RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 033541
(117 letters)
>3bbo_W Ribosomal protein L24; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 191
Score = 98.4 bits (245), Expect = 2e-27
Identities = 27/87 (31%), Positives = 39/87 (44%), Gaps = 4/87 (4%)
Query: 11 VKKHIK-GGEGHEGGIFTVEAPIHASNVQVLDPVTGKPCKVGTKYLEDGTKVRVARGIGA 69
KH+K EG +G I +EA IH+SNV ++ +VG K LED KVR
Sbjct: 107 KTKHVKSKEEGEQGQIIKIEAAIHSSNVMLILKEQEVADRVGHKILEDVRKVRYLI---K 163
Query: 70 SGSIIPRPEILKIRTTPRPTVAGPKDT 96
+G I+ P+ K + +
Sbjct: 164 TGEIVDTPDRWKEIQNKKESETAVAVA 190
>2ftc_N Mitochondrial ribosomal protein L24; mitochondrial ribosome,
large ribosomal subunit, ribosomal R ribosome; 12.10A
{Bos taurus} PDB: 3iy9_N
Length = 96
Score = 81.8 bits (203), Expect = 7e-22
Identities = 19/64 (29%), Positives = 34/64 (53%), Gaps = 3/64 (4%)
Query: 11 VKKHIKGGEGHEGGIFTVEAPIHASNVQVLDPVTGKPCKVGTKYLEDGTKVRVARGIGAS 70
++I + G + EAP+ V+++DP+ KP ++ ++ E G +VRV+ S
Sbjct: 36 HYRYIGKTMDYRGTMIPSEAPLLHRQVKLVDPMDRKPTEIEWRFTEAGERVRVST---RS 92
Query: 71 GSII 74
G II
Sbjct: 93 GRII 96
>3v2d_Y 50S ribosomal protein L24; ribosome associated inhibitor A, RAIA,
protein Y, stress RES stationary phase, ribosome
hibernation, ribosome; 2.70A {Thermus thermophilus} PDB:
1vsp_S 2hgj_X 2hgq_X 2hgu_X 1vsa_S 2j03_Y 2jl6_Y 2jl8_Y
2v47_Y 2v49_Y 2wdi_Y 2wdj_Y 2wdl_Y 2wdn_Y 2wh2_Y 2wh4_Y
2wrj_Y 2wrl_Y 2wro_Y 2wrr_Y ...
Length = 110
Score = 74.5 bits (184), Expect = 6e-19
Identities = 26/69 (37%), Positives = 38/69 (55%), Gaps = 4/69 (5%)
Query: 11 VKKHIK-GGEGHEGGIFTVEAPIHASNVQVLDPVTGKPCKVGTKYLEDGTKVRVARGIGA 69
VKK ++ + +GG EAP+HAS V+ + P GKP +V K+LE+G K+RV
Sbjct: 45 VKKAVRVSPKYPQGGFIEKEAPLHASKVRPICPACGKPTRVRKKFLENGKKIRVCA---K 101
Query: 70 SGSIIPRPE 78
G + E
Sbjct: 102 CGGALDTEE 110
>3r8s_U 50S ribosomal protein L24; protein biosynthesis, RNA, tRNA,
transfer RNA, 23S ribosomal subunit, ribosome recycling
factor, RRF, ribosome; 3.00A {Escherichia coli} PDB:
2j28_U* 3fik_U 2wwq_U 3oat_U* 3oas_U* 3ofd_U 3ofc_U
3ofr_U* 3ofz_U* 3og0_U 3ofq_U 3r8t_U 3i1n_U 1vs8_U
1vs6_U 1vt2_U 3i1p_U 3i1r_U 3i1t_U 3i20_U ...
Length = 102
Score = 68.3 bits (168), Expect = 1e-16
Identities = 26/66 (39%), Positives = 33/66 (50%), Gaps = 6/66 (9%)
Query: 11 VKKHIK--GGEGHEGGIFTVEAPIHASNVQVLDPVTGKPCKVGTKYLEDGTKVRVARGIG 68
VKKH K GGI EA I SNV + + TGK +VG + EDG KVR +
Sbjct: 41 VKKHQKPVPALNQPGGIVEKEAAIQVSNVAIFNAATGKADRVGFR-FEDGKKVRFFK--- 96
Query: 69 ASGSII 74
++ I
Sbjct: 97 SNSETI 102
>2zjr_R 50S ribosomal protein L24; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: b.34.5.1 PDB: 1nwx_S* 1nwy_S* 1sm1_S*
1xbp_S* 2d3o_S 2zjp_R* 2zjq_R 1nkw_S 3cf5_R* 3dll_R*
3pio_R* 3pip_R* 1pnu_S 1pny_S 1vor_V 1vou_V 1vow_V
1voy_V 1vp0_V
Length = 115
Score = 67.6 bits (166), Expect = 3e-16
Identities = 26/65 (40%), Positives = 36/65 (55%), Gaps = 5/65 (7%)
Query: 11 VKKHIK-GGEGHEGGIFTVEAPIHASNVQVLDPVTGKPCKVGTKYLEDGTKVRVARGIGA 69
+ K++K +GG E +HAS V ++DP TGK +V + + DG KVRVA A
Sbjct: 54 ITKNVKPSMTNPQGGQEQRELALHASKVALVDPETGKATRVRKQ-IVDGKKVRVAV---A 109
Query: 70 SGSII 74
SG I
Sbjct: 110 SGKTI 114
>1vq8_T 50S ribosomal protein L24P; ribosome 50S, protein-protein complex,
RNA-RNA complex, PROT complex, peptidyl transferase
reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A
{Haloarcula marismortui} SCOP: b.34.5.1 PDB: 1vq4_T*
1vq5_T* 1vq6_T* 1vq7_T* 1s72_T* 1vq9_T* 1vqk_T* 1vql_T*
1vqm_T* 1vqn_T* 1vqo_T* 1vqp_T* 1yhq_T* 1yi2_T* 1yij_T*
1yit_T* 1yj9_T* 1yjn_T* 1yjw_T* 2otj_T* ...
Length = 120
Score = 32.1 bits (73), Expect = 0.014
Identities = 7/25 (28%), Positives = 10/25 (40%)
Query: 27 TVEAPIHASNVQVLDPVTGKPCKVG 51
V P+ SNV+V D +
Sbjct: 87 EVPRPLDTSNVRVTDLDLEDEKREA 111
>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 = 31.9 bits (72), Expect = 0.033
Identities = 17/64 (26%), Positives = 27/64 (42%), Gaps = 18/64 (28%)
Query: 25 IFTVEAPIH--------ASNVQVLDPVTGKPCKVG--TKYLEDGTKVRVARGIGASGSII 74
I + P+ A+++ P G +G T +DGT VRV I A G++
Sbjct: 483 IIRL--PVKWETTTQFKATHILDFGP--GGASGLGVLTHRNKDGTGVRV---IVA-GTLD 534
Query: 75 PRPE 78
P+
Sbjct: 535 INPD 538
Score = 30.0 bits (67), Expect = 0.14
Identities = 22/130 (16%), Positives = 44/130 (33%), Gaps = 42/130 (32%)
Query: 10 QVKKHIKGGEGHEGGIFTVEAPIHASN---------VQVLD-------------PVTGKP 47
+++ ++KG GH G+ T I ++ + + P T P
Sbjct: 262 ELRSYLKGATGHSQGLVTA-VAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLP 320
Query: 48 CKVGTKYLEDG-------------TKVRVARGIGASGSIIPRPEILKI--RTTPRPTV-A 91
+ LE+ T+ +V + + S +P + ++I + V +
Sbjct: 321 PSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVS 380
Query: 92 GPKDTPVDLV 101
GP P L
Sbjct: 381 GP---PQSLY 387
>3iz5_Y 60S ribosomal protein L26 (L24P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_Y
Length = 150
Score = 29.7 bits (66), Expect = 0.12
Identities = 13/53 (24%), Positives = 17/53 (32%)
Query: 14 HIKGGEGHEGGIFTVEAPIHASNVQVLDPVTGKPCKVGTKYLEDGTKVRVARG 66
H++ + TV IH S V V K K G A+G
Sbjct: 80 HVERITREKVNGSTVNVGIHPSKVVVTKLKLDKDRKAILDRKASGRAADKAKG 132
>3u5e_Y L33, YL33, 60S ribosomal protein L26-A; translation, ribosome,
ribosomal R ribosomal protein, STM1, eukaryotic
ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 2wwa_L
2ww9_L 2wwb_L 3o5h_X 3o58_X 3u5i_Y 1s1i_U 3izc_Y 3izs_Y
3jyw_U
Length = 127
Score = 27.3 bits (60), Expect = 0.82
Identities = 5/23 (21%), Positives = 9/23 (39%)
Query: 27 TVEAPIHASNVQVLDPVTGKPCK 49
+V +H S + + K K
Sbjct: 94 SVPINLHPSKLVITKLHLDKDRK 116
>4a17_S RPL26, 60S ribosomal protein L21; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_S 4a1c_S 4a1e_S
Length = 135
Score = 26.9 bits (59), Expect = 1.2
Identities = 6/40 (15%), Positives = 12/40 (30%), Gaps = 3/40 (7%)
Query: 27 TVEAPIHASNVQVLDPVTGKPCKVGTKYLEDGTKVRVARG 66
+ P+ AS + + K + L +G
Sbjct: 93 PYQIPLSASQLVLTKLKLDKSRQ---SLLTRKAASLKTKG 129
>3hgu_A EHPF; phenazine, antibiotic, biosynthetic protein; 1.95A {Pantoea
agglomerans} PDB: 3hgv_A 3l2k_A*
Length = 369
Score = 26.6 bits (58), Expect = 2.3
Identities = 10/69 (14%), Positives = 20/69 (28%), Gaps = 16/69 (23%)
Query: 19 EGHEGGIFTVEAPIHASNVQVLDPVTGKPCKVGT----------------KYLEDGTKVR 62
E ++ V+D +T + + G + E T +R
Sbjct: 279 ITSESQQVIYDSFSPFITYDVVDSITAQTVEYGERGNVIVTHLSPWAFYPRVAERDTAIR 338
Query: 63 VARGIGASG 71
+ G +G
Sbjct: 339 LPGVSGFAG 347
>2p17_A Pirin-like protein; GK1651, structural genomics, south
collaboratory for structural genomics, protein
structure in secsg; 1.52A {Geobacillus kaustophilus}
Length = 277
Score = 26.0 bits (58), Expect = 2.7
Identities = 5/33 (15%), Positives = 11/33 (33%)
Query: 10 QVKKHIKGGEGHEGGIFTVEAPIHASNVQVLDP 42
++++ I + + N Q DP
Sbjct: 6 RIRRVKTVQMTTNSPIHRSGSVLEPGNWQEYDP 38
>2eko_A Histone acetyltransferase htatip; chromo domain, histone tail,
chromatin organization modifier, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 87
Score = 25.0 bits (54), Expect = 3.4
Identities = 7/31 (22%), Positives = 14/31 (45%)
Query: 55 LEDGTKVRVARGIGASGSIIPRPEILKIRTT 85
+ +G ++ V R + P EIL ++
Sbjct: 10 IIEGCRLPVLRRNQDNEDEWPLAEILSVKDI 40
>3efm_A FAUA, ferric alcaligin siderophore receptor; membrane protein,
membrane receptor, membrane transporter, membrane, TONB
box; 2.33A {Bordetella pertussis}
Length = 707
Score = 25.8 bits (57), Expect = 4.0
Identities = 11/44 (25%), Positives = 18/44 (40%), Gaps = 3/44 (6%)
Query: 35 SNVQVLDPVTGKPCKVGTKYLEDGTKVRVARGI--GASGSIIPR 76
N+ + P + P + + +V GI ASG I+P
Sbjct: 536 DNLAQVIPGSSIPGFPNMQASRAASGAKV-EGIDLEASGQILPD 578
>2p5z_X Type VI secretion system component; structural genomics, unknown
function, PSI-2, protein struct initiative; 2.60A
{Escherichia coli O6} SCOP: b.40.8.1 b.106.1.1 b.106.1.1
Length = 491
Score = 25.0 bits (55), Expect = 7.1
Identities = 9/29 (31%), Positives = 10/29 (34%), Gaps = 5/29 (17%)
Query: 65 RGIGASGSIIPRPEILKIRTTPRPTVAGP 93
I S RP PRP +AG
Sbjct: 363 TAIPYSERYGYRP-----ALIPRPVMAGT 386
>3f1z_A Putative nucleic acid-binding lipoprotein; YP_001337197.1, S
genomics, joint center for structural genomics, JCSG;
2.46A {Klebsiella pneumoniae subsp}
Length = 133
Score = 24.3 bits (52), Expect = 9.4
Identities = 16/43 (37%), Positives = 19/43 (44%), Gaps = 5/43 (11%)
Query: 35 SNVQVLDPVTGKPCKVGTKYLEDGTKVR-----VARGIGASGS 72
S Q L P T P K + YL KVR + R G +GS
Sbjct: 28 SVAQFLQPFTLNPAKASSDYLGKWVKVRGVIVDIRRKSGIAGS 70
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
0.316 0.138 0.419
Gapped
Lambda K H
0.267 0.0536 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,838,002
Number of extensions: 103085
Number of successful extensions: 230
Number of sequences better than 10.0: 1
Number of HSP's gapped: 227
Number of HSP's successfully gapped: 20
Length of query: 117
Length of database: 6,701,793
Length adjustment: 80
Effective length of query: 37
Effective length of database: 4,468,113
Effective search space: 165320181
Effective search space used: 165320181
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 (21.6 bits)
S2: 51 (23.9 bits)