RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16210
(517 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 = 63.7 bits (154), Expect = 8e-11
Identities = 72/511 (14%), Positives = 141/511 (27%), Gaps = 163/511 (31%)
Query: 140 SIIDSESLERIKQIPFMKGVDPKTN--------LEKSKLGYKKAMELTKKKDAFAVVDED 191
SI+ E ++ I D + L K + +K +E + + + +
Sbjct: 44 SILSKEEIDHIIMSK-----DAVSGTLRLFWTLLSKQEEMVQKFVEEVLRIN-YKFLMSP 97
Query: 192 VARAPGAPKPIPK----AKNKPQ-LNPVAKQRKVPSSRLGRMVSFGSLAAGL-------- 238
+ P + + +++ N V + V R+ + L L
Sbjct: 98 IKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVS-----RLQPYLKLRQALLELRPAKN 152
Query: 239 ----GVGTIAEVTRRTLGFGDSSLSVGTTLDSAF----------INPANAER------IV 278
GV G G + +++ L +N N ++
Sbjct: 153 VLIDGVL----------GSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEML 202
Query: 279 NTLC-----------------KVRGAALKIG-----------QILSIQDSNVISPELQKA 310
L K+R +++ L + NV + + A
Sbjct: 203 QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLL-NVQNAKAWNA 261
Query: 311 FE---------RVRQSADFMPQWQVEKVLVTE----LGPD--------W----KSKLSSL 345
F R +Q DF+ + + L PD + L
Sbjct: 262 FNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPRE 321
Query: 346 DLK--PFAAASIGQVHAGLLKDGT---EVAMKIQYPGVAKGIESDIDNL-IGVMKIWNVF 399
L P + I + ++DG + + + IES ++ L + +F
Sbjct: 322 VLTTNPRRLSIIAE----SIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYR--KMF 375
Query: 400 PE-GMFLDNLVEVAKKELG--W-EVDYKREAECTRKF--KELVEPYP---YYFVPTVIDE 450
+F + + L W +V K LVE P +P++ E
Sbjct: 376 DRLSVFPPS-AHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLE 434
Query: 451 LSTGQILTTEL----IEGVPVDQCVDLDYESRK------------HICKLVME---LCLR 491
L L ++ + + D D H+ + R
Sbjct: 435 LKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFR 494
Query: 492 ELFQ-FRYMQ-----TDPNWSNFFYNKDTKQ 516
+F FR+++ W+ +T Q
Sbjct: 495 MVFLDFRFLEQKIRHDSTAWNASGSILNTLQ 525
Score = 46.0 bits (108), Expect = 3e-05
Identities = 33/232 (14%), Positives = 61/232 (26%), Gaps = 79/232 (34%)
Query: 19 VANAGIKHQTLEIQQKWTNSSFKSLASNLDQSLKSTSTTPCAL-LNANVLKEAA------ 71
+ N LE+ QK L +D + S S + L + ++
Sbjct: 189 LKNCNSPETVLEMLQK--------LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKS 240
Query: 72 ---ERSSVVLDGV------KAFVFK----------------EAGSERDVSE------FEQ 100
E +VL V AF A + +S
Sbjct: 241 KPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTP 300
Query: 101 D------SQY-SEPVDSTPIPQVQTSTPITATTTATQEQSKP--INYTSIIDSESLERIK 151
D +Y P +V T+ P + A + + ++ + L I
Sbjct: 301 DEVKSLLLKYLDCRPQDLP-REVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTII 359
Query: 152 QIPFMKGVDPKTNLEKSKLGYKKAMELTKKKDAFAVVDEDVARAPGAPKPIP 203
+ + ++P E K+ + + +V IP
Sbjct: 360 ES-SLNVLEPA---EYRKM-FDR----------LSVFPPSA--------HIP 388
Score = 44.8 bits (105), Expect = 6e-05
Identities = 74/551 (13%), Positives = 149/551 (27%), Gaps = 203/551 (36%)
Query: 65 NVLKEAAERSSVVLDGVKAF-----VFKEAGSERDVSEFEQD------SQYSEPVDSTPI 113
L E +V++DGV S + + + + P ++
Sbjct: 142 QALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSP-ETVLE 200
Query: 114 PQVQTSTPITATTTATQEQSKPINYTSIIDSESLERIKQIPFMKGVDPKTNLEKSKLGYK 173
+ I N+TS D S + K + + +
Sbjct: 201 MLQKLLYQIDP------------NWTSRSDHSS-------------NIKLRIHSIQAELR 235
Query: 174 KAMELTKKKDAFAVVDEDVARAPGAPKPIPKAKNKPQLNPVAKQRKVPSSRLGRMV--SF 231
+ ++ ++ V+ +V +N N K+ ++ F
Sbjct: 236 RLLKSKPYENCLLVLL-NV-------------QNAKAWNAFNLSCKI-------LLTTRF 274
Query: 232 GSLAAGLGVGTIAEVTRRTLGFGDSSLSVGTTLD--SAFIN------PANAERIVNTLCK 283
+ L T T +L +L+ +++ P
Sbjct: 275 KQVTDFLSAAT---TTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLS 331
Query: 284 VRGAALKIG-------------QILSIQDS--NVISP-ELQKAFERV---RQSADFMPQ- 323
+ +++ G ++ +I +S NV+ P E +K F+R+ SA
Sbjct: 332 IIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTIL 391
Query: 324 ----W-----QVEKVLVTELGP------DWKSKLSS-----LDLKPFAAASIGQVHAGLL 363
W V+V +L K S L+LK + +H ++
Sbjct: 392 LSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKV-KLENEYALHRSIV 450
Query: 364 KDGTEVAMKIQYPGVAKGIESD------IDN----LIG--VMKI-----WNVFPEGMFLD 406
Y + K +SD +D IG + I +F +FLD
Sbjct: 451 D---------HY-NIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRM-VFLD 499
Query: 407 NLVEVAKKELGWEVDYKREAECTRKFKELVEPYPYYFVPTVIDELSTGQILTTELIEGVP 466
+ ++ K + T + ++++ L
Sbjct: 500 ---------FRF-LEQKIRHDST----------AWNASGSILNTLQ-------------- 525
Query: 467 VDQCVDLD-YESRKHICK--LVMELCLRELFQF---------RYMQTD--------PNWS 506
L Y + +IC E + + F TD +
Sbjct: 526 -----QLKFY--KPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAED-- 576
Query: 507 NFFYNKDTKQL 517
+ + KQ+
Sbjct: 577 EAIFEEAHKQV 587
Score = 33.7 bits (76), Expect = 0.20
Identities = 31/226 (13%), Positives = 60/226 (26%), Gaps = 62/226 (27%)
Query: 4 TYVSDLKGVLKGLQLVANAGIKHQTLEIQQKWTNSSFKSLASNLDQSLKSTSTTPCAL-L 62
T L L + + K+ + + L + L T P L +
Sbjct: 286 TTHISLDHHSMTLT-------PDEVKSLLLKYLDCRPQDLPR---EVLT---TNPRRLSI 332
Query: 63 NANVLKEAAERSSVVLDGVKAFVFKEAGSERDVS-----EFEQDSQYSE----PVDSTPI 113
A +++ D K + + + S E + P S I
Sbjct: 333 IAESIRDGLAT----WDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFP-PSAHI 387
Query: 114 P---------QVQTSTPITATT-----TATQEQSKPINYT----------SIIDSESLER 149
P V S + + ++Q K + + + +L R
Sbjct: 388 PTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHR 447
Query: 150 --IKQIPFMKGVDPKTNLEK-------SKLGYK-KAMELTKKKDAF 185
+ K D + S +G+ K +E ++ F
Sbjct: 448 SIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLF 493
>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 = 32.2 bits (72), Expect = 0.20
Identities = 10/37 (27%), Positives = 17/37 (45%), Gaps = 11/37 (29%)
Query: 33 QKWTNSSFKSLASNLDQSLK--STSTTPCAL-LNANV 66
+K + K L + SLK + + P AL + A +
Sbjct: 18 EK---QALKKLQA----SLKLYADDSAP-ALAIKATM 46
Score = 27.6 bits (60), Expect = 6.9
Identities = 11/51 (21%), Positives = 17/51 (33%), Gaps = 24/51 (47%)
Query: 339 KSKLSSLD--LKPFAAASIGQVHAGLLKDGTEVAMKIQYPGVAKGIESDID 387
K L L LK +A S A P +A I++ ++
Sbjct: 19 KQALKKLQASLKLYADDS-----A---------------PALA--IKATME 47
>4a17_T RPL24, 60S ribosomal protein L21; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_T 4a1c_T 4a1e_T
Length = 158
Score = 30.1 bits (67), Expect = 1.1
Identities = 17/98 (17%), Positives = 31/98 (31%), Gaps = 7/98 (7%)
Query: 123 TATTTATQEQSKPINYTSIIDSESLERIKQIPFMKGVDPKTNLEKSKLGYKKAMELTKKK 182
AT A +++ + + I SLE I + + K +KA+ K+K
Sbjct: 65 KATDIAQKKKKRNVTVARAIVGISLEEINRRKNLD-------ASHKKAEAEKAVRELKQK 117
Query: 183 DAFAVVDEDVARAPGAPKPIPKAKNKPQLNPVAKQRKV 220
A + + R K + + K
Sbjct: 118 KANDIEKKRADRKLQGKDVKAAKKAETKKTKQPVGAKG 155
>3izc_Z 60S ribosomal protein RPL24 (L24E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins; NMR {Saccharomyces cerevisiae} PDB: 3izs_Z
3o58_V 3o5h_V 3u5e_W 3u5i_W 1s1i_S 2x7n_D
Length = 155
Score = 29.3 bits (65), Expect = 1.9
Identities = 19/101 (18%), Positives = 33/101 (32%), Gaps = 9/101 (8%)
Query: 124 ATTTATQEQSKPINYTSIIDSESLERIKQIPFMKGVDPKTNLEKSKLGYKKAMELTKKKD 183
A + K + I SL+ IK+ +K E K ++ ++ K+K
Sbjct: 64 TEEVAKKRSRKTVKAQRPITGASLDLIKERRSLK-------PEVRKANREEKLKANKEKK 116
Query: 184 AFAVVDEDVARAPGAPKPIPKAKNKPQLNPVAKQRKVPSSR 224
+A A K + A Q+ +SR
Sbjct: 117 KAEKAARKAEKAKSAGTQSSKFSKQQAKG--AFQKVAATSR 155
>2qkw_B Protein kinase; three-helix bundle motif, AVRPTO-PTO duplex,
layered beta- sheets, transferas; HET: SEP TPO; 3.20A
{Solanum pimpinellifolium} PDB: 3hgk_A*
Length = 321
Score = 29.5 bits (67), Expect = 2.5
Identities = 9/17 (52%), Positives = 15/17 (88%)
Query: 356 GQVHAGLLKDGTEVAMK 372
G+V+ G+L+DG +VA+K
Sbjct: 53 GKVYKGVLRDGAKVALK 69
>3uim_A Brassinosteroid insensitive 1-associated receptor; kinase, protein
kinase, transferase; HET: SEP TPO ANP; 2.20A
{Arabidopsis thaliana} PDB: 3tl8_A*
Length = 326
Score = 29.5 bits (67), Expect = 2.7
Identities = 10/17 (58%), Positives = 13/17 (76%)
Query: 356 GQVHAGLLKDGTEVAMK 372
G+V+ G L DGT VA+K
Sbjct: 44 GKVYKGRLADGTLVAVK 60
>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 = 29.6 bits (66), Expect = 3.0
Identities = 23/157 (14%), Positives = 46/157 (29%), Gaps = 55/157 (35%)
Query: 18 LVANAGIKHQTLEIQQKWTNSSFKSLASNLDQSLKSTSTTPCALLNA--NVLKEAAERSS 75
L + A + + S +SL ++ ++ A R
Sbjct: 1770 LASLADV----M---------SIESLVE---------------VVFYRGMTMQVAVPRDE 1801
Query: 76 V---------VLDGVKAFVFKEAGSERDVSEFEQDSQYS-EPV-DSTPIPQVQTSTPITA 124
+ + G A F + + V + + + E V + Q + A
Sbjct: 1802 LGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQY-----VAA 1856
Query: 125 -TTTATQEQSKPINYTSI--ID------SESLERIKQ 152
A + +N+ + ID S SLE ++
Sbjct: 1857 GDLRALDTVTNVLNFIKLQKIDIIELQKSLSLEEVEG 1893
>2z7b_A MLR6791 protein; class II aldolase superfamily, lyase; 1.90A
{Mesorhizobium loti}
Length = 270
Score = 28.9 bits (65), Expect = 4.0
Identities = 12/62 (19%), Positives = 22/62 (35%), Gaps = 9/62 (14%)
Query: 258 LSVGTTLDSAFINPANAERIVNTLCKVRGAALKIGQILSIQDSNVISPELQKAFERVRQS 317
++VG ++ E+ A LKIG + + E++ A + V
Sbjct: 202 VNVGKSVREVVFRAFYLEQ----EAAALTAGLKIGNVKYLSP-----GEIKTAGKLVGAQ 252
Query: 318 AD 319
D
Sbjct: 253 ID 254
>2qip_A Protein of unknown function VPA0982; APC85975, vibrio
parahaemolyticus RIMD 2210633, STR genomics, PSI-2,
protein structure initiative; 1.48A {Vibrio
parahaemolyticus}
Length = 165
Score = 28.0 bits (62), Expect = 5.4
Identities = 7/40 (17%), Positives = 13/40 (32%)
Query: 406 DNLVEVAKKELGWEVDYKREAECTRKFKELVEPYPYYFVP 445
N+ ++ DY + + KE+V Y
Sbjct: 19 QNVYYTCREAYRSNFDYNQFWYVATQEKEVVSAKAYAIAS 58
>2zkr_u 60S ribosomal protein L24; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 157
Score = 27.7 bits (61), Expect = 6.7
Identities = 15/102 (14%), Positives = 26/102 (25%), Gaps = 7/102 (6%)
Query: 123 TATTTATQEQSKPINYTSIIDSESLERIKQIPFMKGVDPKTNLEKSKLGYKKAMELTKKK 182
+ + + + + I SL I K E K ++A+ K+
Sbjct: 63 QSEEIQKKRTRRAVKFQRAITGASLADIMAKRNQK-------PEVRKAQREQAIRAAKEA 115
Query: 183 DAFAVVDEDVARAPGAPKPIPKAKNKPQLNPVAKQRKVPSSR 224
+ A A K K +V R
Sbjct: 116 KKAKQASKKTAMAAAKAPTKAAPKQKIVKPVKVSAPRVGGKR 157
>2rio_A Serine/threonine-protein kinase/endoribonuclease IRE1;
protein-nucleotide complex, ATP-binding, endoplasmic
reticulum, glycoprotein; HET: ADP; 2.40A {Saccharomyces
cerevisiae} PDB: 3lj0_A* 3lj1_A* 3lj2_A* 3fbv_A* 3sdm_A*
3sdj_A*
Length = 434
Score = 28.2 bits (63), Expect = 6.9
Identities = 4/22 (18%), Positives = 9/22 (40%), Gaps = 1/22 (4%)
Query: 475 YESRKHICKLVMELCLRELFQF 496
+ + + + +ELC L
Sbjct: 78 ETTDRFLY-IALELCNLNLQDL 98
>3lo7_A PBPA, penicillin-binding protein A; transpeptidase domain, cell
membrane, cell shape, cell WALL biogenesis/degradation,
membrane; 2.05A {Mycobacterium tuberculosis}
Length = 483
Score = 28.0 bits (63), Expect = 8.2
Identities = 5/33 (15%), Positives = 8/33 (24%), Gaps = 1/33 (3%)
Query: 229 VSFGSLAAGLGVGTIAEVTRRTLGFGDSSLSVG 261
+F L G + + R G
Sbjct: 276 TAFVQLGIRTGADALRSMARA-FGLDSPPRPTP 307
>2wg5_A General control protein GCN4, proteasome-activating nucleotidase;
transcription hydrolase complex, nucleotide-binding;
2.10A {Saccharomyces cerevisiae} PDB: 2wg6_A
Length = 109
Score = 26.7 bits (59), Expect = 8.3
Identities = 11/65 (16%), Positives = 27/65 (41%)
Query: 331 VTELGPDWKSKLSSLDLKPFAAASIGQVHAGLLKDGTEVAMKIQYPGVAKGIESDIDNLI 390
V+++ D + + S F + ++ LK G VA+ Q + + + D ++
Sbjct: 43 VSDILEDGRVVVKSSTGPKFVVNTSQYINEEELKPGARVALNQQTLAIVNVLPTSKDPMV 102
Query: 391 GVMKI 395
++
Sbjct: 103 YGFEV 107
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
0.314 0.131 0.372
Gapped
Lambda K H
0.267 0.0499 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,564,282
Number of extensions: 457986
Number of successful extensions: 738
Number of sequences better than 10.0: 1
Number of HSP's gapped: 736
Number of HSP's successfully gapped: 25
Length of query: 517
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 419
Effective length of database: 3,965,535
Effective search space: 1661559165
Effective search space used: 1661559165
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: 42 (22.0 bits)
S2: 59 (27.1 bits)