RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy663
(275 letters)
>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 = 44.3 bits (104), Expect = 3e-05
Identities = 33/175 (18%), Positives = 58/175 (33%), Gaps = 60/175 (34%)
Query: 126 ESSEVAPYVRFVPPWSNCAPPVDQCLGEEKKSDVAPVV----------FQQKFSEAINTK 175
++S+ A + V W+ D + + +V F + + I
Sbjct: 1637 KTSKAA---QDV--WNRA----DNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIREN 1687
Query: 176 YANHTI-CYTDGSK---------SPDVTGCAFSIGDMVRSTLLN------PINSIFSAEL 219
Y+ DG + T F + LL+ P ++ E
Sbjct: 1688 YSAMIFETIVDGKLKTEKIFKEINEHSTSYTFR-SE---KGLLSATQFTQP--ALTLME- 1740
Query: 220 IAIFLCLEAILENPSDQFLIVSDSR---------SALAALANV-KFSNPLVTKVF 264
A F L++ + LI +D+ +ALA+LA+V + LV VF
Sbjct: 1741 KAAFEDLKS-------KGLIPADATFAGHSLGEYAALASLADVMSIES-LVEVVF 1787
Score = 41.6 bits (97), Expect = 2e-04
Identities = 43/271 (15%), Positives = 77/271 (28%), Gaps = 85/271 (31%)
Query: 65 PLTLRRSKLMLNYVAKISASPFNPAQKLLYHQDMSGIIFTVNKPKPLYIRFREVANFNNV 124
PLTL L +V + + F A +L Q+ F P+P A +
Sbjct: 8 PLTLSHGSL--EHVLLVPTASFFIASQL---QE----QFNKILPEPT----EGFAADDEP 54
Query: 125 LESSE-VAPYVRFVPPWSNCAPPVDQCLGEEKKSDVAPVV------FQQKF--SEAINTK 175
+E V ++ +V + V+ K V+ F+ + I+
Sbjct: 55 TTPAELVGKFLGYV------SSLVEP----SKVGQFDQVLNLCLTEFENCYLEGNDIHAL 104
Query: 176 YAN-HTICYTDGSKSPDVTGCAFSIGDMVRSTLLNPINSIF-------SAELIAIF---- 223
A T K+ ++ + M + NS +A+L+AIF
Sbjct: 105 AAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQG 164
Query: 224 --------L--------------------CLEAILENPSD------------QFLIVSDS 243
L L ++ D ++L +
Sbjct: 165 NTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSN 224
Query: 244 RSALAALANVKFSNPLVTKVFSTWRYLKLCN 274
L ++ S PL+ V Y+
Sbjct: 225 TPDKDYLLSIPISCPLIG-VIQLAHYVVTAK 254
Score = 30.4 bits (68), Expect = 0.81
Identities = 48/271 (17%), Positives = 78/271 (28%), Gaps = 100/271 (36%)
Query: 23 GIDAKDSVLN--KLNAVHHAG-----IRIATGALRSSPVVSLYVDSGVPPLTLRRSKLML 75
G D V+N +H G IR A+ + VD L+ K+
Sbjct: 1658 GFSILDIVINNPVNLTIHFGGEKGKRIRENYSAM----IFETIVDG-----KLKTEKIFK 1708
Query: 76 NYVAKISASPFNPAQKLLYH----QDMSGIIFTVNKPKPLYIRFREVANFNNVLESSEVA 131
++ F + LL Q + + E A F L+S +
Sbjct: 1709 EINEHSTSYTFRSEKGLLSATQFTQP---ALTLM-----------EKAAFE-DLKSKGL- 1752
Query: 132 PYVRFVPPWSNCA--PPVDQCLGE-------------EKKSDVAPVVFQ--QKFSEAINT 174
+P + A LGE E + VVF A+
Sbjct: 1753 -----IPADATFAGHS-----LGEYAALASLADVMSIE---SLVEVVFYRGMTMQVAV-- 1797
Query: 175 KYANHTICYTDGSKSPDVTGCAFSIGDMVRSTLLNP--INSIFSAELIAIFLCLEA---- 228
D G S M+ +NP + + FS E + ++
Sbjct: 1798 --------------PRDELGR--SNYGMIA---INPGRVAASFSQEALQ-YVVERVGKRT 1837
Query: 229 --ILE----NPSDQFLIVSDSRSALAALANV 253
++E N +Q + + AL + NV
Sbjct: 1838 GWLVEIVNYNVENQQYVAAGDLRALDTVTNV 1868
Score = 29.2 bits (65), Expect = 1.8
Identities = 17/117 (14%), Positives = 38/117 (32%), Gaps = 36/117 (30%)
Query: 6 YVYLTCYVANSIPPIQEGIDAKDSVLNKLNAVHHAGIRIATGALRSSPVVSLYVDSGVPP 65
Y L +A+ + I+ + ++ V + G+ + R S Y + P
Sbjct: 1767 YAALAS-LADVMS-IESLV--------EV--VFYRGMTMQVAVPRDELGRSNYGMIAINP 1814
Query: 66 LTLRRSKLMLNYVAKISASPFNPAQKLLYHQDMSGIIFTVNKPKPLYIRFREVANFN 122
+++AS + + ++ V K + E+ N+N
Sbjct: 1815 -------------GRVAAS--------FSQEALQYVVERVGKRTGWLV---EIVNYN 1847
>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 = 41.0 bits (95), Expect = 3e-04
Identities = 46/272 (16%), Positives = 82/272 (30%), Gaps = 61/272 (22%)
Query: 18 PPIQEGIDAKD------SVLNK------LNAVHH-AGIRIATGALRSSP--VVSLYVDSG 62
+ D KD S+L+K + + +G L S +V +V+
Sbjct: 27 DAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEV 86
Query: 63 VPPLTLRRSKLMLNY---VAKISASPFNPAQKLLYHQDMSGIIFTVNKP-KPLYI-RFRE 117
L +NY ++ I P+ + + ++ N+ + R +
Sbjct: 87 ----------LRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQP 136
Query: 118 VANFNNVLESSEVAPYVRFVPPWSNCAPPVDQCLGEEKKSDVAPVVFQQKFSEAINTK-- 175
L A V +D LG K V K ++ K
Sbjct: 137 YLKLRQALLELRPAKNV-----------LIDGVLGSGKTWVALDVCLSYKVQCKMDFKIF 185
Query: 176 YANHTICYTDGSKSPDVTGCAFSIGDMVRSTLLNPINSIFSAEL---IAIFLCLEAILEN 232
+ N C SP+ ++ +M+ LL I+ +++ I L + +I
Sbjct: 186 WLNLKNC-----NSPE------TVLEML-QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAE 233
Query: 233 PSDQFLIVSDSRSALAALANVKFSNPLVTKVF 264
L + L L NV N F
Sbjct: 234 LRR-LLKSKPYENCLLVLLNV--QNAKAWNAF 262
Score = 33.7 bits (76), Expect = 0.081
Identities = 36/265 (13%), Positives = 75/265 (28%), Gaps = 90/265 (33%)
Query: 20 IQEGIDA----KDSVLNKLNAVHHAGIRIATGALRSSPVVSLYV-------DSGVPPLTL 68
I++G+ K +KL + I + L + ++ + +P + L
Sbjct: 337 IRDGLATWDNWKHVNCDKLTTI----IESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILL 392
Query: 69 RR---------SKLMLNYVAKISASPFNPAQKLLY-HQDMSGIIFTVNKPKPLYIRFREV 118
+++N + K S P + + +Y+ +
Sbjct: 393 SLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPS--------------IYLELKVK 438
Query: 119 ANFNNVLESSEVAPY--VRFVPPWSNCAPPVDQ-----------CLGEEKKSDVAPVVF- 164
L S V Y + P +DQ + ++ + +VF
Sbjct: 439 LENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFL 498
Query: 165 -----QQKF----------SEAINT-----KYANHTICYTDG--------------SKSP 190
+QK +NT Y + IC D
Sbjct: 499 DFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPY-ICDNDPKYERLVNAILDFLPKIEE 557
Query: 191 DVTGCAFSIGDMVRSTLLNPINSIF 215
++ ++ D++R L+ +IF
Sbjct: 558 NLICSKYT--DLLRIALMAEDEAIF 580
>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 = 29.9 bits (66), Expect = 0.50
Identities = 7/23 (30%), Positives = 13/23 (56%), Gaps = 2/23 (8%)
Query: 49 LRSSPVVSLYVDSGVPPLTLRRS 71
L++S + LY D P L ++ +
Sbjct: 25 LQAS--LKLYADDSAPALAIKAT 45
Score = 28.4 bits (62), Expect = 1.6
Identities = 10/29 (34%), Positives = 14/29 (48%), Gaps = 6/29 (20%)
Query: 226 LEAILENPSDQFLIVSDSRSALAALANVK 254
L+A L+ L DS ALA A ++
Sbjct: 25 LQASLK------LYADDSAPALAIKATME 47
>2kq2_A Ribonuclease H-related protein; PSI, NESG, protein structure, APO
enzyme, structural genomics, protein structure
initiative; NMR {Desulfitobacterium hafniense dcb-2}
PDB: 2kw4_A
Length = 147
Score = 28.1 bits (63), Expect = 1.7
Identities = 10/72 (13%), Positives = 19/72 (26%), Gaps = 14/72 (19%)
Query: 183 YTDGSKSPDVTGCAFSI-----------GDMVRSTLLNPINSIFSAELIAIFLCLEAILE 231
YTDGS A++ + E+ A ++ +
Sbjct: 10 YTDGSYVNGQYAWAYAFVKDGKVHYEDADVGKNPA--AATMRNVAGEIAAALYAVKKASQ 67
Query: 232 NPSDQFLIVSDS 243
+ I+ D
Sbjct: 68 LGV-KIRILHDY 78
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 28.5 bits (63), Expect = 2.1
Identities = 10/54 (18%), Positives = 18/54 (33%), Gaps = 8/54 (14%)
Query: 100 GIIFTVNKPKPLYIRFREVANFNNVLESSEVAPYVRFVPPW--SNCAPPVDQCL 151
G+ VN N + + ++V P +R V S+ + L
Sbjct: 117 GMAIQVNYSS------EVKENSVDSDDKAKVPPLIRIVSGLELSDTKQKGKKFL 164
>3hst_B Protein RV2228C/MT2287; ribonuclease H1, RV2228C N-terminal domain,
fusion protein, maltose binding protein, HYDR; HET: MLR
TAR; 2.25A {Mycobacterium tuberculosis}
Length = 141
Score = 26.9 bits (60), Expect = 4.4
Identities = 12/69 (17%), Positives = 22/69 (31%), Gaps = 8/69 (11%)
Query: 183 YTDGSKS--PDVTGCAFSIGDMVRSTLLNPINSIFS------AELIAIFLCLEAILENPS 234
DG P G + ST+L AE + L+ ++ +
Sbjct: 7 EADGGSRGNPGPAGYGAVVWTADHSTVLAESKQAIGRATNNVAEYRGLIAGLDDAVKLGA 66
Query: 235 DQFLIVSDS 243
+ ++ DS
Sbjct: 67 TEAAVLMDS 75
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 0.135 0.400
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,087,026
Number of extensions: 232719
Number of successful extensions: 335
Number of sequences better than 10.0: 1
Number of HSP's gapped: 331
Number of HSP's successfully gapped: 14
Length of query: 275
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 183
Effective length of database: 4,133,061
Effective search space: 756350163
Effective search space used: 756350163
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: 56 (25.9 bits)