RPS-BLAST 2.2.26 [Sep-21-2011]

Database: scop70_1_75 
           13,730 sequences; 2,407,596 total letters

Searching..................................................done

Query= 045554
         (323 letters)



>d2gyck1 d.41.4.2 (K:3-133) Ribosomal protein L16p {Escherichia coli
           [TaxId: 562]}
          Length = 131

 Score =  183 bits (466), Expect = 7e-59
 Identities = 73/129 (56%), Positives = 95/129 (73%), Gaps = 1/129 (0%)

Query: 185 PKRIKFPKQHRGRMTGKASRGNLICFGRYALQALEPAWITARQIEAGRRAMVRNVKRGGK 244
           PKR KF K H+GR  G A +G  + FG + L+A+    +TARQIEA RRAM R VKR GK
Sbjct: 2   PKRTKFRKMHKGRNRGLA-QGTDVSFGSFGLKAVGRGRLTARQIEAARRAMTRAVKRQGK 60

Query: 245 IWVRIFPDKPVTARPAETRMGSGKGSHAYWAAVVTPGKIIFEMSGVPENIARKAISIAAS 304
           IW+R+FPDKP+T +P   RMG GKG+  YW A++ PGK+++EM GVPE +AR+A  +AA+
Sbjct: 61  IWIRVFPDKPITEKPLAVRMGKGKGNVEYWVALIQPGKVLYEMDGVPEELAREAFKLAAA 120

Query: 305 KMPIKTQFV 313
           K+PIKT FV
Sbjct: 121 KLPIKTTFV 129


>d2j01q1 d.41.4.2 (Q:6-141) Ribosomal protein L16p {Thermus
           thermophilus [TaxId: 274]}
          Length = 136

 Score =  183 bits (465), Expect = 1e-58
 Identities = 72/127 (56%), Positives = 94/127 (74%)

Query: 187 RIKFPKQHRGRMTGKASRGNLICFGRYALQALEPAWITARQIEAGRRAMVRNVKRGGKIW 246
           R+K+ KQ RGR+ G    G+ + FG Y L ALEPAWITA+QIEA R AMVR+ +RGGKI+
Sbjct: 1   RMKYRKQQRGRLKGATKGGDYVAFGDYGLVALEPAWITAQQIEAARVAMVRHFRRGGKIF 60

Query: 247 VRIFPDKPVTARPAETRMGSGKGSHAYWAAVVTPGKIIFEMSGVPENIARKAISIAASKM 306
           +RIFPDKP T +P E RMG GKG+   + AVV PG+++FE++GV E  A +A+ IA  K+
Sbjct: 61  IRIFPDKPYTKKPLEVRMGKGKGNVEGYVAVVKPGRVMFEVAGVTEEQAMEALRIAGHKL 120

Query: 307 PIKTQFV 313
           PIKT+ V
Sbjct: 121 PIKTKIV 127


>d1jj2h_ d.41.4.1 (H:) Ribosomal protein L10e {Archaeon Haloarcula
           marismortui [TaxId: 2238]}
          Length = 167

 Score =  116 bits (292), Expect = 2e-32
 Identities = 30/130 (23%), Positives = 39/130 (30%), Gaps = 18/130 (13%)

Query: 204 RGNLICFGRYALQ----ALEPAWITARQIEAGRRAMVRNVKR-----GGKIWVRIFPDKP 254
            GN      Y  Q      +P  I    +EA R A  R V+        K  +R FP   
Sbjct: 33  MGNNGAGPTYPAQVELVVEKPVQIRHNALEAARVAANRYVQNSGAAANYKFRIRKFPFHV 92

Query: 255 VT---------ARPAETRMGSGKGSHAYWAAVVTPGKIIFEMSGVPENIARKAISIAASK 305
           +          A  A   M +  G     AA V     IF     P+    +A   A  K
Sbjct: 93  IRENKAAAAAAAAAAADGMRAPFGKPVGTAARVHGANHIFIAWVNPDPNVEEAWRRAKMK 152

Query: 306 MPIKTQFVMS 315
           +        S
Sbjct: 153 VTPTINIDSS 162


>d2pa2a1 d.41.4.1 (A:40-176) Ribosomal protein L10e {Human (Homo
           sapiens) [TaxId: 9606]}
          Length = 137

 Score =  112 bits (281), Expect = 3e-31
 Identities = 21/117 (17%), Positives = 42/117 (35%), Gaps = 16/117 (13%)

Query: 215 LQALEPAWITARQIEAGRRAMVRNVK-----RGGKIWVRIFPDKPVTARPAETRMGS--- 266
           + + E   +++  +EA R    + +       G  I VR+ P   +      +  G+   
Sbjct: 13  MVSDEYEQLSSEALEAARICANKYMVKSCGKDGFHIRVRLHPFHVIRINKMLSCAGADRL 72

Query: 267 ------GKGSHAYWAAVVTPGKIIFEMSGVPEN--IARKAISIAASKMPIKTQFVMS 315
                   G      A V  G++I  +    +N     +A+  A  K P + +  +S
Sbjct: 73  QTGMRGAFGKPQGTVARVHIGQVIMSIRTKLQNKEHVIEALRRAKFKFPGRQKIHIS 129


>d1vqoh1 d.41.4.1 (H:1-163) Ribosomal protein L10e {Archaeon
           Haloarcula marismortui [TaxId: 2238]}
          Length = 163

 Score =  103 bits (258), Expect = 2e-27
 Identities = 21/115 (18%), Positives = 40/115 (34%), Gaps = 17/115 (14%)

Query: 213 YALQALEPAWITARQIEAGRRAMVRNVKRGG------KIWVRIFPDKPVTARPA------ 260
            +L   E   +    +EA R +  R++ +        K+ +R FP + +           
Sbjct: 47  ISLIVEETVQLRHGSLEASRLSANRHLIKELGEEGDYKMTLRKFPHQVLRENKQATGAGA 106

Query: 261 ---ETRMGSGKGSHAYWAAVVTPGKIIFEMSGVPEN--IARKAISIAASKMPIKT 310
                 M +  G     AA V  G+ +F      E+    ++A   A +K+    
Sbjct: 107 DRVSDGMRAAFGKIVGTAARVQAGEQLFTAYCNVEDAEHVKEAFRRAYNKITPSC 161


>d1hw1a2 a.78.1.1 (A:79-230) Fatty acid responsive transcription
           factor FadR, C-terminal domain {Escherichia coli [TaxId:
           562]}
          Length = 152

 Score = 29.2 bits (64), Expect = 0.38
 Identities = 5/27 (18%), Positives = 10/27 (37%)

Query: 223 ITARQIEAGRRAMVRNVKRGGKIWVRI 249
            +    +     + R     G+IW R+
Sbjct: 122 CSEGAHDQVYETVRRYGHESGEIWHRM 148


>d1my7a_ b.1.18.1 (A:) p65 subunit of NF-kappa B (NFKB),
           dimerization domain {Human (Homo sapiens) [TaxId: 9606]}
          Length = 107

 Score = 27.7 bits (62), Expect = 0.72
 Identities = 12/45 (26%), Positives = 16/45 (35%), Gaps = 7/45 (15%)

Query: 74  RTPSNRDLKVQQSVGVMM-------GGRSFPLIFTNPNQNPNPNR 111
           RTP   D  +Q  V V M          S P+ F       + +R
Sbjct: 63  RTPPYADPSLQAPVRVSMQLRRPSDRELSEPMEFQYLPDTDDRHR 107


>d1nkga2 b.18.1.25 (A:338-508) Rhamnogalacturonase B, RhgB,
           C-terminal domain {Aspergillus aculeatus [TaxId: 5053]}
          Length = 171

 Score = 25.5 bits (56), Expect = 6.4
 Identities = 13/70 (18%), Positives = 21/70 (30%), Gaps = 13/70 (18%)

Query: 250 FPDKPVTARPAETRM----------GSGKGS---HAYWAAVVTPGKIIFEMSGVPENIAR 296
                +   P+++RM          GS   +    A + +V  P  I F  +      A 
Sbjct: 20  NAANQLRMHPSDSRMSSWGPLTYTVGSSALTDFPMAVFKSVNNPVTIKFTATSAQTGAAT 79

Query: 297 KAISIAASKM 306
             I    S  
Sbjct: 80  LRIGTTLSFA 89


  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
   0.320    0.134    0.390 

Gapped
Lambda     K      H
   0.267   0.0621    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,110,306
Number of extensions: 49927
Number of successful extensions: 124
Number of sequences better than 10.0: 1
Number of HSP's gapped: 115
Number of HSP's successfully gapped: 9
Length of query: 323
Length of database: 2,407,596
Length adjustment: 85
Effective length of query: 238
Effective length of database: 1,240,546
Effective search space: 295249948
Effective search space used: 295249948
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (24.4 bits)