RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13396
(328 letters)
>1v33_A DNA primase small subunit; nucleotidyl transferase, riken
structural genomics/proteomics initiative, RSGI,
structural genomics; HET: DNA; 1.80A {Pyrococcus
horikoshii} SCOP: d.264.1.1 PDB: 1v34_A* 1g71_A*
Length = 366
Score = 229 bits (583), Expect = 6e-73
Identities = 57/322 (17%), Positives = 102/322 (31%), Gaps = 22/322 (6%)
Query: 8 ESLTEMLPFYYKRIFPYGPYLRWLFYGNLDNFRKREFSFTLNGD-IYARYISYNSPNELK 66
E E +Y + ++ + REF F +G+ R Y +L+
Sbjct: 25 EVTREERKNFYTNEWKVKDIPDFI----VKTLELREFGFDHSGEGPSDRKNQYTDIRDLE 80
Query: 67 KDLIKRCPQKIDLGAIYDICPKDHLQHSVFTPKMKELVFDIDMTDYDDVRNCCSGADICE 126
+ P + P++ ELVFDID D R +C
Sbjct: 81 DYIRATAPYAVYSSVALYEKPQEME-----GWLGTELVFDIDAKDLPLRRCEHEPGTVCP 135
Query: 127 KCWRYMSIACKILDTALREDFDFQLLLWVFSGRRGIHCWVCDEAALALDGRGRSCLAEYM 186
C + LRE+ F + ++SG RG H V DE AL LD + R + ++
Sbjct: 136 ICLNDAKEIVRDTVIILREELGFNDIHIIYSG-RGYHIRVLDEWALKLDSKSRERILSFV 194
Query: 187 SVLTANPVKKVFLTGDVLHPHLKRAKLIIEDQFEKLLEEQELLSTKERQTKVLGLVSNGD 246
S V++ L + + ++ + + ++
Sbjct: 195 SASEIEDVEEF----RKLLLNKRGWFVLNHGYPRAFRLRFGYFILRIKLPHLINAGIRKS 250
Query: 247 IRAEIEKEWTRIGPGQDVEKWDRLVAIIKHHQAKNSDRKLKYAIEEILLELAYPRLDIHV 306
I I K I + + I + + + + + D V
Sbjct: 251 IAKSILKSKEEI-------YEEFVRKAILAAFPQGVGIESLAKLFALSTRFSKSYFDGRV 303
Query: 307 SKGVNHLLKSPFCVHPKTGKIC 328
+ + +L+ P +H K G I
Sbjct: 304 TVDLKRILRLPSTLHSKVGLIA 325
>1zt2_A DNA primase small subunit; heterodimeric complex, replication,
transferase; HET: DNA; 3.33A {Sulfolobus solfataricus}
SCOP: d.264.1.1
Length = 330
Score = 139 bits (350), Expect = 8e-39
Identities = 51/248 (20%), Positives = 78/248 (31%), Gaps = 40/248 (16%)
Query: 6 DPESLTEMLPFYYKRIFPYGPYLRWLFYGNLDNFRKREFSFT-LNGDIYARYISYNSPNE 64
+ YY P + REF+ D Y R++S++S E
Sbjct: 10 QTNLIKSFFRNYYLNAELELP----------KDMELREFALQPFGSDTYVRHLSFSSSEE 59
Query: 65 LKKDLIKR-CPQKIDLGAIYDICPKDHLQHSVFTPKMKELVFDID---MTDYDDVRNC-- 118
L+ L+ R P + + P +L+FDID + +R C
Sbjct: 60 LRDYLVNRNLPLHLFYSSARYQLPSAR-NMEEKAWMGSDLLFDIDADHLCKLRSIRFCPV 118
Query: 119 CSGADICEKCWRYMSIAC-----------------KILDTALREDFDFQLLLWVFSGRRG 161
C A + EKC R + L L +DF + ++ FSG RG
Sbjct: 119 CGNAVVSEKCERDNVETLEYVEMTSECIKRGLEQTRNLVEILEDDFGLKPKVY-FSGNRG 177
Query: 162 IHCWV-CDEAALALDGRGRSCLAEYMSVLTANPVKKVFLTGDVLHPHLKRAKLIIEDQFE 220
H V C LD R +AEY + V + + R I
Sbjct: 178 FHVQVDCYGNCALLDSDERKEIAEY---VMGIGVPGYPGGSENAPGWVGRKNRGINGVTI 234
Query: 221 KLLEEQEL 228
++
Sbjct: 235 DEQVTIDV 242
>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 = 50.2 bits (119), Expect = 6e-07
Identities = 53/317 (16%), Positives = 106/317 (33%), Gaps = 80/317 (25%)
Query: 40 RKREFSFTLNGDIYARYIS---YNSPNELKKDLIKRCPQ-KIDLGAIYDICPKDHLQHSV 95
+ ++ I+ +++ NSP + + L K Q + + D L+
Sbjct: 172 LSYKVQCKMDFKIF--WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHS 229
Query: 96 FTPKMKELVFDIDMTDY-------DDVRNCCSGADICEKCWRYMSIACKIL-DTALREDF 147
+++ L+ Y +V+N K W +++CKIL T ++
Sbjct: 230 IQAELRRLLKS---KPYENCLLVLLNVQN--------AKAWNAFNLSCKILLTTRFKQVT 278
Query: 148 DFQLLLWVFSGRRGIHCWVCDEAALALDGRGRSCLAEYMS---------VLTANPVKKVF 198
DF S H + + +S L +Y+ VLT NP ++
Sbjct: 279 DF------LSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPR-RLS 331
Query: 199 LTGDVLHPHLKRA---KLIIEDQFEKLLEEQ-ELLSTKERQ----------------TKV 238
+ + + L K + D+ ++E +L E + T +
Sbjct: 332 IIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTIL 391
Query: 239 LGLVSNGDIRAEIEKEWTRIGPGQDVEKWDRLVAIIKHHQAKNSDRKLKYAIEEILLELA 298
L L+ I++++ V K + + K ++ +I I LEL
Sbjct: 392 LSLIWFDVIKSDVM---------VVVNKLHKYSLVEKQ------PKESTISIPSIYLELK 436
Query: 299 YPRLD---IHVSKGVNH 312
+ +H V+H
Sbjct: 437 VKLENEYALH-RSIVDH 452
Score = 37.9 bits (87), Expect = 0.004
Identities = 38/272 (13%), Positives = 82/272 (30%), Gaps = 80/272 (29%)
Query: 84 DICPKDHLQHSVFTPKMKELVFDIDMTDYDD-VRNCCSGADI---------CEKCWRYMS 133
KD L F + + D D D ++ S +I R
Sbjct: 15 QYQYKDILSV--FEDAFVD---NFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFW 69
Query: 134 IAC--------KILDTALREDFDFQLLLWVFSGRRGIHCWVCDEAALALDGRGRSCLAE- 184
K ++ LR ++ F L + + + R S +
Sbjct: 70 TLLSKQEEMVQKFVEEVLRINYKF---LM---------------SPIKTEQRQPSMMTRM 111
Query: 185 YMSVLTANPVKKVFLTGDVLHP-HLKRAKLIIEDQFEKLLE---EQELL------STKER 234
Y+ +++ V ++ R + ++ + + LLE + +L S K
Sbjct: 112 YIEQ-----RDRLYNDNQVFAKYNVSRLQPYLKLR-QALLELRPAKNVLIDGVLGSGK-- 163
Query: 235 QTKVLGLVSNGDIRAEIEKE--WTRIG----PGQDVEKWDRLVAIIKHHQAKNSDR---- 284
L + + ++ +++ + W + P +E +L+ I + SD
Sbjct: 164 TWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNI 223
Query: 285 -----KLKYAIEEILLELAYPR----LDIHVS 307
++ + +L Y L +V
Sbjct: 224 KLRIHSIQAELRRLLKSKPYENCLLVLL-NVQ 254
Score = 31.0 bits (69), Expect = 0.63
Identities = 21/128 (16%), Positives = 35/128 (27%), Gaps = 39/128 (30%)
Query: 3 DKYDPESLTEMLPFYYKRIFPYGPY-------------LRWLFYGNLD-NF--RK-REFS 45
+D + L Y + + + R +F LD F +K R S
Sbjct: 457 KTFDSDDLIPPYLDQY--FYSHIGHHLKNIEHPERMTLFRMVF---LDFRFLEQKIRHDS 511
Query: 46 FTLNG-----------DIYARYISYNSP--NELKKDLIKRCPQKIDLGAIYDICP-KDHL 91
N Y YI N P L ++ P+ + D L
Sbjct: 512 TAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPK---IEENLICSKYTDLL 568
Query: 92 QHSVFTPK 99
+ ++
Sbjct: 569 RIALMAED 576
>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 = 33.9 bits (77), Expect = 0.087
Identities = 14/62 (22%), Positives = 22/62 (35%), Gaps = 26/62 (41%)
Query: 59 YNSPNE----------LKK-----DLIKRCPQKIDLGAIYDICPKDHLQHSVFTPKMKEL 103
YN N+ L + IK QKID+ LQ S+ +++
Sbjct: 1846 YNVENQQYVAAGDLRALDTVTNVLNFIKL--QKIDII---------ELQKSLSLEEVEGH 1894
Query: 104 VF 105
+F
Sbjct: 1895 LF 1896
Score = 32.7 bits (74), Expect = 0.19
Identities = 26/129 (20%), Positives = 39/129 (30%), Gaps = 47/129 (36%)
Query: 188 VLTANPVKKVFLTGDVLHPHLKRAKLIIEDQFEKLLEE--------QELLSTKERQTKVL 239
L+ ++ V L + + +QF K+L E E + E K L
Sbjct: 10 TLSHGSLEHVLLVPTASFFIASQLQ----EQFNKILPEPTEGFAADDEPTTPAELVGKFL 65
Query: 240 GLVSNGDIRAEIEKEWTRIGPGQDVEKWDRLVAIIKHHQAKNSDRKLKYAIEEILLELAY 299
G VS+ E +++G V L + E E Y
Sbjct: 66 GYVSS-------LVEPSKVGQFDQV---------------------LNLCLTE--FENCY 95
Query: 300 PRL---DIH 305
L DIH
Sbjct: 96 --LEGNDIH 102
>2ihb_B Regulator of G-protein signalling 10, guanine nucleotide-binding
protein G(K) subunit A; RGS, heterotrimeric G protein,
signall complex; HET: GDP; 2.71A {Homo sapiens} PDB:
2i59_A
Length = 153
Score = 30.4 bits (68), Expect = 0.38
Identities = 13/70 (18%), Positives = 29/70 (41%), Gaps = 5/70 (7%)
Query: 31 LFYGNLDNFRKREFSFTLN---GDIYARYISYNSPNELKKDLIKRCPQKIDLGAIYDICP 87
LF+ ++F+K + + +IY ++S + +++ + R +KI
Sbjct: 62 LFWLACEDFKKMQDKTQMQEKAKEIYMTFLSSKASSQVNVEGQSRLNEKILEEP--HPLM 119
Query: 88 KDHLQHSVFT 97
LQ +F
Sbjct: 120 FQKLQDQIFN 129
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.7 bits (66), Expect = 0.85
Identities = 15/76 (19%), Positives = 33/76 (43%), Gaps = 10/76 (13%)
Query: 218 QFEKLLEEQELLST-KERQTKVLGLVSNGDIRAEIEKEWTRIGPGQDVEKWDRLVAIIKH 276
Q ++L +E E + +E Q K L D +++ ++ R +D+E+W++
Sbjct: 76 QADRLTQEPESIRKWREEQRKRL---QELDAASKVMEQEWREKAKKDLEEWNQ------R 126
Query: 277 HQAKNSDRKLKYAIEE 292
+ K+ I +
Sbjct: 127 QSEQVEKNKINNRIAD 142
>2dlr_A RGS10, regulator of G-protein signaling 10; RGS domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 149
Score = 28.8 bits (64), Expect = 1.4
Identities = 14/72 (19%), Positives = 32/72 (44%), Gaps = 9/72 (12%)
Query: 31 LFYGNLDNFRKREFSFTLN---GDIYARYISYNSPNELKKDLIKRCPQKIDLGAIYDICP 87
LF+ ++F+K + + +IY ++S + +++ + R +KI + + P
Sbjct: 46 LFWLACEDFKKMQDKTQMQEKAKEIYMTFLSSKASSQVNVEGQSRLNEKI----LEEPHP 101
Query: 88 K--DHLQHSVFT 97
LQ +F
Sbjct: 102 LMFQKLQDQIFN 113
>2jnu_A RGS14, regulator of G-protein signaling 14; regulator of G-protein
signalling domain, structural genomics, structural
genomics consortium, SGC; NMR {Homo sapiens}
Length = 154
Score = 27.3 bits (60), Expect = 4.1
Identities = 9/72 (12%), Positives = 23/72 (31%), Gaps = 7/72 (9%)
Query: 31 LFYGNLDNFRKREFS-----FTLNGDIYARYISYNSPNELKKDLIKRCPQKIDLGAIYDI 85
F+ + F++ S +IY ++S + + + D +++
Sbjct: 42 TFWKACERFQQIPASDTQQLAQEARNIYQEFLSSQALSPVNIDRQAWLGEEVLAEP--RP 99
Query: 86 CPKDHLQHSVFT 97
Q +F
Sbjct: 100 DMFRAQQLQIFN 111
>1n3l_A Tyrosyl-tRNA synthetase; rossmann fold AS catalytic domain, unique
anticodon recognit domain, dimer, ligase; 1.18A {Homo
sapiens} SCOP: c.26.1.1 PDB: 1q11_A*
Length = 372
Score = 27.8 bits (62), Expect = 5.9
Identities = 11/44 (25%), Positives = 19/44 (43%), Gaps = 3/44 (6%)
Query: 61 SPNELKKDLIKRCPQKIDLGAIYDICPKDHLQHSVFTPKMKELV 104
+LK+ L +R KI G K H+ + V K+ + +
Sbjct: 23 GEEKLKEILKER-ELKIYWG--TATTGKPHVAYFVPMSKIADFL 63
>1lr5_A Auxin binding protein 1; beta jellyroll, double stranded beta
helix, germin-like PROT protein binding; HET: NAG BMA
MAN; 1.90A {Zea mays} SCOP: b.82.1.2 PDB: 1lrh_A*
Length = 163
Score = 26.6 bits (58), Expect = 7.8
Identities = 10/48 (20%), Positives = 14/48 (29%)
Query: 158 GRRGIHCWVCDEAALALDGRGRSCLAEYMSVLTANPVKKVFLTGDVLH 205
R IH C+E L G+G + P + F
Sbjct: 52 QRTPIHRHSCEEVFTVLKGKGTLLMGSSSLKYPGQPQEIPFFQNTTFS 99
>2o16_A Acetoin utilization protein ACUB, putative; structural genomics,
unknown function, PSI-2, protein struct initiative;
1.90A {Vibrio cholerae} SCOP: d.37.1.1
Length = 160
Score = 26.5 bits (59), Expect = 8.0
Identities = 10/25 (40%), Positives = 13/25 (52%)
Query: 237 KVLGLVSNGDIRAEIEKEWTRIGPG 261
K+LG+VS D+ A E R G
Sbjct: 47 KLLGIVSQRDLLAAQESSLQRSAQG 71
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
0.324 0.141 0.446
Gapped
Lambda K H
0.267 0.0501 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,503,794
Number of extensions: 345058
Number of successful extensions: 874
Number of sequences better than 10.0: 1
Number of HSP's gapped: 856
Number of HSP's successfully gapped: 26
Length of query: 328
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 234
Effective length of database: 4,077,219
Effective search space: 954069246
Effective search space used: 954069246
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: 41 (22.0 bits)
S2: 57 (26.3 bits)