect = 5.0
Identities = 18/115 (15%), Positives = 37/115 (32%), Gaps = 10/115 (8%)
Query: 46 EFILNRMRADDVLKHAELLSHAMKDHIVRVANEAEFILNRMRADDVLKHAEFESHCAQTL 105
++ ++ + H HI RV A+ I + + D + H
Sbjct: 12 AWVKKQLMDEYS-------GHDW-YHIRRVTLMAKAIGEQEKVDVFVVQIAALFHDLIDD 63
Query: 106 QERRDEERLCDHLISAARRRDQGTAGRILDKVSNILSNKHGAWAYNEAARTQEFW 160
+ D E LI G + +D +I++ + ++ T+E
Sbjct: 64 KLVDDPETAKQQLIDW--MEAAGVPSQKIDHTMDIINTISFKGGHGQSLATREAM 116
>2pq7_A Predicted HD superfamily hydrolase; 104161995, HD domain,
structural genomics, joint center for structural
genomics, JCSG; HET: MSE; 1.45A {Uncultured
thermotogales bacterium} SCOP: a.211.1.1
Length = 220
Score = 27.4 bits (60), Expect = 7.6
Identities = 13/65 (20%), Positives = 19/65 (29%)
Query: 36 DHIVRVANEAEFILNRMRADDVLKHAELLSHAMKDHIVRVANEAEFILNRMRADDVLKHA 95
H RV A I +R + D L H +K + A +L
Sbjct: 36 SHTFRVMENASEIASREKCDLQKAIIAALLHDIKRPHEALTGVDHAESGAEYASGLLPTM 95
Query: 96 EFESH 100
F+
Sbjct: 96 GFDIS 100
>3n3m_A Orotidine 5'-phosphate decarboxylase; P. falciparum,
5'-monophosphate decarboxylase, 6- UMP, lyase; HET: PGE
NUP; 1.47A {Plasmodium falciparum} PDB: 2qaf_A* 3bar_A*
2q8z_A* 3mwa_A* 3n2m_A* 3bpw_A* 3n34_A* 3s9y_A* 2f84_A
2q8l_A 2za1_A* 2za2_A 2za3_A* 2zcg_A
Length = 342
Score = 27.6 bits (60), Expect = 7.9
Identities = 17/137 (12%), Positives = 47/137 (34%), Gaps = 16/137 (11%)
Query: 199 EDAIAHANQEFHAQVAVVSQSSQANGANTCSELMDDSELIEGEVAVVSQSSQANGANTCS 258
+D + + V+ +++ + A L D++ +A Q + +
Sbjct: 193 KDICYDEEKNKYYSAFVLVKTTNPDSAIFQKNLSLDNKQAYVIMA---QEALNMSSYLNL 249
Query: 259 ELMDDSELIEGGGDIDIDLTGPVNISTRARLISPGVSAQGTLSITSTELYFEVDEDCPDF 318
E ++ G + ++ ++SPG+ AQ ++ + +
Sbjct: 250 EQNNEFIGFVVGANSYDEMNYIRTYFPNCYILSPGIGAQNG----------DLHKTLTNG 299
Query: 319 RNTDPERSVISGVVVSR 335
+ E+ +I+ + R
Sbjct: 300 YHKSYEKILIN---IGR 313
>3gw7_A Uncharacterized protein YEDJ; all alpha-helical protein, structural
genomics, PSI-2, protein structure initiative; 3.30A
{Escherichia coli k-12}
Length = 239
Score = 27.4 bits (60), Expect = 8.1
Identities = 21/182 (11%), Positives = 51/182 (28%), Gaps = 22/182 (12%)
Query: 34 MKDHIVRVANEAEFILNRMRADDVLKHAELLSHAMKDHIVRVANEAEFILNRMRADDVLK 93
++ + ++ N + D +H + H RV A+ + D ++
Sbjct: 3 LQHWQAQFE---NWLKNHHQHQDA-------AHDV-CHFRRVWATAQKLAADDDVDMLVI 51
Query: 94 HAEFESHCAQTLQERRDEERL--CDHLISAARRRDQGTAGRILDKVSNILSN-KHGAWAY 150
H +L + + + R + +K+ + +++
Sbjct: 52 LTACYFHDIVSLAKNHPQRQRSSILAAEETRRLLREEFEQFPAEKIEAVCHAIAAHSFSA 111
Query: 151 NEAARTQEFW------KLDSWEDDARRRKRFVRNPRGTSH--PNATLEKVAQKEVPEDAI 202
A T E +L++ R V G + + + A+
Sbjct: 112 QIAPLTTEAKIVQDADRLEALGAIGLARVFAVSGALGVALFDGEDPFAQHRPLDDKRYAL 171
Query: 203 AH 204
H
Sbjct: 172 DH 173
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
0.315 0.130 0.372
Gapped
Lambda K H
0.267 0.0520 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,962,186
Number of extensions: 364426
Number of successful extensions: 784
Number of sequences better than 10.0: 1
Number of HSP's gapped: 780
Number of HSP's successfully gapped: 32
Length of query: 388
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 293
Effective length of database: 4,049,298
Effective search space: 1186444314
Effective search space used: 1186444314
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: 58 (26.6 bits)