RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254780470|ref|YP_003064883.1| translation initiation factor
IF-1 [Candidatus Liberibacter asiaticus str. psy62]
(110 letters)
>1hr0_W Translation initiation factor; ribosomal subunit, ribosome,
IF1; 3.20A {Escherichia coli} (W:)
Length = 71
Score = 83.9 bits (208), Expect = 8e-18
Identities = 36/107 (33%), Positives = 49/107 (45%), Gaps = 40/107 (37%)
Query: 3 KEETLEFSGIVSELLPNANFRVKLITNDDDSSADCKLDSKVKSNFSESGSESGNDGVDPI 62
+++T+ G+V+E LPNA FRVKL
Sbjct: 3 EKDTIRTEGVVTEALPNATFRVKL------------------------------------ 26
Query: 63 SYLDN-AVVIAYTAGRMRKHRIRISLGDKVKVAMNPYDMTRARITYR 108
D+ ++AY +G+MR H IRI GD+V V + PYD TR RI YR
Sbjct: 27 ---DSGPEILAYISGKMRMHYIRILPGDRVVVEITPYDPTRGRIVYR 70
>1ah9_A IF1, initiation factor 1; ribosome binding, protein-RNA
interaction, OB fold; NMR {Escherichia coli} (A:)
Length = 71
Score = 81.2 bits (201), Expect = 4e-17
Identities = 34/108 (31%), Positives = 48/108 (44%), Gaps = 38/108 (35%)
Query: 3 KEETLEFSGIVSELLPNANFRVKLITNDDDSSADCKLDSKVKSNFSESGSESGNDGVDPI 62
KE+ +E G V E LPN FRV+L
Sbjct: 2 KEDNIEMQGTVLETLPNTMFRVEL------------------------------------ 25
Query: 63 SYLDNAVVIAYTAGRMRKHRIRISLGDKVKVAMNPYDMTRARITYRFK 110
+ VV A+ +G+MRK+ IRI GDKV V + PYD+++ RI +R +
Sbjct: 26 --ENGHVVTAHISGKMRKNYIRILTGDKVTVELTPYDLSKGRIVFRSR 71
>3i4o_A Translation initiation factor IF-1; cytoplasm, protein
biosynthesis; 1.47A {Mycobacterium tuberculosis} (A:)
Length = 79
Score = 79.7 bits (197), Expect = 1e-16
Identities = 34/111 (30%), Positives = 51/111 (45%), Gaps = 39/111 (35%)
Query: 1 MPKEE-TLEFSGIVSELLPNANFRVKLITNDDDSSADCKLDSKVKSNFSESGSESGNDGV 59
M K++ +E G V E LPNA FR++L
Sbjct: 7 MAKKDGAIEVEGRVVEPLPNAMFRIEL--------------------------------- 33
Query: 60 DPISYLDNAVVIAYTAGRMRKHRIRISLGDKVKVAMNPYDMTRARITYRFK 110
+ V+A+ +G+MR+H IRI D+V V ++PYD++R RI YR+K
Sbjct: 34 -----ENGHKVLAHISGKMRQHYIRILPEDRVVVELSPYDLSRGRIVYRYK 79
>1jt8_A EIF-1A, probable translation initiation factor 1A; beta
barrel, translation factor; NMR {Methanocaldococcus
jannaschii} (A:)
Length = 102
Score = 56.7 bits (137), Expect = 1e-09
Identities = 20/111 (18%), Positives = 35/111 (31%), Gaps = 40/111 (36%)
Query: 1 MPKEETLEFSGIVSELLPNANFRVKLITNDDDSSADCKLDSKVKSNFSESGSESGNDGVD 60
+P++E E GI+ ++L + RV+
Sbjct: 14 IPRKEENEILGIIEQMLGASRVRVRC---------------------------------- 39
Query: 61 PISYLDNAVVIAYTAGRMRKHRIRISLGDKVKVAMNPYDM-TRARITYRFK 110
LD + GR++ RI + GD V V + I +R+
Sbjct: 40 ----LDGKTRLGRIPGRLKN-RIWVREGDVVIVKPWEVQGDQKCDIIWRYT 85
>1d7q_A Translation initiation factor 1A; OB-fold, beta-barrel,
RNA-binding protein; NMR {Homo sapiens} (A:)
Length = 143
Score = 56.8 bits (137), Expect = 1e-09
Identities = 13/110 (11%), Positives = 31/110 (28%), Gaps = 39/110 (35%)
Query: 1 MPKEETLEFSGIVSELLPNANFRVKLITNDDDSSADCKLDSKVKSNFSESGSESGNDGVD 60
+ +E + V ++L N
Sbjct: 25 LVFKEDGQEYAQVIKMLGNGRLEAMCF--------------------------------- 51
Query: 61 PISYLDNAVVIAYTAGRMRKHRIRISLGDKVKVAMNPYDMTRARITYRFK 110
D + + G++RK ++ I+ D + V + Y +A + ++
Sbjct: 52 -----DGVKRLCHIRGKLRK-KVWINTSDIILVGLRDYQDNKADVILKYN 95
>2oqk_A Putative translation initiation factor EIF-1A; malaria,
eukaryotic initiation factor (EIF), SGC, structural
genomics; 1.80A {Cryptosporidium parvum iowa II} (A:)
Length = 117
Score = 56.3 bits (136), Expect = 1e-09
Identities = 14/110 (12%), Positives = 31/110 (28%), Gaps = 39/110 (35%)
Query: 1 MPKEETLEFSGIVSELLPNANFRVKLITNDDDSSADCKLDSKVKSNFSESGSESGNDGVD 60
+ +E + G V L N
Sbjct: 26 LVFKEEGQEYGQVQRXLGNGRLDAYCF--------------------------------- 52
Query: 61 PISYLDNAVVIAYTAGRMRKHRIRISLGDKVKVAMNPYDMTRARITYRFK 110
D + + G+ RK ++ ++ GD V V++ + ++ I ++
Sbjct: 53 -----DGQKRLCHIRGKXRK-KVWVNPGDIVLVSLRDFQDSKGDIILKYT 96
>1n6u_A Interferon-alpha/beta receptor beta chain; immunoglobulin
fold, fibronectin fold, two-domain structure, immune
system; NMR {Homo sapiens} (A:106-212)
Length = 107
Score = 27.5 bits (61), Expect = 0.64
Identities = 15/55 (27%), Positives = 24/55 (43%), Gaps = 2/55 (3%)
Query: 1 MPKEETLEFSGIVSELLPNANFRVKLITNDDDSSADCKLDSKVKSNFSESGSESG 55
+ + F+ I+ +L+PN N+ V + D A K S +K G ES
Sbjct: 53 IKGNMSGNFTYIIDKLIPNTNYCVSVYLEHSDEQAVIK--SPLKCTLLPPGQESE 105
>2z1d_A Hydrogenase expression/formation protein HYPD; [NIFE]
hydrogenase maturation, [4Fe-4S] cluster, thiol redox;
HET: CSW; 2.07A {Thermococcus kodakarensis KOD1}
(A:69-192,A:261-346)
Length = 210
Score = 27.0 bits (60), Expect = 0.99
Identities = 7/35 (20%), Positives = 14/35 (40%)
Query: 59 VDPISYLDNAVVIAYTAGRMRKHRIRISLGDKVKV 93
+ P+ + +I A + I + GD K+
Sbjct: 2 ITPVEDIVAMQLIMRKAREEGEEIILTTFGDMYKI 36
>3eno_A Putative O-sialoglycoprotein endopeptidase; hydrolase,
metal-binding, metalloprotease, protease, zinc, keops
complex, ATPase, metal ION binding; 3.02A {Thermoplasma
acidophilum} (A:1-126,A:288-334)
Length = 173
Score = 26.9 bits (59), Expect = 1.1
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 66 DNAVVIAYTAGRMRKHRIRISLGD 89
DN ++IA A M K +R+S+ +
Sbjct: 129 DNGIMIAQAALLMYKSGVRMSVEE 152
>2ivn_A O-sialoglycoprotein endopeptidase; UP1 keops complex, Fe/Zn
dependent nucleotide phosphatase, metalloprotease,
hypothetical protein, zinc; HET: ANP; 1.65A {Pyrococcus
abyssi} PDB: 2ivo_A 2ivp_A* (A:1-118,A:283-330)
Length = 166
Score = 26.5 bits (58), Expect = 1.2
Identities = 12/44 (27%), Positives = 17/44 (38%), Gaps = 4/44 (9%)
Query: 66 DNAVVIAYTAGRMRKHRIRISLGDKVKVAMNP-YDMTRARITYR 108
DN +IAYT RM K I L + + + I +
Sbjct: 121 DNGAMIAYTGLRMYKAGISFRLEE---TIVKQKFRTDEVEIVWH 161
>3en9_A Glycoprotease, O-sialoglycoprotein endopeptidase/protein
kinase; endopeptidase activity, protein kinase activity;
HET: TBR; 2.67A {Methanocaldococcus jannaschii} PDB:
3enh_A* 2vwb_A* (A:1-125,A:287-326)
Length = 165
Score = 26.4 bits (58), Expect = 1.4
Identities = 8/24 (33%), Positives = 13/24 (54%)
Query: 66 DNAVVIAYTAGRMRKHRIRISLGD 89
DN +IA+ M K+ +SL +
Sbjct: 128 DNGAMIAWLGLLMHKNGRWMSLDE 151
>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity
clamp, DNA sliding clamp, AAA+ ATPase, DNA polymerase;
HET: ATG ADP; 2.85A {Saccharomyces cerevisiae}
(A:395-516)
Length = 122
Score = 26.3 bits (58), Expect = 1.7
Identities = 8/35 (22%), Positives = 15/35 (42%), Gaps = 4/35 (11%)
Query: 30 DDDSSADCKLDSKVKSNFSESGSESGNDGVDPISY 64
D ++ K+ + VKS F + N P++
Sbjct: 90 DVTTAIIKKIPATVKSGF----TRKYNSMTHPVAI 120
>2ckz_B C25, DNA-directed RNA polymerase III 25 KD polypeptide;
multiprotein complex, nucleotidyltransferase, nuclear
protein, hypothetical protein; 3.2A {Saccharomyces
cerevisiae} (B:81-218)
Length = 138
Score = 25.3 bits (55), Expect = 2.7
Identities = 5/58 (8%), Positives = 17/58 (29%), Gaps = 5/58 (8%)
Query: 53 ESGNDGVDPISYLDNAVV-----IAYTAGRMRKHRIRISLGDKVKVAMNPYDMTRARI 105
+D P + L A+ + ++ + +K++ + +
Sbjct: 23 GIFDDIFIPQNMLFEGCYYTPEESAWIWPMDEETKLYFDVNEKIRFRIEREVFVDVKP 80
>3csq_A Morphogenesis protein 1; hydrolase, infection, late protein;
1.80A {Bacteriophage phi-29} (A:166-334)
Length = 169
Score = 25.5 bits (55), Expect = 2.8
Identities = 6/70 (8%), Positives = 15/70 (21%), Gaps = 3/70 (4%)
Query: 41 SKVKSNFSESGSESGNDGVDPISYLDNAVVIAYTAGR---MRKHRIRISLGDKVKVAMNP 97
+ + S S G +D + + A ++ +V
Sbjct: 11 INISQGENGSFSHKGTLCIDFVGKTEKYPYYAPCDCTCVWRGDASAYLAWTSDKEVMCAD 70
Query: 98 YDMTRARITY 107
+
Sbjct: 71 GSVRYITWVN 80
>1gji_A C-REL protein, C-REL proto-oncogene protein; NF-KB/DNA
complex, transcription factor, C-REL homodimer,
transcription/DNA complex; 2.85A {Gallus gallus}
(A:1-175)
Length = 175
Score = 25.2 bits (55), Expect = 3.4
Identities = 13/99 (13%), Positives = 32/99 (32%), Gaps = 10/99 (10%)
Query: 18 PNANFRVKLITNDDD--------SSADCKLDSKVKSNFSESGSESGNDGVDPISYLDNAV 69
R L+T ++ DC+ E S + I +
Sbjct: 50 GKVKIRTTLVTKNEPYKPHPHDLVGKDCRDGYYEAEFGPERRVLSFQN--LGIQCVKKKD 107
Query: 70 VIAYTAGRMRKHRIRISLGDKVKVAMNPYDMTRARITYR 108
+ + R+ K ++ ++ ++ YD+ R+ ++
Sbjct: 108 LKESISLRISKKINPFNVPEEQLHNIDEYDLNVVRLCFQ 146
>1foe_A T-lymphoma invasion and metastasis inducing protein 1; DBL
homology domain, pleckstrin homology domain, GTPase,
guanine nucleotide exchange factor; 2.80A {Mus
musculus} (A:212-377)
Length = 166
Score = 24.8 bits (54), Expect = 4.7
Identities = 8/28 (28%), Positives = 10/28 (35%)
Query: 37 CKLDSKVKSNFSESGSESGNDGVDPISY 64
K SK K S S + DP +
Sbjct: 64 YKDGSKQKKKLVGSHRLSIYEEWDPFRF 91
>2qhr_L 13F6-1-2 FAB fragment V lambda X light chain;
immunologlobulin fold, antibody-peptide complex, immune
system/viral protein complex; 2.00A {Mus musculus} PDB:
3ffd_B (L:1-118)
Length = 118
Score = 24.2 bits (53), Expect = 6.7
Identities = 4/25 (16%), Positives = 6/25 (24%)
Query: 32 DSSADCKLDSKVKSNFSESGSESGN 56
+ FS S S +
Sbjct: 51 KKDGSHSTGDGIPDRFSGSSSGADR 75
>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain
with oligonucleotide binding fold, central GTP binding
domain; 1.60A {Bacillus subtilis} (A:1-75)
Length = 75
Score = 23.9 bits (52), Expect = 7.1
Identities = 10/48 (20%), Positives = 17/48 (35%), Gaps = 2/48 (4%)
Query: 59 VDPISYLDNAVVIAYTAGRMRKHRIRISLGDKVKVAMNPYDMTRARIT 106
V S + V+ G RK++I +GD V + +
Sbjct: 25 VLDESEDSDKVIQCRGRGIFRKNKITPLVGDYVVY--QAENDKEGYLM 70
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
0.315 0.132 0.365
Gapped
Lambda K H
0.267 0.0714 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 784,950
Number of extensions: 30103
Number of successful extensions: 105
Number of sequences better than 10.0: 1
Number of HSP's gapped: 101
Number of HSP's successfully gapped: 35
Length of query: 110
Length of database: 4,956,049
Length adjustment: 65
Effective length of query: 45
Effective length of database: 2,758,724
Effective search space: 124142580
Effective search space used: 124142580
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 (21.5 bits)
S2: 50 (23.1 bits)