RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254780406|ref|YP_003064819.1| putative ribosomal large
subunit pseudouridine synthase B [Candidatus Liberibacter asiaticus
str. psy62]
(354 letters)
>3dh3_A Ribosomal large subunit pseudouridine synthase F;
protein-RNA complex, S4 domain, alpha/beta protein,
isomerase, RNA-binding, rRNA processing; HET: FHU; 3.00A
{Escherichia coli} (A:64-290)
Length = 227
Score = 101 bits (252), Expect = 1e-22
Identities = 45/234 (19%), Positives = 92/234 (39%), Gaps = 15/234 (6%)
Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129
AE L +KP+G+V+ ++ R + D + RV +GRLD +++GL+ LTN G
Sbjct: 1 AEDLVLIALNKPVGIVS-TTEDGERDNIVDFVNHSK-RVFPIGRLDKDSQGLIFLTNHGD 58
Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189
L + + Y V + ++ + + G+ I G + +K +
Sbjct: 59 LVNKILRAGNDHEKEYLVTVDKPITEEFIRGMSAGVPILGTVTKKCK----VKKEAPFVF 114
Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK---KILREQLG 246
+ L +G NR+I+++ E F ++V +L R L + G R+++ L + +
Sbjct: 115 RITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIE 174
Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300
E P + ++ + + +S + +
Sbjct: 175 NSSSEVKPKAKAKPKT------AGIKRPVVKMEKTAEKGGRPASNGKRFTSPGR 222
>1ksk_A Ribosomal small subunit pseudouridine synthase A; RSUA,
lyase; 2.00A {Escherichia coli} (A:59-234)
Length = 176
Score = 101 bits (251), Expect = 2e-22
Identities = 40/176 (22%), Positives = 72/176 (40%), Gaps = 3/176 (1%)
Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130
R + +KP G V + DPD + ++ + ++ + GRLDI+T GL+L T+DG
Sbjct: 3 HGPRYFXLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLXTDDGQW 62
Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190
+ + P + Y V V D KG+ + + + V
Sbjct: 63 SHRITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPA--VLEVITPTQVR 120
Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQL 245
+ + EG+ ++K+ F V L R G L L G R ++++ + +
Sbjct: 121 LTISEGRYHQVKRXFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEIASVV 176
>2gml_A Ribosomal large subunit pseudouridine synthase F; RLUF,
ribosome, RNA modifying enzyme, isomerase; 2.60A
{Escherichia coli} (A:)
Length = 237
Score = 100 bits (248), Expect = 4e-22
Identities = 42/244 (17%), Positives = 86/244 (35%), Gaps = 15/244 (6%)
Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119
+ L +KP+G+V+ ++ R + D + RV +GRLD +++
Sbjct: 1 MGSSHHHHHHGSDLVLIALNKPVGIVS-TTEDGERDNIVDFVNHSK-RVFPIGRLDKDSQ 58
Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179
GL+ LTN G L + + Y V + ++ +G G +
Sbjct: 59 GLIFLTNHGDLVNKILRAGNDHEKEYLVTVDKPITEEF----IRGXSAGVPILGTVTKKC 114
Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK- 238
+K + + L +G NR+I++ E F ++V +L R L + G R+++
Sbjct: 115 KVKKEAPFVFRITLVQGLNRQIRRXCEHFGYEVKKLERTRIXNVSLSGIPLGEWRDLTDD 174
Query: 239 --KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296
L + + E P + + + + +S +
Sbjct: 175 ELIDLFKLIENSSSEVKPKAKAKPKT------AGIKRPVVKXEKTAEKGGRPASNGKRFT 228
Query: 297 KQKK 300
+
Sbjct: 229 SPGR 232
>1vio_A Ribosomal small subunit pseudouridine synthase A; structural
genomics, lyase; 1.59A {Haemophilus influenzae}
(A:58-243)
Length = 186
Score = 93.5 bits (231), Expect = 3e-20
Identities = 43/173 (24%), Positives = 79/173 (45%), Gaps = 3/173 (1%)
Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130
E + ++ +KP G V ++ D D + + ++ S GRLD++T GL+LLT+DG
Sbjct: 3 EEGQYFMLNKPQGCVCSNDDGDYPTIYQFFDYPLAGKLHSAGRLDVDTTGLVLLTDDGQW 62
Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190
+ + P + Y V V+++ +GI+++G L+ N +T
Sbjct: 63 SHRITSPKHHCEKTYLVTLADPVEENYSAACAEGILLRGEKEPTKPAKLEILDDYNVNLT 122
Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242
+ EG+ ++K++F KV L R G L L G R +++ +
Sbjct: 123 --ISEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEYRPLTQSEIE 173
>1v9k_A Ribosomal large subunit pseudouridine synthase C;
pseudouridine syntase, RNA binding, lyase; 2.00A
{Escherichia coli} (A:)
Length = 228
Score = 93.1 bits (230), Expect = 5e-20
Identities = 31/231 (13%), Positives = 60/231 (25%), Gaps = 33/231 (14%)
Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTNDG 128
E + + +KP G + + V RLD +T G+LL+
Sbjct: 7 EDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARFLELVHRLDRDTSGVLLVAKKR 66
Query: 129 GLARVLELPSTQW--LRVYRVRFHGQVDQDKLNLL------------KKGIVIQGICYGD 174
R L + + Y GQ ++ + V Q +
Sbjct: 67 SALRSLHEQLREKGXQKDYLALVRGQWQSHVKSVQAPLLKNILQSGERIVRVSQEGKPSE 126
Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234
+ ++ + V G+ +I+ ++ + R F AG+
Sbjct: 127 TRFKVEERYAFATLVRCSPVTGRTHQIRVHTQYAGHPIAFDDRYGDREFDRQLTEAGTGL 186
Query: 235 EVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285
L A + P + I + + R
Sbjct: 187 N-----------RLFLHAAALKFTHPGT------GEVXRIEAPXDEGLKRC 220
>1v9f_A Ribosomal large subunit pseudouridine synthase D; RNA
binding, lyase; 1.70A {Escherichia coli} (A:)
Length = 325
Score = 86.0 bits (211), Expect = 6e-18
Identities = 48/315 (15%), Positives = 91/315 (28%), Gaps = 43/315 (13%)
Query: 1 MKDKNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59
++ V EN QR+ + +A SR ++ I QRV VNG + ++ V+ +
Sbjct: 4 VQLTATVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQ 63
Query: 60 IEVDGVPLRKA-------------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106
+ ++ +A E + + +KP LV + TV + L +
Sbjct: 64 VAINAEIEEEARFEPQDIPLDIVYEDEDIIIINKPRDLVVHPGAGNPDGTVLNALLHYYP 123
Query: 107 RVIS------VGRLDINTEGLLLLTNDGGLARVLELPSTQW--LRVYRVRFHGQVDQDKL 158
+ V RLD +T GL+++ L + R Y G +
Sbjct: 124 PIADVPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGT 183
Query: 159 NL---------LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209
V + + + + L G+ +I+
Sbjct: 184 VDEPISRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHIT 243
Query: 210 WKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVR 269
+ P + + L + L PI S +
Sbjct: 244 HPLVGDPVYGGRPRPPKGASEAFISTLR------KFDRQALHATMLRLYHPI-SGIEME- 295
Query: 270 DRPNIISEVPDDFTR 284
+ +P D
Sbjct: 296 ----WHAPIPQDMVE 306
>2olw_A Ribosomal large subunit pseudouridine synthase E; bifurcated
beta sheet, isomerase; 1.60A {Escherichia coli}
(A:1-102,A:201-217)
Length = 119
Score = 82.7 bits (204), Expect = 7e-17
Identities = 29/111 (26%), Positives = 48/111 (43%), Gaps = 10/111 (9%)
Query: 28 RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTT 87
R+ + Q+ V + + TR+ L++KP ++
Sbjct: 2 RQFIISENTMQKTSFRNHQ-------VKRFSSQRSTRRKP-ENQPTRVILFNKPYDVLPQ 53
Query: 88 HSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPS 138
+D GR T+ + +P V + GRLD ++EGLL+LTN+G L L P
Sbjct: 54 FTDEAGRKTLKEFIP--VQGVYAAGRLDRDSEGLLVLTNNGALQARLTQPG 102
>2oml_A Ribosomal large subunit pseudouridine synthase E; bifurcated
beta sheet, thrombin-cleaved, isomerase; 1.20A
{Escherichia coli} (A:)
Length = 189
Score = 81.5 bits (200), Expect = 1e-16
Identities = 50/182 (27%), Positives = 86/182 (47%), Gaps = 17/182 (9%)
Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130
+ TR+ L++KP ++ +D GR T+ + +P GRLD ++EGLL+LTN+G L
Sbjct: 9 QPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGVYA--AGRLDRDSEGLLVLTNNGAL 66
Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------------- 176
L P + ++Y V+ G QD L L+ G+ +
Sbjct: 67 QARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWPRN 126
Query: 177 -VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235
+ + +W+ + L EG+NR+++++ + RLIR + G + L L G RE
Sbjct: 127 PPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWRE 186
Query: 236 VS 237
V+
Sbjct: 187 VT 188
>2i82_A Ribosomal large subunit pseudouridine synthase A; lyase/RNA
complex; HET: FOU; 2.05A {Escherichia coli} (A:)
Length = 217
Score = 76.9 bits (188), Expect = 4e-15
Identities = 21/184 (11%), Positives = 51/184 (27%), Gaps = 16/184 (8%)
Query: 58 DHIEVDGVPLR-KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLD 115
++ L + + + +KP GL++ + + SV RLD
Sbjct: 3 NYNPPQEPWLVILYQDDHIXVVNKPSGLLSVPGRLEEHKDSVXTRIQRDYPQAESVHRLD 62
Query: 116 INTEGLLLLTNDGGLARVLELP--STQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173
T G++++ R L+ + + Y R G + + I
Sbjct: 63 XATSGVIVVALTKAAERELKRQFREREPKKQYVARVWGHPSPAEGLVDLPLICDWPNRPK 122
Query: 174 DMQVTLDTQK------------GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221
+ + A V + G++ +++ + +
Sbjct: 123 QKVCYETGKPAQTEYEVVEYAADNTARVVLKPITGRSHQLRVHXLALGHPILGDRFYASP 182
Query: 222 PFQL 225
+
Sbjct: 183 EARA 186
>1dm9_A Hypothetical 15.5 KD protein in MRCA-PCKA intergenic region;
heat shock proteins, protein-RNA interactions, ribosome,
structural genomics; 2.00A {Escherichia coli} (A:)
Length = 133
Score = 70.5 bits (172), Expect = 3e-13
Identities = 15/131 (11%), Positives = 33/131 (25%), Gaps = 8/131 (6%)
Query: 6 IVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64
+ ++ R+ K + A +R MI +V NG + + + ++ G
Sbjct: 1 MKEKPAVEVRLDKWLWAARFYKTRALAREMIEGGKVHYNGQRSKPSKIVELNATLTLRQG 60
Query: 65 VPLRKAERTRL-WLYHKPIGLVTTHSDPDGRS----TVFDNLPSIF-SRVISVGRLD-IN 117
R + + + + + R D
Sbjct: 61 NDERTVIVKAITEQRRPASEAALLYEETAESVEKREKMALARKLNALTMPHPDRRPDKKE 120
Query: 118 TEGLLLLTNDG 128
LL +
Sbjct: 121 RRDLLRFKHGD 131
>1vio_A Ribosomal small subunit pseudouridine synthase A;
structural genomics, lyase; 1.59A {Haemophilus
influenzae} (A:1-57)
Length = 57
Score = 57.3 bits (139), Expect = 3e-09
Identities = 15/55 (27%), Positives = 26/55 (47%)
Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67
R+ K IA +R + + I Q VK+NG +++ +V + D I + L
Sbjct: 2 SLRLDKFIAENVGLTRSQATKAIRQSAVKINGEIVKSGSVQISQEDEIYFEDELL 56
>1ksk_A Ribosomal small subunit pseudouridine synthase A; RSUA,
lyase; 2.00A {Escherichia coli} (A:1-58)
Length = 58
Score = 56.1 bits (136), Expect = 7e-09
Identities = 18/53 (33%), Positives = 26/53 (49%)
Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67
R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL
Sbjct: 5 RLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPL 57
>3dh3_A Ribosomal large subunit pseudouridine synthase F;
protein-RNA complex, S4 domain, alpha/beta protein,
isomerase, RNA-binding, rRNA processing; HET: FHU;
3.00A {Escherichia coli} (A:1-63)
Length = 63
Score = 53.9 bits (130), Expect = 3e-08
Identities = 20/59 (33%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71
R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + E
Sbjct: 6 SVRLNKYISESGICSRREADRYIEQGNVFLNGKRA-TIGDQVKPGDVVKVNGQLIEPRE 63
>1p9k_A ORF, hypothetical protein; alfal motif, RNA-binding
protein, E.coli, montreal-kingston bacterial structural
genomics initiative, BSGI; NMR {Escherichia coli K12}
(A:)
Length = 79
Score = 50.1 bits (120), Expect = 4e-07
Identities = 10/64 (15%), Positives = 26/64 (40%), Gaps = 1/64 (1%)
Query: 6 IVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64
+ ++ G + S + + IA+ +VKV+G + R +++ + G
Sbjct: 13 FSLGKHPHVELCDLLKLEGWSESGAQAKIAIAEGQVKVDGAVETRKRCKIVAGQTVSFAG 72
Query: 65 VPLR 68
++
Sbjct: 73 HSVQ 76
>2jan_A Tyrosyl-tRNA synthetase; protein biosynthesis,
aminoacyl-tRNA synthetase, tyrrs, ligase, tyrosine,
RNA-binding, ATP-binding; 2.9A {Mycobacterium
tuberculosis} (A:345-432)
Length = 88
Score = 48.2 bits (115), Expect = 2e-06
Identities = 15/83 (18%), Positives = 31/83 (37%), Gaps = 9/83 (10%)
Query: 13 PQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71
P + ++ +G++ S+ R I + V VN I ++ S+D + + LR+ +
Sbjct: 11 PDGIVDLLVASGLSASKGAARRTIHEGGVSVNNIRVDNEEWVPQSSDFLHGRWLVLRRGK 70
Query: 72 RTRLWLYHKPIGLVTTHSDPDGR 94
R+ V
Sbjct: 71 RS----IA----GVERIGLEHHH 85
>2olw_A Ribosomal large subunit pseudouridine synthase E; bifurcated
beta sheet, isomerase; 1.60A {Escherichia coli}
(A:103-200)
Length = 98
Score = 45.4 bits (107), Expect = 1e-05
Identities = 20/94 (21%), Positives = 38/94 (40%), Gaps = 15/94 (15%)
Query: 143 RVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK---------------GSNA 187
++Y V+ G QD L L+ G+ + L + +
Sbjct: 5 KIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWPRNPPIRERKSIPTS 64
Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221
W+ + L EG+NR+++++ + RLIR + G
Sbjct: 65 WLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMG 98
>3hp7_A Hemolysin, putative; structural genomics, APC64019, PSI-2,
protein structure initiative; HET: MSE; 1.53A
{Streptococcus thermophilus lmg 18311} (A:1-65)
Length = 65
Score = 42.8 bits (101), Expect = 6e-05
Identities = 11/63 (17%), Positives = 26/63 (41%), Gaps = 3/63 (4%)
Query: 9 ENFTPQRVSKVIARAGIA-SRREVERMIAQQRV--KVNGILLERAAVNVMSTDHIEVDGV 65
+RV + + G+ +R + +R + V +NG ++ + +++ G
Sbjct: 2 NAXPKERVDVLAYKQGLFETREQAKRGVXAGLVVNVINGERYDKPGEKIDDGTELKLKGE 61
Query: 66 PLR 68
LR
Sbjct: 62 KLR 64
>1h3f_A Tyrosyl-tRNA synthetase; ligase, aminoacyl-tRNA
synthetase; HET: TYB; 2.0A {Thermus thermophilus}
(A:350-432)
Length = 83
Score = 35.8 bits (83), Expect = 0.008
Identities = 10/49 (20%), Positives = 24/49 (48%), Gaps = 1/49 (2%)
Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62
V+++ AG+ S E R+I + ++++G +L + V + +
Sbjct: 21 WVARLFTLAGLTPSNAEARRLIQNRGLRLDGEVLTDPMLQVDLSRPRIL 69
>1jil_A Tyrrs, tyrosyl-tRNA synthetase, tyrosyl-transfer;
truncation, structure based inhibitor design, ligase;
HET: 485; 2.20A {Staphylococcus aureus} (A:247-420)
Length = 174
Score = 34.6 bits (79), Expect = 0.022
Identities = 13/70 (18%), Positives = 29/70 (41%), Gaps = 1/70 (1%)
Query: 1 MKDKNIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59
KD V + + +V+ GI+ S+R+ + + +NG + + D
Sbjct: 94 FKDVPQVTLSNDTTNIVEVLIETGISPSKRQAREDVNNGAIYINGERQQDVNYALAPEDK 153
Query: 60 IEVDGVPLRK 69
I+ + +R+
Sbjct: 154 IDGEFTIIRR 163
>2ts1_A Tyrosyl-tRNA synthetase; ligase (synthetase); 2.30A
{Geobacillus stearothermophilus} (A:246-419)
Length = 174
Score = 33.8 bits (77), Expect = 0.032
Identities = 14/70 (20%), Positives = 28/70 (40%), Gaps = 1/70 (1%)
Query: 1 MKDKNIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59
KD + +++ AGI+ S+R+ I + VNG L+ + +
Sbjct: 94 FKDVPSFVHEGGDVPLVELLVSAGISPSKRQAREDIQNGAIYVNGERLQDVGAILTAEHR 153
Query: 60 IEVDGVPLRK 69
+E +R+
Sbjct: 154 LEGRFTVIRR 163
>2vqe_D 30S ribosomal protein S4; tRNA-binding, rRNA-binding,
metal-binding, zinc-finger, translation; HET: TM2 PAR;
2.5A {Thermus thermophilus} (D:100-193)
Length = 94
Score = 30.2 bits (68), Expect = 0.38
Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 1/49 (2%)
Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62
R+ V+ R G A SRR+ +++ + VNG ++ + V D I V
Sbjct: 1 RLDNVVYRLGFAVSRRQARQLVRHGHITVNGRRVDLPSYRVRPGDEIAV 49
>2cqj_A BRMS2, U3 small nucleolar ribonucleoprotein protein IMP3
homolog; S4 domain, structural genomics, NPPSFA; NMR
{Homo sapiens} (A:)
Length = 71
Score = 30.0 bits (68), Expect = 0.51
Identities = 9/57 (15%), Positives = 21/57 (36%), Gaps = 3/57 (5%)
Query: 9 ENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAA--VNVMSTDHIEV 62
+ +R+ V+ + +A + + Q V+V ++ A V D +
Sbjct: 3 SGSSGRRLPTVLLKLRMAQHLQAAVAFVEQGHVRVGPDVVTDPAFLVTRSMEDFVTW 59
>2k6p_A Uncharacterized protein HP_1423; alpha-L motif,
RNA-binding, unknown function; NMR {Helicobacter
pylori} (A:)
Length = 92
Score = 28.4 bits (63), Expect = 1.4
Identities = 12/49 (24%), Positives = 20/49 (40%), Gaps = 2/49 (4%)
Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62
R+ K + G+ R M V +NG +A+ V + D I +
Sbjct: 2 RIDKFLQSVGLVKRRVLATDMCNVGAVWLNGSCA-KASKEVKAGDTISL 49
>1p9y_A Trigger factor, TF; alpha-beta protein, isomerase; 2.15A
{Escherichia coli} (A:)
Length = 121
Score = 28.2 bits (63), Expect = 1.6
Identities = 15/81 (18%), Positives = 32/81 (39%), Gaps = 15/81 (18%)
Query: 174 DMQVTLDTQKGSNAWVTVGLREGK-NREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232
MQV+++T +G VT+ + +K V + +RI + G
Sbjct: 3 HMQVSVETTQGLGRRVTITIAADSIETAVKSELV----NVAKKVRID--GLRKG------ 50
Query: 233 TREVSKKILREQLGPHLLEEA 253
+V I+ ++ G + ++
Sbjct: 51 --KVPMNIVAQRYGASVRQDV 69
>3dhw_C Methionine import ATP-binding protein METN; ABC-transporter,
methionine uptake transporter, membrane protein,
amino-acid transport; 3.70A {Escherichia coli K12}
(C:246-343)
Length = 98
Score = 26.7 bits (59), Expect = 4.6
Identities = 13/82 (15%), Positives = 26/82 (31%), Gaps = 6/82 (7%)
Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKL--NLLKKGIVIQGICYGDMQVTLDTQKGSNA 187
R+ P T + + R+ F GQ L ++ V I M + G
Sbjct: 9 QERLQAEPFTDCVPMLRLEFTGQSVDAPLLSETARRFNVNNNIISAQMDYAGGVKFG--- 65
Query: 188 WVTVGLREGKNREIKKVFEFFN 209
+ + G ++ + +
Sbjct: 66 IMLTEM-HGTQQDTQAAIAWLQ 86
>3e4v_A NADH:FMN oxidoreductase like protein; YP_544701.1,
structural genomics, joint center for structural
genomics, JCSG; HET: MSE FMN; 1.40A {Methylobacillus
flagellatus KT} (A:)
Length = 186
Score = 26.1 bits (57), Expect = 7.4
Identities = 10/34 (29%), Positives = 13/34 (38%), Gaps = 7/34 (20%)
Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGR 94
E+ + L PI LV+T DGR
Sbjct: 5 ELPPENAYRI------LESGPIVLVSTR-GADGR 31
Database: mmdb70
Posted date: Jun 20, 2010 3:12 AM
Number of letters in database: 4,956,049
Number of sequences in database: 33,805
Lambda K H
0.318 0.134 0.385
Gapped
Lambda K H
0.267 0.0710 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 2,602,391
Number of extensions: 117932
Number of successful extensions: 277
Number of sequences better than 10.0: 1
Number of HSP's gapped: 264
Number of HSP's successfully gapped: 31
Length of query: 354
Length of database: 4,956,049
Length adjustment: 89
Effective length of query: 265
Effective length of database: 1,947,404
Effective search space: 516062060
Effective search space used: 516062060
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: 55 (25.0 bits)