RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16040
(358 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 = 55.2 bits (132), Expect = 2e-08
Identities = 54/382 (14%), Positives = 112/382 (29%), Gaps = 134/382 (35%)
Query: 36 EVTSMEVCYQRNWHKQAVTSVI---IGLDFNVAVTQNS--SVLT----------PKPVTK 80
E + Y+ + SV +F+ Q+ S+L+ V+
Sbjct: 10 ETGEHQYQYKD------ILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSG 63
Query: 81 LSLKELFDTSILWAVPKK-----VEDAHAENRP---DSLQHMCK---MIDVSSDQVPNAM 129
LF L + ++ VE+ N ++ + M+ + + +
Sbjct: 64 TLR--LFW--TLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRL 119
Query: 130 FSNSSLFFISDFNV-----------AVTQIS---------------SVLTPKPVTKLSLK 163
++++ +F + +NV A+ ++ + + ++
Sbjct: 120 YNDNQVF--AKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQ 177
Query: 164 ELFDTSILWAVPKKRRSLERRMN-RKYGSKDQVWKMLMPRTDLTVCNTCGYTHHSKTLCG 222
D I W +N + S + V +ML + L
Sbjct: 178 CKMDFKIFW------------LNLKNCNSPETVLEML------------------QKLL- 206
Query: 223 KYYSLSISRVKCSFPSLLKVMYPYGLTTNLEKDK---------YQSCDIVIQRNCIYN-T 272
++ ++ S L + + + Y++C +V+ N + N
Sbjct: 207 -------YQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVL-LN-VQNAK 257
Query: 273 ILFLFTGNCYAKIKEETTRLQDKIVEALGLNPVDKEVVVLYKGEKEHASEEFSETHRVIE 332
F +C KI TTR K V L+ + L +H S + E
Sbjct: 258 AWNAFNLSC--KIL-LTTR--FKQV-TDFLSAATTTHISL-----DHHSMTLTPD----E 302
Query: 333 VEGERPPWFSKNLLQKTTQKPS 354
V+ K L + P
Sbjct: 303 VKS----LLLKYLDCRPQDLPR 320
>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 = 45.4 bits (107), Expect = 2e-05
Identities = 60/350 (17%), Positives = 111/350 (31%), Gaps = 120/350 (34%)
Query: 15 GVLSLEH-TLAC-TLGFQPPPPIEVTSMEVCYQRNWHKQAVTSVIIGLDFNVAVTQNSSV 72
GV+ L H + LGF P E+ S + + T GL V +
Sbjct: 242 GVIQLAHYVVTAKLLGFTPG---ELRS---------YLKGATGHSQGL---VTAVAIAET 286
Query: 73 LTPKPVTKLSLK-------------ELFDTSILWAVPKKVEDA--HAENRPDSLQHMCKM 117
+ + K E + + L P +ED+ + E P M +
Sbjct: 287 DSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLP--PSILEDSLENNEGVPS---PMLSI 341
Query: 118 IDVSSDQVP------NAMFSNSSLFFISDFNVAVTQISSVLT--PKPVTKLSLKELFDTS 169
+++ +QV N+ IS N + V++ P+ SL L
Sbjct: 342 SNLTQEQVQDYVNKTNSHLPAGKQVEISLVN-GAKNL--VVSGPPQ-----SLYGL---- 389
Query: 170 ILWAVPKKRRSLERRMNRKYGSKDQVWKMLM----PRTD---LTVCNTCGYTHHSKTLCG 222
+L R+ G DQ ++ + L V + HS L
Sbjct: 390 --------NLTL-RKAKAPSG-LDQ-SRIPFSERKLKFSNRFLPV--ASPF--HSHLL-- 432
Query: 223 KYYSLSISRVKCSFPSLLKVMYPYGLTTNLEKDKYQSCDIVIQRNCIYNTILFLFTGNCY 282
+ + K + ++ + + DI I +Y+T F G
Sbjct: 433 ----------VPASDLINKDLVKNNVS-------FNAKDIQIP---VYDT----FDG--- 465
Query: 283 AKIKEETTRLQDKIVEALGLNPVDKEVVVLYKGEKEHASEEFSETHRVIE 332
+ ++ + + ++IV+ + PV E +F TH +++
Sbjct: 466 SDLRVLSGSISERIVDCIIRLPVKWETTT-----------QFKATH-ILD 503
Score = 38.5 bits (89), Expect = 0.004
Identities = 35/160 (21%), Positives = 50/160 (31%), Gaps = 52/160 (32%)
Query: 7 LVLSKLKYGVLSLEHTL---------ACTL--GFQ---PPPPIEVTSMEVCYQRNWHKQA 52
L LS +G SLEH L A L F P P
Sbjct: 9 LTLS---HG--SLEHVLLVPTASFFIASQLQEQFNKILPEPTEGF----------AADDE 53
Query: 53 VTSVI--IG--LDFNVAVTQNSSVLTPKPVTKLSLKELFDTSILWAVPKKVEDAHA---- 104
T+ +G L + ++ + S V V L L E F+ L D HA
Sbjct: 54 PTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTE-FENCYLEG-----NDIHALAAK 107
Query: 105 -----ENRPDSLQHMCK---MIDVSSDQVPNAMFSNSSLF 136
+ + + K + + + P SNS+LF
Sbjct: 108 LLQENDTTLVKTKELIKNYITARIMAKR-PFDKKSNSALF 146
Score = 32.7 bits (74), Expect = 0.25
Identities = 23/136 (16%), Positives = 42/136 (30%), Gaps = 31/136 (22%)
Query: 69 NSSVLTPKPVTKLSLKELFDTSILW-----AVPKKVEDAH-----AENRPDSLQHMCKMI 118
+S +L P + L K+L ++ + +P V D + + I
Sbjct: 428 HSHLL--VPASDLINKDLVKNNVSFNAKDIQIP--VYDTFDGSDLRVLSGSISERIVDCI 483
Query: 119 DVSSDQV--PNAMFSNSSLFFISDFNVAVTQISSVLTPKPVTKLSLKELFDTSILWAVPK 176
V ++ I DF VLT + K+ ++ A
Sbjct: 484 --IRLPVKWETTTQFKATH--ILDFGPGGASGLGVLTHR------NKDGTGVRVIVA--- 530
Query: 177 KRRSLERRMNRKYGSK 192
+L+ + YG K
Sbjct: 531 --GTLDINPDDDYGFK 544
Score = 28.9 bits (64), Expect = 3.2
Identities = 25/177 (14%), Positives = 57/177 (32%), Gaps = 69/177 (38%)
Query: 15 GVLSLEHTLACTLGFQPPPPIEVTSMEVCYQRNWHKQAVTSVIIGLDFNVAVTQNSSVLT 74
V+S+E + EV + R G+ VAV ++ +
Sbjct: 1775 DVMSIESLV-----------------EVVFYR------------GMTMQVAVPRDELGRS 1805
Query: 75 PKPVTKLSLKELFDTSILWAVPKKVEDAHAENRPDSLQHMCKMIDVSSD---QVPNAMFS 131
+ ++ P +V + ++ ++LQ++ + + + ++ N
Sbjct: 1806 -------------NYGMIAINPGRVAASFSQ---EALQYVVERVGKRTGWLVEIVN---- 1845
Query: 132 NSSLFFISDFNVAVTQISSVL--TPKPVTKLS--LKELFDTSI-LWAVPKKRRSLER 183
+NV Q V + + ++ L + I + + K SLE
Sbjct: 1846 ---------YNVENQQY--VAAGDLRALDTVTNVLNFIKLQKIDIIELQKS-LSLEE 1890
>2zjr_Z 50S ribosomal protein L32; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: g.41.8.5 PDB: 1j5a_M* 1jzy_M* 1jzz_M*
1k01_M* 1nkw_Z 1ond_Z* 1sm1_Z* 1yl3_5 2b66_5 2b9n_5
2b9p_5 2zjp_Y* 2zjq_Z 1jzx_M 3cf5_Y* 3dll_Y* 3pio_Z*
3pip_Z* 1nwy_Z* 1nwx_Z* ...
Length = 60
Score = 33.3 bits (77), Expect = 0.008
Identities = 17/55 (30%), Positives = 22/55 (40%), Gaps = 10/55 (18%)
Query: 173 AVPKKRRSLERRMNRKYGSKDQVWKMLMPRTDLTVCNTCGYT---HHSKTLCGKY 224
VPKK+ S +R R+ + P +LT C C HH CG Y
Sbjct: 5 PVPKKKTSKSKRDMRR-----SHHALTAP--NLTECPQCHGKKLSHHICPNCGYY 52
>3v2d_5 50S ribosomal protein L32; ribosome associated inhibitor A, RAIA,
protein Y, stress RES stationary phase, ribosome
hibernation, ribosome; 2.70A {Thermus thermophilus} PDB:
2hgq_4 2hgj_4 2hgu_4 2j03_5 2jl6_5 2jl8_5 2v47_5 2v49_5
2wdi_5 2wdj_5 2wdl_5 2wdn_5 2wh2_5 2wh4_5 2wrj_5 2wrl_5
2wro_5 2wrr_5 2x9s_5 2x9u_5 ...
Length = 60
Score = 32.2 bits (74), Expect = 0.026
Identities = 16/55 (29%), Positives = 19/55 (34%), Gaps = 10/55 (18%)
Query: 173 AVPKKRRSLERRMNRKYGSKDQVWKMLMPRTDLTVCNTCGYT---HHSKTLCGKY 224
VPKK+ S RR R+ + P L C C H CG Y
Sbjct: 5 PVPKKKTSKARRDARR-----SHHALTPP--TLVPCPECKAMKPPHTVCPECGYY 52
>3r8s_0 50S ribosomal protein L32; protein biosynthesis, RNA, tRNA,
transfer RNA, 23S ribosomal subunit, ribosome recycling
factor, RRF, ribosome; 3.00A {Escherichia coli} PDB:
1p85_Z 1p86_Z 2awb_0 2aw4_0 2i2v_0 2j28_0 2i2t_0*
2qao_0* 2qba_0* 2qbc_0* 2qbe_0 2qbg_0 2qbi_0* 2qbk_0*
2qov_0 2qox_0 2qoz_0* 2qp1_0* 2rdo_0 2vhm_0 ...
Length = 56
Score = 31.0 bits (71), Expect = 0.063
Identities = 17/54 (31%), Positives = 23/54 (42%), Gaps = 8/54 (14%)
Query: 173 AVPKKRRSLERRMNRKYGSKDQVWKMLMPRTDLTVCNTCGYTH--HSKTLCGKY 224
AV + + + +R R+ S D L T L+V T G H H T G Y
Sbjct: 1 AVQQNKPTRSKRGMRR--SHD----ALTAVTSLSVDKTSGEKHLRHHITADGYY 48
>3eau_A Voltage-gated potassium channel subunit beta-2; kvbeta, cortisone,
NADPH, cytoplasm, ION transport, ionic channel, NADP,
phosphoprotein; HET: NDP PDN; 1.82A {Rattus norvegicus}
SCOP: c.1.7.1 PDB: 2r9r_A* 2a79_A* 3lnm_A* 1exb_A*
3eb4_A* 3eb3_A* 1qrq_A* 1zsx_A*
Length = 327
Score = 29.1 bits (66), Expect = 2.1
Identities = 10/42 (23%), Positives = 18/42 (42%), Gaps = 8/42 (19%)
Query: 48 W--HKQAVTSVIIG------LDFNVAVTQNSSVLTPKPVTKL 81
W + V+SV++G L N+ Q L+ V ++
Sbjct: 276 WCLRNEGVSSVLLGASNAEQLMENIGAIQVLPKLSSSIVHEI 317
>3lut_A Voltage-gated potassium channel subunit beta-2; voltage gating,
potassium channel, KV1.2, gating charges, no analysis,
ION transport; HET: NAP; 2.90A {Rattus norvegicus}
Length = 367
Score = 28.8 bits (65), Expect = 2.5
Identities = 10/42 (23%), Positives = 18/42 (42%), Gaps = 8/42 (19%)
Query: 48 W--HKQAVTSVIIG------LDFNVAVTQNSSVLTPKPVTKL 81
W + V+SV++G L N+ Q L+ V ++
Sbjct: 310 WCLRNEGVSSVLLGASNAEQLMENIGAIQVLPKLSSSIVHEI 351
>3d3z_A Actibind; RNAse, hydrolase; HET: NAG D3Z; 1.70A {Aspergillus niger}
Length = 247
Score = 27.9 bits (61), Expect = 4.9
Identities = 8/45 (17%), Positives = 19/45 (42%)
Query: 232 VKCSFPSLLKVMYPYGLTTNLEKDKYQSCDIVIQRNCIYNTILFL 276
V C +L ++ Y + + + Y + + + NC + I +
Sbjct: 189 VGCEDGALSQLYYYFNVKGSAIGGTYVASERLEDSNCKDSGIKYP 233
>3bbo_2 Ribosomal protein L32; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 57
Score = 25.2 bits (55), Expect = 6.3
Identities = 11/25 (44%), Positives = 15/25 (60%), Gaps = 5/25 (20%)
Query: 173 AVPKKRRSLERRMNRKYGSKDQVWK 197
AVPKKR S+ ++ RK +WK
Sbjct: 2 AVPKKRTSIYKKRIRK-----NIWK 21
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
0.318 0.132 0.391
Gapped
Lambda K H
0.267 0.0761 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,125,211
Number of extensions: 291045
Number of successful extensions: 490
Number of sequences better than 10.0: 1
Number of HSP's gapped: 484
Number of HSP's successfully gapped: 15
Length of query: 358
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 263
Effective length of database: 4,049,298
Effective search space: 1064965374
Effective search space used: 1064965374
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 (21.7 bits)
S2: 58 (26.1 bits)