RPS-BLAST 2.2.22 [Sep-27-2009]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= gi|254780345|ref|YP_003064758.1| transcription antitermination
protein NusB [Candidatus Liberibacter asiaticus str. psy62]
(170 letters)
>d1ey1a_ a.79.1.1 (A:) Antitermination factor NusB {Escherichia coli
[TaxId: 562]}
Length = 139
Score = 90.2 bits (223), Expect = 8e-20
Identities = 42/146 (28%), Positives = 68/146 (46%), Gaps = 14/146 (9%)
Query: 11 KLSHRRGIARLAAVQALYQIDIIGCSTTEIISEYETYRFCADTELDVESVYLHVDLEWFR 70
K + RR AR AVQALY + ++ + F A+ ++ VD+ +FR
Sbjct: 2 KPAARR-RARECAVQALYSWQLSQNDIADVEYQ-----FLAEQDVK------DVDVLYFR 49
Query: 71 VIIHGVMDRKQHIDLLISSCLTEKWSFSRLDMILCSILRAGVLELIECHSVPVEVIISEY 130
++ GV ++D L+ L L + ++LR + EL + VP +V I+E
Sbjct: 50 ELLAGVATNTAYLDGLMKPYL--SRLLEELGQVEKAVLRIALYELSKRSDVPYKVAINEA 107
Query: 131 VCIAHDFFYGDEPKFINAVLDKVSRK 156
+ +A F D KF+N VLDK +
Sbjct: 108 IELAKSFGAEDSHKFVNGVLDKAAPV 133
>d1eyva_ a.79.1.1 (A:) Antitermination factor NusB {Mycobacterium
tuberculosis [TaxId: 1773]}
Length = 131
Score = 84.8 bits (209), Expect = 3e-18
Identities = 39/138 (28%), Positives = 61/138 (44%), Gaps = 9/138 (6%)
Query: 16 RGIARLAAVQALYQIDIIGCSTTEIISEYETYRFCADTELDVESVYLHVDLEWFRVIIHG 75
R AR AV L++ ++ G S E++ L + + + G
Sbjct: 2 RHQARKRAVALLFEAEVRGISAAEVVDTRA--------ALAEAKPDIARLHPYTAAVARG 53
Query: 76 VMDRKQHIDLLISSCLTEKWSFSRLDMILCSILRAGVLELIECHSVPVEVIISEYVCIAH 135
V + HID LI++ W+ RL + +ILR V EL+ VP V++ E V +A
Sbjct: 54 VSEHAAHIDDLITAH-LRGWTLDRLPAVDRAILRVSVWELLHAADVPEPVVVDEAVQLAK 112
Query: 136 DFFYGDEPKFINAVLDKV 153
+ D P F+N VL +V
Sbjct: 113 ELSTDDSPGFVNGVLGQV 130
>d1tzva_ a.79.1.1 (A:) Antitermination factor NusB {Thermotoga
maritima [TaxId: 2336]}
Length = 141
Score = 82.5 bits (203), Expect = 2e-17
Identities = 42/141 (29%), Positives = 67/141 (47%), Gaps = 12/141 (8%)
Query: 16 RGIARLAAVQALYQIDIIGCSTTEIISEYETYRFCADTELDVESVYLHVDLEWFRVIIHG 75
R RLA +AL+Q + E I E ++ Y E R I G
Sbjct: 5 RRRMRLAVFKALFQHEFRRDEDLEQILEEI-----------LDETYDKKAKEDARRYIRG 53
Query: 76 VMDRKQHIDLLISSCLTEKWSFSRLDMILCSILRAGVLELIECHSVPVEVIISEYVCIAH 135
+ + ID LIS EKWS +RL ++ ++LR EL+ +P+EV I E + IA
Sbjct: 54 IKENLSMIDDLISRY-LEKWSLNRLSVVDRNVLRLATYELLFEKDIPIEVTIDEAIEIAK 112
Query: 136 DFFYGDEPKFINAVLDKVSRK 156
+ + KF+N +LD+++++
Sbjct: 113 RYGTENSGKFVNGILDRIAKE 133
>d1sqga1 a.79.1.3 (A:5-144) Ribosomal RNA small subunit
methyltransferase B, RsmB (Sun, Fmu/Fmv), N-terminal
domain {Escherichia coli [TaxId: 562]}
Length = 140
Score = 80.5 bits (198), Expect = 8e-17
Identities = 25/140 (17%), Positives = 50/140 (35%), Gaps = 16/140 (11%)
Query: 19 ARLAAVQALYQIDIIGCSTTEIISEYETYRFCADTELDVESVYLHVDLEWFRVIIHGVMD 78
R A QA+ Q+ G S + I+ + ++ D + + GV+
Sbjct: 3 LRSMAAQAVEQVVEQGQSLSNILPPLQQ-------KVS------DKDKALLQELCFGVLR 49
Query: 79 RKQHIDLLISSCLTEKWSFSRLDMILCSILRAGVLELIECHSVPVEVIISEYVCIAHDFF 138
+D LI+ + + ++ G+ + + +P ++E V A
Sbjct: 50 TLSQLDWLINKL--MARPMTGKQRTVHYLIMVGLYQ-LLYTRIPPHAALAETVEGAIAIK 106
Query: 139 YGDEPKFINAVLDKVSRKEE 158
IN VL + R++E
Sbjct: 107 RPQLKGLINGVLRQFQRQQE 126
>d1e88a1 g.14.1.2 (A:42-101) Fibronectin {Human (Homo sapiens)
[TaxId: 9606]}
Length = 60
Score = 25.9 bits (57), Expect = 2.1
Identities = 8/19 (42%), Positives = 10/19 (52%)
Query: 35 CSTTEIISEYETYRFCADT 53
CSTT + + Y FC D
Sbjct: 41 CSTTSNYEQDQKYSFCTDH 59
>d1eaka4 g.14.1.2 (A:278-335) Gelatinase A (MMP-2) type II modules
{Human (Homo sapiens) [TaxId: 9606]}
Length = 58
Score = 25.8 bits (57), Expect = 2.2
Identities = 8/19 (42%), Positives = 10/19 (52%)
Query: 35 CSTTEIISEYETYRFCADT 53
C TTE + Y FC +T
Sbjct: 40 CGTTEDYDRDKKYGFCPET 58
>d1kuta_ d.143.1.1 (A:) SAICAR synthase {Thermotoga maritima [TaxId:
2336]}
Length = 224
Score = 25.8 bits (56), Expect = 2.2
Identities = 14/74 (18%), Positives = 27/74 (36%)
Query: 69 FRVIIHGVMDRKQHIDLLISSCLTEKWSFSRLDMILCSILRAGVLELIECHSVPVEVIIS 128
+ H V+ K I ++ L + S + L + L++I P+EV++
Sbjct: 22 GDGLKHDVLTGKGSICAETTAILMKYLSEKGIKTHLVEYIPPRTLKVIPLKMFPLEVVVR 81
Query: 129 EYVCIAHDFFYGDE 142
+ YG
Sbjct: 82 LKKAGSFVRRYGGA 95
>d1v8da_ c.140.1.1 (A:) Hypothetical protein TT1679 {Thermus
thermophilus [TaxId: 274]}
Length = 193
Score = 24.7 bits (54), Expect = 4.9
Identities = 5/15 (33%), Positives = 11/15 (73%)
Query: 29 QIDIIGCSTTEIISE 43
+ ++G ST+E++ E
Sbjct: 25 SLFVLGGSTSEVLGE 39
>d1eaza_ b.55.1.1 (A:) Tapp1 {Human (Homo sapiens) [TaxId: 9606]}
Length = 103
Score = 24.4 bits (52), Expect = 6.3
Identities = 6/46 (13%), Positives = 19/46 (41%), Gaps = 8/46 (17%)
Query: 35 CSTTEIISEYETYRFCADTELDVESVYLHVDLEWFRVIIHGVMDRK 80
+ EI++ T+ AD+ ++ W + + ++ ++
Sbjct: 66 DNLFEIVTTSRTFYVQADSPEEMH--------SWIKAVSGAIVAQR 103
>d1l6ja5 g.14.1.2 (A:332-390) Gelatinase B (MMP-9) type II modules
{Human (Homo sapiens) [TaxId: 9606]}
Length = 59
Score = 23.9 bits (52), Expect = 7.7
Identities = 6/18 (33%), Positives = 9/18 (50%)
Query: 35 CSTTEIISEYETYRFCAD 52
C+TT + + FC D
Sbjct: 42 CATTSNFDSDKKWGFCPD 59
>d1xria_ c.45.1.1 (A:) Putative phosphatase At1g05000 {Thale cress
(Arabidopsis thaliana) [TaxId: 3702]}
Length = 151
Score = 23.6 bits (50), Expect = 8.8
Identities = 7/42 (16%), Positives = 12/42 (28%), Gaps = 1/42 (2%)
Query: 17 GIARLAAVQALYQIDIIGCSTTEIISEYETYRFCADTELDVE 58
G R + + + T I EY+ + D
Sbjct: 102 GKHRTGCLVGCLRK-LQKWCLTSIFDEYQRFAAAKARVSDQR 142
Database: scop70_1_75
Posted date: Mar 27, 2010 6:21 PM
Number of letters in database: 2,407,596
Number of sequences in database: 13,730
Lambda K H
0.325 0.139 0.416
Gapped
Lambda K H
0.267 0.0443 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 655,405
Number of extensions: 29504
Number of successful extensions: 78
Number of sequences better than 10.0: 1
Number of HSP's gapped: 72
Number of HSP's successfully gapped: 17
Length of query: 170
Length of database: 2,407,596
Length adjustment: 79
Effective length of query: 91
Effective length of database: 1,322,926
Effective search space: 120386266
Effective search space used: 120386266
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 50 (23.8 bits)