RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 031473
(159 letters)
>3bbo_W Ribosomal protein L24; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 191
Score = 144 bits (366), Expect = 6e-45
Identities = 39/127 (30%), Positives = 61/127 (48%), Gaps = 4/127 (3%)
Query: 13 WKILRGDNVMIIRGKDKGETGAIKRVIRSQNRVIVEGKNLVKKHIK-GGEGHEGGIFTVE 71
+ GD V +I G +KG+ G I ++ + + VI++ N KH+K EG +G I +E
Sbjct: 67 RHVKVGDTVKVISGGEKGKIGEISKIHKHNSTVIIKDLNFKTKHVKSKEEGEQGQIIKIE 126
Query: 72 APIHASNVQVLDPVTGKPCKVGTKYLEDGTKVRVARGIGASGSIIPRPEILKIRTTPRPT 131
A IH+SNV ++ +VG K LED KVR +G I+ P+ K + +
Sbjct: 127 AAIHSSNVMLILKEQEVADRVGHKILEDVRKVRYLI---KTGEIVDTPDRWKEIQNKKES 183
Query: 132 VAGPKDT 138
Sbjct: 184 ETAVAVA 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 = 126 bits (319), Expect = 6e-39
Identities = 36/99 (36%), Positives = 57/99 (57%), Gaps = 3/99 (3%)
Query: 18 GDNVMIIRGKDKGETGAIKRVIRSQNRVIVEGKNLVKKHIKGGEGHEGGIFTVEAPIHAS 77
GD V I+ GKD G+ G + +VIR +N V+V G N ++I + G + EAP+
Sbjct: 1 GDTVEILEGKDAGKQGKVVQVIRQRNWVVVGGLNTHYRYIGKTMDYRGTMIPSEAPLLHR 60
Query: 78 NVQVLDPVTGKPCKVGTKYLEDGTKVRVARGIGASGSII 116
V+++DP+ KP ++ ++ E G +VRV+ SG II
Sbjct: 61 QVKLVDPMDRKPTEIEWRFTEAGERVRVST---RSGRII 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 = 118 bits (297), Expect = 2e-35
Identities = 42/108 (38%), Positives = 62/108 (57%), Gaps = 4/108 (3%)
Query: 14 KILRGDNVMIIRGKDKGETGAIKRVIRSQNRVIVEGKNLVKKHIK-GGEGHEGGIFTVEA 72
+ +GD V++ GK KG G +K V+ + VIVEG N+VKK ++ + +GG EA
Sbjct: 6 HVKKGDTVLVASGKYKGRVGKVKEVLPKKYAVIVEGVNIVKKAVRVSPKYPQGGFIEKEA 65
Query: 73 PIHASNVQVLDPVTGKPCKVGTKYLEDGTKVRVARGIGASGSIIPRPE 120
P+HAS V+ + P GKP +V K+LE+G K+RV G + E
Sbjct: 66 PLHASKVRPICPACGKPTRVRKKFLENGKKIRVCA---KCGGALDTEE 110
>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 = 111 bits (280), Expect = 1e-32
Identities = 40/104 (38%), Positives = 60/104 (57%), Gaps = 5/104 (4%)
Query: 14 KILRGDNVMIIRGKDKGETGAIKRVIRSQNRVIVEGKNLVKKHIK-GGEGHEGGIFTVEA 72
+GD V+++ GK KG+TG + + +V+VEG N++ K++K +GG E
Sbjct: 15 HFKKGDTVIVLSGKHKGQTGKVLLALPRDQKVVVEGVNVITKNVKPSMTNPQGGQEQREL 74
Query: 73 PIHASNVQVLDPVTGKPCKVGTKYLEDGTKVRVARGIGASGSII 116
+HAS V ++DP TGK +V + + DG KVRVA ASG I
Sbjct: 75 ALHASKVALVDPETGKATRVRKQ-IVDGKKVRVAV---ASGKTI 114
>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 = 107 bits (270), Expect = 2e-31
Identities = 46/105 (43%), Positives = 60/105 (57%), Gaps = 7/105 (6%)
Query: 14 KILRGDNVMIIRGKDKGETGAIKRVIRSQNRVIVEGKNLVKKHIK--GGEGHEGGIFTVE 71
KI R D V+++ GKDKG+ G +K V+ +VIVEG NLVKKH K GGI E
Sbjct: 3 KIRRDDEVIVLTGKDKGKRGKVKNVLS-SGKVIVEGINLVKKHQKPVPALNQPGGIVEKE 61
Query: 72 APIHASNVQVLDPVTGKPCKVGTKYLEDGTKVRVARGIGASGSII 116
A I SNV + + TGK +VG + EDG KVR + ++ I
Sbjct: 62 AAIQVSNVAIFNAATGKADRVGFR-FEDGKKVRFFK---SNSETI 102
>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 = 67.6 bits (165), Expect = 2e-15
Identities = 22/88 (25%), Positives = 34/88 (38%), Gaps = 10/88 (11%)
Query: 6 AEKLIRHWKILRGDNVMIIRGKDKGETGAIKRVIRSQNRVIVEGKNLVKKHIKGGEGHEG 65
E R+ ++ GD V ++RG GE G + V + + VE L K +
Sbjct: 34 EEYGQRNVRVNAGDTVEVLRGDFAGEEGEVINVDLDKAVIHVEDVTLEKTDGE------- 86
Query: 66 GIFTVEAPIHASNVQVLDPVTGKPCKVG 93
V P+ SNV+V D +
Sbjct: 87 ---EVPRPLDTSNVRVTDLDLEDEKREA 111
>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 = 54.0 bits (129), Expect = 5e-10
Identities = 26/99 (26%), Positives = 36/99 (36%), Gaps = 10/99 (10%)
Query: 10 IRHWKILRGDNVMIIRGKDKGETGAIKRVIRSQNRVIVEGKNLVKKHIKGGEGHEGGIFT 69
+R I + D V ++RG KG G + +V R + + VE K + T
Sbjct: 44 VRSIPIRKDDEVQVVRGSYKGREGKVVQVYRRRWVIHVERITREKVNGS----------T 93
Query: 70 VEAPIHASNVQVLDPVTGKPCKVGTKYLEDGTKVRVARG 108
V IH S V V K K G A+G
Sbjct: 94 VNVGIHPSKVVVTKLKLDKDRKAILDRKASGRAADKAKG 132
>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 = 49.7 bits (118), Expect = 1e-08
Identities = 18/78 (23%), Positives = 33/78 (42%), Gaps = 10/78 (12%)
Query: 14 KILRGDNVMIIRGKDKGETGAIKRVIRSQNRVIVEGKNLVKKHIKGGEGHEGGIFTVEAP 73
+ + D V+I+RGK KG G + +V R + + VE + K + + P
Sbjct: 48 PVRKDDEVLIVRGKFKGNKGKVTQVYRKKWAIHVEKISKNKLNGA----------PYQIP 97
Query: 74 IHASNVQVLDPVTGKPCK 91
+ AS + + K +
Sbjct: 98 LSASQLVLTKLKLDKSRQ 115
>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 = 47.4 bits (112), Expect = 8e-08
Identities = 20/78 (25%), Positives = 31/78 (39%), Gaps = 10/78 (12%)
Query: 14 KILRGDNVMIIRGKDKGETGAIKRVIRSQNRVIVEGKNLVKKHIKGGEGHEGGIFTVEAP 73
I R D V+++RG KG+ G I V R + V V+ K + +V
Sbjct: 49 PIRRDDEVLVVRGSKKGQEGKISSVYRLKFAVQVDKVTKEKVNGA----------SVPIN 98
Query: 74 IHASNVQVLDPVTGKPCK 91
+H S + + K K
Sbjct: 99 LHPSKLVITKLHLDKDRK 116
>2zkr_t 60S ribosomal protein L26; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 145
Score = 40.0 bits (93), Expect = 5e-05
Identities = 20/78 (25%), Positives = 31/78 (39%), Gaps = 11/78 (14%)
Query: 15 ILRGDNVMIIRGKDKG-ETGAIKRVIRSQNRVIVEGKNLVKKHIKGGEGHEGGIFTVEAP 73
I + D V ++RG KG + G + +V R + + +E K + TV
Sbjct: 49 IRKDDEVQVVRGHYKGQQIGKVVQVYRKKYVIYIERVQREKANGT----------TVHVG 98
Query: 74 IHASNVQVLDPVTGKPCK 91
IH S V + K K
Sbjct: 99 IHPSKVVITRLKLDKDRK 116
>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 = 36.2 bits (83), Expect = 0.003
Identities = 30/133 (22%), Positives = 44/133 (33%), Gaps = 43/133 (32%)
Query: 4 KAAEKLIRHWKILRGDNVMIIRGKDKG------ETGAIKRVIRSQNRVIVEGKNLVKKHI 57
A LI L +NV KD G +R + I E +V
Sbjct: 433 VPASDLINKD--LVKNNV-SFNAKDIQIPVYDTFDG---SDLRVLSGSISE--RIVDC-- 482
Query: 58 KGGEGHEGGIFTVEAPIH--------ASNVQVLDPVTGKPCKVG--TKYLEDGTKVRVAR 107
I + P+ A+++ P G +G T +DGT VRV
Sbjct: 483 ---------IIRL--PVKWETTTQFKATHILDFGP--GGASGLGVLTHRNKDGTGVRV-- 527
Query: 108 GIGASGSIIPRPE 120
I A G++ P+
Sbjct: 528 -IVA-GTLDINPD 538
Score = 29.2 bits (65), Expect = 0.61
Identities = 22/129 (17%), Positives = 43/129 (33%), Gaps = 42/129 (32%)
Query: 53 VKKHIKGGEGHEGGIFTVEAPIHASN---------VQVLD-------------PVTGKPC 90
++ ++KG GH G+ T I ++ + + P T P
Sbjct: 263 LRSYLKGATGHSQGLVTA-VAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPP 321
Query: 91 KVGTKYLEDG-------------TKVRVARGIGASGSIIPRPEILKI--RTTPRPTV-AG 134
+ LE+ T+ +V + + S +P + ++I + V +G
Sbjct: 322 SILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSG 381
Query: 135 PKDTPVDLV 143
P P L
Sbjct: 382 P---PQSLY 387
>2ckk_A KIN17; beta barrel, ribosomal protein, ribonucleoprotein, nuclear
protein; 1.45A {Homo sapiens}
Length = 127
Score = 30.3 bits (68), Expect = 0.11
Identities = 4/32 (12%), Positives = 13/32 (40%)
Query: 17 RGDNVMIIRGKDKGETGAIKRVIRSQNRVIVE 48
G ++++ G +G G ++ + +
Sbjct: 73 PGKRILVLNGGYRGNEGTLESINEKTFSATIV 104
>2do3_A Transcription elongation factor SPT5; KOW motif, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Homo sapiens}
SCOP: b.34.5.5
Length = 69
Score = 28.6 bits (64), Expect = 0.24
Identities = 14/30 (46%), Positives = 21/30 (70%), Gaps = 2/30 (6%)
Query: 18 GDNVMIIRGKDKGETGAIKRVIRSQNRVIV 47
GD+V +I G+ +G+TG I RV +N VI+
Sbjct: 21 GDHVKVIAGRFEGDTGLIVRV--EENFVIL 48
>3p8b_B Transcription antitermination protein NUSG; transcription
elongation factor, RNA polymerase, transferase
transcription complex; 1.80A {Pyrococcus furiosus} PDB:
3qqc_D
Length = 152
Score = 29.0 bits (65), Expect = 0.39
Identities = 10/34 (29%), Positives = 20/34 (58%)
Query: 15 ILRGDNVMIIRGKDKGETGAIKRVIRSQNRVIVE 48
+ GD V +I G KG+ + ++ S++ V+V+
Sbjct: 92 LEPGDLVEVIAGPFKGQKAKVVKIDESKDEVVVQ 125
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl RED
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 1688
Score = 28.3 bits (63), Expect = 1.2
Identities = 12/51 (23%), Positives = 19/51 (37%), Gaps = 7/51 (13%)
Query: 28 DKGETGAIKRVIRSQNR------VIVEGKNLVKKHIKGGEGHEGGIFTVEA 72
DK E+ I +++ R + V K L H KG G ++
Sbjct: 1351 DKNESATINEMMKHLGRSEGNPVIGVFQKFLT-GHPKGAAGAWMMNGALQI 1400
>3hgu_A EHPF; phenazine, antibiotic, biosynthetic protein; 1.95A {Pantoea
agglomerans} PDB: 3hgv_A 3l2k_A*
Length = 369
Score = 27.4 bits (60), Expect = 2.6
Identities = 10/69 (14%), Positives = 20/69 (28%), Gaps = 16/69 (23%)
Query: 61 EGHEGGIFTVEAPIHASNVQVLDPVTGKPCKVGT----------------KYLEDGTKVR 104
E ++ V+D +T + + G + E T +R
Sbjct: 279 ITSESQQVIYDSFSPFITYDVVDSITAQTVEYGERGNVIVTHLSPWAFYPRVAERDTAIR 338
Query: 105 VARGIGASG 113
+ G +G
Sbjct: 339 LPGVSGFAG 347
>3kbg_A 30S ribosomal protein S4E; RPS4E, RS4E_theac, TAR28, NESG,
structural genomics, PSI-2, protein structure
initiative; HET: MSE; 1.75A {Thermoplasma acidophilum}
Length = 213
Score = 26.6 bits (58), Expect = 3.2
Identities = 11/48 (22%), Positives = 18/48 (37%), Gaps = 4/48 (8%)
Query: 5 AAEKLIRHWKILRGDNVMIIRGKDKGETGAIKRVIR----SQNRVIVE 48
K+ K+ G+ I G +TG I ++ S N V +
Sbjct: 129 PDMKISEIIKMQPGNKAYITAGSHVNQTGTISKIEAKEGSSANLVHFQ 176
>1i4k_A Putative snRNP SM-like protein; core snRNP domain, RNA binding
protein; HET: CIT; 2.50A {Archaeoglobus fulgidus} SCOP:
b.38.1.1 PDB: 1i5l_A*
Length = 77
Score = 24.9 bits (55), Expect = 4.9
Identities = 6/17 (35%), Positives = 10/17 (58%)
Query: 15 ILRGDNVMIIRGKDKGE 31
++RGD V+ + GE
Sbjct: 61 VIRGDTVVFVSPAPGGE 77
>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 = 6.5
Identities = 5/32 (15%), Positives = 10/32 (31%)
Query: 53 VKKHIKGGEGHEGGIFTVEAPIHASNVQVLDP 84
+++ I + + N Q DP
Sbjct: 7 IRRVKTVQMTTNSPIHRSGSVLEPGNWQEYDP 38
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 0.408
Gapped
Lambda K H
0.267 0.0802 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,544,377
Number of extensions: 154556
Number of successful extensions: 384
Number of sequences better than 10.0: 1
Number of HSP's gapped: 370
Number of HSP's successfully gapped: 25
Length of query: 159
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 73
Effective length of database: 4,300,587
Effective search space: 313942851
Effective search space used: 313942851
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: 53 (24.1 bits)