RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy397
(202 letters)
>3u5c_Y RP50, 40S ribosomal protein S24-A; translation, ribosome,
ribosomal, ribosomal R ribosomal protein, eukaryotic
ribosome, RNA-protein C; 3.00A {Saccharomyces
cerevisiae} PDB: 3izb_U* 3j16_D 3u5g_Y
Length = 135
Score = 145 bits (367), Expect = 4e-45
Identities = 51/92 (55%), Positives = 71/92 (77%)
Query: 7 ASTVTIKTRKYMTNRLLGRKQMVVDVLHPGKPSVKKTDIREKLSKMFKSKPENIFAFGFQ 66
+ VTI+TRK ++N LL RKQ VVDVLHP + +V K ++REKL++++K++ + + FGF+
Sbjct: 2 SDAVTIRTRKVISNPLLARKQFVVDVLHPNRANVSKDELREKLAEVYKAEKDAVSVFGFR 61
Query: 67 TNFGGGKSTGFALIYDSIDLAKKFEPKYRLQR 98
T FGGGKS GF L+Y+S+ AKKFEP YRL R
Sbjct: 62 TQFGGGKSVGFGLVYNSVAEAKKFEPTYRLVR 93
>2v94_A RPS24, 30S ribosomal protein S24E; ribonucleoprotein; 1.90A
{Pyrococcus abyssi} SCOP: d.12.1.3
Length = 107
Score = 141 bits (356), Expect = 8e-44
Identities = 30/91 (32%), Positives = 47/91 (51%)
Query: 8 STVTIKTRKYMTNRLLGRKQMVVDVLHPGKPSVKKTDIREKLSKMFKSKPENIFAFGFQT 67
+ IK + N+L+GRK++ ++ HPG+P+ + D++ KL M PE ++
Sbjct: 7 LEMEIKITEVKENKLIGRKEIYFEIYHPGEPTPSRKDVKGKLVAMLDLNPETTVIQYIRS 66
Query: 68 NFGGGKSTGFALIYDSIDLAKKFEPKYRLQR 98
FG KS G+A Y D EP+Y L R
Sbjct: 67 YFGSYKSKGYAKYYYDKDRMLYIEPEYILIR 97
>2xzm_P RPS24E; ribosome, translation; 3.93A {Tetrahymena thermophila}
PDB: 2xzn_P
Length = 149
Score = 139 bits (351), Expect = 1e-42
Identities = 44/90 (48%), Positives = 62/90 (68%)
Query: 9 TVTIKTRKYMTNRLLGRKQMVVDVLHPGKPSVKKTDIREKLSKMFKSKPENIFAFGFQTN 68
T+ I+T+K + N LL R+Q+ +DVLHP P+ K IRE+L+K K N+ +GF T
Sbjct: 2 TIVIRTKKILVNPLLSRRQLSLDVLHPDSPTASKEKIREELAKQLKVDARNVVVYGFSTQ 61
Query: 69 FGGGKSTGFALIYDSIDLAKKFEPKYRLQR 98
+GGGKSTGFAL+YD+ K+EP YRL++
Sbjct: 62 YGGGKSTGFALVYDNQQYLLKYEPNYRLRK 91
>1xn9_A 30S ribosomal protein S24E; beta+alpha, GFT structural genomics,
protein structure initiative, PSI, NESG, MAR11; NMR
{Methanosarcina mazei} SCOP: d.12.1.3
Length = 101
Score = 135 bits (341), Expect = 1e-41
Identities = 27/87 (31%), Positives = 46/87 (52%), Gaps = 1/87 (1%)
Query: 12 IKTRKYMTNRLLGRKQMVVDVLHPGKPSVKKTDIREKLSKMFKSKPENIFAFGFQTNFGG 71
IK K N LL R+++ V + G + + D+R KL+ M + E + +T +G
Sbjct: 3 IKIIKDKKNPLLNRRELDFIVKYEG-STPSRNDVRNKLAAMLNAPLELLVIQRIKTEYGM 61
Query: 72 GKSTGFALIYDSIDLAKKFEPKYRLQR 98
+S G+A +Y+ D K+ E +Y L+R
Sbjct: 62 QESKGYAKLYEDADRMKQVEQEYVLKR 88
>3iz6_U 40S ribosomal protein S24 (S24E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel
ribosomal proteins, ribosome; 5.50A {Triticum aestivum}
Length = 138
Score = 135 bits (340), Expect = 5e-41
Identities = 60/99 (60%), Positives = 79/99 (79%), Gaps = 1/99 (1%)
Query: 1 MKTVLSASTVTIKTRKYMTNRLLGRKQMVVDVLHPGKPSVKKTDIREKLSKMFKSKPEN- 59
M +A VT++TRK+MTNRLL RKQ V++VLHPG+ +V K D++EKL+K+++ K N
Sbjct: 1 MADTKTAPAVTLRTRKFMTNRLLSRKQFVLEVLHPGRANVSKADLKEKLAKLYEVKDSNC 60
Query: 60 IFAFGFQTNFGGGKSTGFALIYDSIDLAKKFEPKYRLQR 98
IF F F+T+FGGGKSTGF LIYD++D AKK+EPKYRL R
Sbjct: 61 IFVFKFRTHFGGGKSTGFGLIYDNLDAAKKYEPKYRLIR 99
>2g1d_A 30S ribosomal protein S24E; complete proteome, ribosome; NMR
{Thermoplasma acidophilum} SCOP: d.12.1.3
Length = 98
Score = 131 bits (331), Expect = 4e-40
Identities = 18/87 (20%), Positives = 36/87 (41%)
Query: 12 IKTRKYMTNRLLGRKQMVVDVLHPGKPSVKKTDIREKLSKMFKSKPENIFAFGFQTNFGG 71
+ ++ N +L RK++ + + + +I+E ++K E + + G
Sbjct: 3 LIIKEKRDNPILKRKEIKYVLKFDSSRTPSREEIKELIAKHEGVDKELVIVDNNKQLTGK 62
Query: 72 GKSTGFALIYDSIDLAKKFEPKYRLQR 98
+ G+ IY A +EP Y L R
Sbjct: 63 HEIEGYTKIYADKPSAMLYEPDYELIR 89
>1ywx_A 30S ribosomal protein S24E; GFT MRR16, nesgc, structural
genomics, PSI, protein structure initiative; NMR
{Methanococcus maripaludis} SCOP: d.12.1.3
Length = 102
Score = 124 bits (313), Expect = 2e-37
Identities = 18/87 (20%), Positives = 34/87 (39%), Gaps = 1/87 (1%)
Query: 12 IKTRKYMTNRLLGRKQMVVDVLHPGKPSVKKTDIREKLSKMFKSKPENIFAFGFQTNFGG 71
I N LL R+++ V + D++ KL + + + + FG
Sbjct: 3 ISIISDRNNPLLQRREIKFTVSFDA-ATPSIKDVKMKLVAVLNANKQVLVVDTLDQIFGK 61
Query: 72 GKSTGFALIYDSIDLAKKFEPKYRLQR 98
++ G+A IY+ E K L++
Sbjct: 62 LEAEGYAKIYNDEKAMATIETKSVLEK 88
>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 = 46.0 bits (108), Expect = 3e-06
Identities = 39/289 (13%), Positives = 74/289 (25%), Gaps = 99/289 (34%)
Query: 2 KTVLSASTV-TIKTRKYMTNRL----LGRKQMVVDVL-------------------HPGK 37
KT ++ + K + M ++ L VL H
Sbjct: 163 KTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSN 222
Query: 38 PSVKKTDIREKLSKMFKSK--------------PENIFAFGFQ------------TNFGG 71
++ I+ +L ++ KSK + AF T+F
Sbjct: 223 IKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLS 282
Query: 72 GKSTGFALIYDSIDLAKKFEPKYRLQ------RVSTKSL-------LVLIIATIGITSCQ 118
+T + P + L ++ I S +
Sbjct: 283 AATTT---HISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIA-ESIR 338
Query: 119 EAEHKIDHSELVFDH-----ICFSYASLYPLEDK------------IEIPPIILNRNVCW 161
+ D+ + V I S L P E + IP I+L ++ W
Sbjct: 339 DGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILL--SLIW 396
Query: 162 S--------LSMSKVLALSSYIKWCTSYHCKGSDWYLHIVSSLLDVESD 202
+ ++K+ S K + + L V+ +
Sbjct: 397 FDVIKSDVMVVVNKLHKYSLVEKQPKESTI-----SIPSIYLELKVKLE 440
Score = 40.2 bits (93), Expect = 3e-04
Identities = 33/192 (17%), Positives = 63/192 (32%), Gaps = 48/192 (25%)
Query: 11 TIKTRKYMTNRLLGRKQMVVDVLHPGKPSVKK---------TDIREKLSKMFKSKPE-NI 60
++ TR Y+ R D L+ K +R+ L ++ +P N+
Sbjct: 106 SMMTRMYIEQR---------DRLYNDNQVFAKYNVSRLQPYLKLRQALLEL---RPAKNV 153
Query: 61 FAFGFQTNFGGGKSTGFALIYDSIDLAKKFEPK-Y--RLQRVSTKSLLVLIIATIGITSC 117
G G GK+ + S + K + K + L+ ++ ++ ++ +
Sbjct: 154 LIDGV---LGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQID 210
Query: 118 QEAEHKIDHSELVFDHICFSYASLYPLEDKIEIPP-----IILNRNVCWSLSMSKVLALS 172
+ DHS + I A L L ++ P ++L NV + L
Sbjct: 211 PNWTSRSDHSSNIKLRIHSIQAELRRL---LKSKPYENCLLVL-LNV-QNAKAWNAFNL- 264
Query: 173 SYIKWCTSYHCK 184
CK
Sbjct: 265 ---------SCK 267
Score = 28.3 bits (62), Expect = 2.4
Identities = 31/184 (16%), Positives = 59/184 (32%), Gaps = 57/184 (30%)
Query: 15 RKYMTNRLLGRKQMVVDVLHPGKPSVKKTDIR---EKLSKMFKSKPE--NIFAFGFQTNF 69
+ ++L + ++VL P + R ++LS +F P +I +
Sbjct: 348 KHVNCDKLTTIIESSLNVLEP-------AEYRKMFDRLS-VF---PPSAHIPTILLSLIW 396
Query: 70 GGGKSTGFALIYDSIDLAKKFEPKYRLQRVSTKSLLVLIIATIGITSCQ-EAEHKID--- 125
D + + K +++ +S TI I S E + K++
Sbjct: 397 FDVIK------SDVMVVVNKLHKYSLVEKQPKES-------TISIPSIYLELKVKLENEY 443
Query: 126 --HSELVFDHICFSYASLYPLEDKIEIPPIILNRNVCWSLSMSKVLALSSYIKWCTSYHC 183
H +V DH ++ + +D I PP L Y +H
Sbjct: 444 ALHRSIV-DH--YNIPKTFDSDDLI--PP-----------------YLDQYFYSHIGHHL 481
Query: 184 KGSD 187
K +
Sbjct: 482 KNIE 485
>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 = 35.0 bits (80), Expect = 0.013
Identities = 28/139 (20%), Positives = 43/139 (30%), Gaps = 46/139 (33%)
Query: 32 VLHPGKPSVKKTDIREKLSKMFKSKPENIFAFGFQTNFGGGKSTGFALIYDSIDLAKK-- 89
+H G K+ IRE S M F+T G I+ I+
Sbjct: 1673 TIHFGGEKGKR--IRENYSAMI-----------FETIVDG--KLKTEKIFKEINEHSTSY 1717
Query: 90 -FE-PKYRLQRVSTKS----LLVLIIATIGITSCQEAEHKID-------HS--E---LVF 131
F K L T+ L ++ A +++ I HS E L
Sbjct: 1718 TFRSEKGLLSA--TQFTQPALTLMEKA---AFEDLKSKGLIPADATFAGHSLGEYAALA- 1771
Query: 132 DHICFSYASLYPLEDKIEI 150
S A + +E +E+
Sbjct: 1772 -----SLADVMSIESLVEV 1785
>2hx1_A Predicted sugar phosphatases of the HAD superfamily; ZP_00311070.1,
possible sugar phosphatase, structural genomics; HET:
MSE EPE; 2.10A {Cytophaga hutchinsonii}
Length = 284
Score = 26.1 bits (58), Expect = 9.2
Identities = 15/39 (38%), Positives = 19/39 (48%), Gaps = 4/39 (10%)
Query: 102 KSLLVLIIATIGITSCQEAEHKIDHSELVFDHICFSYAS 140
+ LVL T G T +AE KI + +V HIC S
Sbjct: 248 DTALVL---T-GNTRIDDAETKIKSTGIVPTHICESAVI 282
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 0.402
Gapped
Lambda K H
0.267 0.0575 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,962,509
Number of extensions: 164866
Number of successful extensions: 345
Number of sequences better than 10.0: 1
Number of HSP's gapped: 340
Number of HSP's successfully gapped: 16
Length of query: 202
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 113
Effective length of database: 4,216,824
Effective search space: 476501112
Effective search space used: 476501112
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: 55 (25.3 bits)