RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 034832
(82 letters)
>2ov7_A 50S ribosomal protein L1; 2.30A {Thermus thermophilus} PDB: 2oum_A
2vpl_A
Length = 137
Score = 68.1 bits (167), Expect = 1e-16
Identities = 25/68 (36%), Positives = 37/68 (54%), Gaps = 5/68 (7%)
Query: 2 DNTSNVHVGLGKVSLKEELLRENVGAFVNALLLAKPAGLKKTSKFAGYVNSFHMCSTMGP 61
D T +H +GK S E L +N+ AF+ AL KP G K T ++ S ++ +TMGP
Sbjct: 75 DKTGAIHAPVGKASFPPEKLADNIRAFIRALEAHKPEGAKGT-----FLRSVYVTTTMGP 129
Query: 62 SFPVSIQS 69
S ++ S
Sbjct: 130 SVRINPHS 137
>2wwq_5 50S ribosomal protein L1; ribosomal protein, ribonucleoprotein,
nucleotide-binding, protein biosynthesis, translation,
zinc-finger; HET: 5MU; 5.80A {Escherichia coli} PDB:
3fik_5 3izt_C* 3izu_C* 3j01_5 3j0t_C* 3j0w_C* 3j0y_C*
3j11_C* 3j12_C* 3j14_C* 3kcr_5 2rdo_9 2gya_2 2gyc_2
Length = 234
Score = 69.6 bits (171), Expect = 2e-16
Identities = 22/74 (29%), Positives = 34/74 (45%), Gaps = 5/74 (6%)
Query: 2 DNTSNVHVGLGKVSLKEELLRENVGAFVNALLLAKPAGLKKTSKFAGYVNSFHMCSTMGP 61
D +H +GKV + L+EN+ A + AL AKP K Y+ + +TMG
Sbjct: 166 DKNGIIHTTIGKVDFDADKLKENLEALLVALKKAKPTQAKGV-----YIKKVSISTTMGA 220
Query: 62 SFPVSIQSLSRALD 75
V LS +++
Sbjct: 221 GVAVDQAGLSASVN 234
>3bbo_D Ribosomal protein L1; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 352
Score = 70.7 bits (173), Expect = 2e-16
Identities = 24/69 (34%), Positives = 38/69 (55%), Gaps = 5/69 (7%)
Query: 2 DNTSNVHVGLGKVSLKEELLRENVGAFVNALLLAKPAGLKKTSKFAGYVNSFHMCSTMGP 61
D T VH+ GK++ +EE L N+ A + ++ KP G K Y S H+ S+MGP
Sbjct: 280 DKTGIVHIPFGKLNFEEEDLLINLFATIKSVETNKPTGAKGV-----YWKSAHISSSMGP 334
Query: 62 SFPVSIQSL 70
S ++I+ +
Sbjct: 335 SIRLNIREM 343
>3qoy_A 50S ribosomal protein L1; beta-alpha-beta, structural constituent
of ribosome, rRNA BI regulation of translation,
translation, ribosomal RNA; 2.10A {Aquifex aeolicus}
Length = 242
Score = 68.9 bits (169), Expect = 3e-16
Identities = 24/75 (32%), Positives = 42/75 (56%), Gaps = 5/75 (6%)
Query: 2 DNTSNVHVGLGKVSLKEELLRENVGAFVNALLLAKPAGLKKTSKFAGYVNSFHMCSTMGP 61
D NVH+ +GK+S ++E L +N+ A ++A++ AKP G K Y+ + + TM P
Sbjct: 170 DKAGNVHMPVGKISFEKEKLIDNLYAAIDAVVRAKPPGAKGQ-----YIKNMAVSLTMSP 224
Query: 62 SFPVSIQSLSRALDQ 76
S + I + + L +
Sbjct: 225 SVKLDINEVLKKLQE 239
>4f9t_A 50S ribosomal protein L1; rossman fold, RNA; HET: MPD; 1.46A
{Thermus thermophilus} PDB: 3u4m_A 1eg0_N 1vsp_A 2hgj_C
2hgq_C 2hgu_C 1vsa_A 4abs_C 3zvp_C 1zho_A 1ml5_c* 1yl3_C
1giy_C 2hw8_A 2j01_C 2j03_C 2jl6_C 2jl8_C 2om7_K* 2v47_C
...
Length = 229
Score = 67.7 bits (166), Expect = 8e-16
Identities = 24/68 (35%), Positives = 36/68 (52%), Gaps = 5/68 (7%)
Query: 2 DNTSNVHVGLGKVSLKEELLRENVGAFVNALLLAKPAGLKKTSKFAGYVNSFHMCSTMGP 61
D T +H +GK S E L +N+ AF+ AL KP G K T ++ S ++ + MGP
Sbjct: 167 DKTGAIHAPVGKASFPPEKLADNIRAFIRALEAHKPEGAKGT-----FLRSVYVTTAMGP 221
Query: 62 SFPVSIQS 69
S ++ S
Sbjct: 222 SVRINPHS 229
>2ftc_A Mitochondrial ribosomal protein L1; mitochondrial ribosome, large
ribosomal subunit, ribosomal R ribosome; 12.10A {Bos
taurus}
Length = 189
Score = 65.0 bits (159), Expect = 6e-15
Identities = 9/70 (12%), Positives = 25/70 (35%), Gaps = 8/70 (11%)
Query: 2 DNTSNVHVGLGKVSLKEELLRENVGAFVNALLLAKPAGLKKTSKFAG-YVNSFHMCSTMG 60
+ + + + + + + + N+ A +N + +P G +V + S+
Sbjct: 126 ERENFLQTKIATLDMSSDQIAANLQAVINEVCRHRPLN-------LGPFVVRAFLRSSTS 178
Query: 61 PSFPVSIQSL 70
+ I L
Sbjct: 179 EGLLLKIDPL 188
>1i2a_A 50S ribosomal protein L1P; primary rRNA-binding protein,
translation repressor, ribosome; 1.85A
{Methanocaldococcus jannaschii} SCOP: e.24.1.1 PDB:
1cjs_A 1u63_A 1dwu_A
Length = 219
Score = 63.2 bits (154), Expect = 4e-14
Identities = 13/72 (18%), Positives = 29/72 (40%), Gaps = 7/72 (9%)
Query: 1 MDNTSNVHVGLGKVSLKEELLRENVGAFVNALLLAKPAGLKKTSKFAGYVNSFHMCSTMG 60
+ V +G + +E + +N+ A +N + GL ++ ++ TMG
Sbjct: 154 TRDKPYFQVLVGNEKMTDEQIVDNIEAVLNVVAKKYEKGLY-------HIKDAYVKLTMG 206
Query: 61 PSFPVSIQSLSR 72
P+ V + +
Sbjct: 207 PAVKVKKEKAKK 218
>3iz5_A 60S ribosomal protein L1 (L1P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_A
Length = 216
Score = 61.6 bits (150), Expect = 1e-13
Identities = 14/65 (21%), Positives = 28/65 (43%), Gaps = 7/65 (10%)
Query: 1 MDNTSNVHVGLGKVSLKEELLRENVGAFVNALLLAKPAGLKKTSKFAGYVNSFHMCSTMG 60
+ + V +G +S+ E+ +++N+ VN L+ + V ++ STMG
Sbjct: 158 LKKVLCMGVAVGNLSMDEKQIQQNIQMSVNFLVSLLKKNWQ-------NVRCLYVKSTMG 210
Query: 61 PSFPV 65
V
Sbjct: 211 KRVRV 215
>2zkr_5 60S ribosomal protein L10A; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 212
Score = 60.8 bits (148), Expect = 2e-13
Identities = 11/66 (16%), Positives = 25/66 (37%), Gaps = 7/66 (10%)
Query: 1 MDNTSNVHVGLGKVSLKEELLRENVGAFVNALLLAKPAGLKKTSKFAGYVNSFHMCSTMG 60
H +G + E + +N+ + L G +++ ++ +TMG
Sbjct: 154 SGERRTFHTRVGAEDMSAENIADNIDVILRRLHADLEKGPL-------NIDTVYVKTTMG 206
Query: 61 PSFPVS 66
P+ V+
Sbjct: 207 PAMEVA 212
>1mzp_A 50S ribosomal protein L1P; ribosome, RNA-protein complex; 2.65A
{Sulfolobus acidocaldarius} SCOP: e.24.1.1 PDB: 1pnu_5
1pny_5 1vor_7 1vou_7 1vow_7 1voy_7 1vp0_7 3e1b_Z 3e1d_Z
Length = 217
Score = 60.5 bits (147), Expect = 4e-13
Identities = 15/65 (23%), Positives = 26/65 (40%), Gaps = 8/65 (12%)
Query: 1 MDNTSNVHVGLGKVSLKEELLRENVGAFVNALLLAKPAGLKKTSKFAGYVNSFHMCSTMG 60
+ V V +G +K E L EN A +NA+ + + ++ +TMG
Sbjct: 159 TKDQPQVQVFIGTEDMKPEDLAENAIAVLNAIENKAKVET--------NLRNIYVKTTMG 210
Query: 61 PSFPV 65
+ V
Sbjct: 211 KAVKV 215
>3o58_A L10A, 60S ribosomal protein L1; ribosomal RNA and proteins,
ribosome; 4.00A {Saccharomyces cerevisiae} PDB: 3izc_A
3izs_A 1s1i_A 3o5h_A 2noq_G 3j0l_B 3j0o_B 3j0p_B 3j0q_B
3jyw_A
Length = 217
Score = 59.0 bits (143), Expect = 1e-12
Identities = 14/65 (21%), Positives = 28/65 (43%), Gaps = 7/65 (10%)
Query: 1 MDNTSNVHVGLGKVSLKEELLRENVGAFVNALLLAKPAGLKKTSKFAGYVNSFHMCSTMG 60
+ + V +G V ++E++L + VN + + V S + S+MG
Sbjct: 159 LKKVLCLAVAVGNVEMEEDVLVNQILMSVNFFVSLLKKNWQ-------NVGSLVVKSSMG 211
Query: 61 PSFPV 65
P+F +
Sbjct: 212 PAFRL 216
>4d9i_A Diaminopropionate ammonia-lyase; fold type II PLP-dependent
enzyme, tryptophan synthase beta like PLP-dependent
enzymes superfamily; HET: IT1; 2.00A {Escherichia coli}
PDB: 4d9g_A* 4d9n_A* 4d9k_A* 4d9m_A*
Length = 398
Score = 27.8 bits (62), Expect = 0.34
Identities = 7/21 (33%), Positives = 12/21 (57%)
Query: 8 HVGLGKVSLKEELLRENVGAF 28
G+ K+ +K+E R + AF
Sbjct: 56 LFGVKKILVKDESKRFGLNAF 76
>1elu_A L-cysteine/L-cystine C-S lyase; FES cluster biosynthesis,
pyridoxal 5'-phosphate, thiocystei aminoacrylate,
enzyme-product complex; HET: PDA; 1.55A {Synechocystis
SP} SCOP: c.67.1.3 PDB: 1elq_A* 1n2t_A* 1n31_A*
Length = 390
Score = 24.0 bits (53), Expect = 5.9
Identities = 4/30 (13%), Positives = 8/30 (26%), Gaps = 3/30 (10%)
Query: 5 SNVHVGLG---KVSLKEELLRENVGAFVNA 31
N + + LR+ + N
Sbjct: 45 ENGPFSIAANQHIQQLIAQLRQALAETFNV 74
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
0.317 0.130 0.367
Gapped
Lambda K H
0.267 0.0736 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,125,325
Number of extensions: 51593
Number of successful extensions: 101
Number of sequences better than 10.0: 1
Number of HSP's gapped: 90
Number of HSP's successfully gapped: 14
Length of query: 82
Length of database: 6,701,793
Length adjustment: 51
Effective length of query: 31
Effective length of database: 5,277,822
Effective search space: 163612482
Effective search space used: 163612482
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: 51 (23.4 bits)