RPS-BLAST 2.2.26 [Sep-21-2011]

Database: CDD.v3.10 
           44,354 sequences; 10,937,602 total letters

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

Query= psy14159
         (264 letters)



>gnl|CDD|227489 COG5160, ULP1, Protease, Ulp1 family [Posttranslational
           modification, protein turnover, chaperones].
          Length = 578

 Score = 92.3 bits (229), Expect = 4e-21
 Identities = 40/115 (34%), Positives = 60/115 (52%), Gaps = 20/115 (17%)

Query: 105 GISINTEDYACLDKEQFINDVIIDFYLGFLLQEMATPHIREKTHIFSTFFYKRLTQKPTR 164
            I I  +D+  L    ++ND IIDFY+  L +       RE+ H+F+TFFY +L+     
Sbjct: 380 SIEITNQDFKRLRNGDWLNDTIIDFYMKLLSKISKNTSKREQVHLFNTFFYTKLS----- 434

Query: 165 KISGSIEGDPHISAAKKRHSRVQSWTKNINVFEKDFIVVPINSNAHWFLAIICFP 219
                          ++ +S V+ WTK  ++F K +I +PIN + HWFLAII  P
Sbjct: 435 ---------------RRGYSGVRRWTKKTDIFSKKYIFIPINISYHWFLAIIDNP 474


>gnl|CDD|217278 pfam02902, Peptidase_C48, Ulp1 protease family, C-terminal
           catalytic domain.  This domain contains the catalytic
           triad Cys-His-Asn.
          Length = 216

 Score = 63.7 bits (155), Expect = 3e-12
 Identities = 32/105 (30%), Positives = 54/105 (51%), Gaps = 5/105 (4%)

Query: 120 QFINDVIIDFYLGFLL-QEMATPHIREKTHIFSTFFYKRLTQKPTRKISGSIEGDPHISA 178
           +++ND +IDFYL  L  +  +  +  E+ H  ++FFY +LT+          +       
Sbjct: 1   EWLNDTVIDFYLKLLAHRLESEDYKNERVHFLNSFFYSKLTKLFPDFKKCKSKKSFKWGK 60

Query: 179 AKKRHSRVQSWTKNIN---VFEKDFIVVPINSNA-HWFLAIICFP 219
            K  ++ V+ WT+ +N   +F+ D I +PIN +  HW L II  P
Sbjct: 61  KKDFYNGVRRWTRKVNKKWLFDVDIIYIPINWDGKHWVLLIINLP 105


>gnl|CDD|215622 PLN03189, PLN03189, Protease specific for SMALL UBIQUITIN-RELATED
           MODIFIER (SUMO); Provisional.
          Length = 490

 Score = 52.2 bits (125), Expect = 1e-07
 Identities = 36/121 (29%), Positives = 52/121 (42%), Gaps = 21/121 (17%)

Query: 101 YKPTGISINTEDYACLDKEQFINDVIIDFYLGFLLQ-EMATPHIREKTHIFSTFFYKRLT 159
           ++ + I I  E   CL    ++ND +I+ YL  L + E   P    K H F+TFFYK+L 
Sbjct: 283 HENSNIDITGEILRCLKPGAWLNDEVINLYLELLKEREAREPKKFLKCHFFNTFFYKKLV 342

Query: 160 QKPTRKISGSIEGDPHISAAKKRHSRVQSWT--KNINVFEK--DFIVVPINSNAHWFLAI 215
                              +   +  V+ WT  K +       D I VPI+   HW LA+
Sbjct: 343 S----------------GKSGYDYKAVRRWTTQKKLGYHLIDCDKIFVPIHQEIHWTLAV 386

Query: 216 I 216
           I
Sbjct: 387 I 387


>gnl|CDD|216239 pfam01007, IRK, Inward rectifier potassium channel. 
          Length = 336

 Score = 31.1 bits (71), Expect = 0.57
 Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 1/33 (3%)

Query: 120 QFINDVIID-FYLGFLLQEMATPHIREKTHIFS 151
           Q I   II+ F +G +  +MA P  R +T IFS
Sbjct: 119 QSILGCIINAFMIGCIFAKMARPKKRAETLIFS 151


>gnl|CDD|219942 pfam08626, TRAPPC9-Trs120, Transport protein Trs120 or TRAPPC9,
           TRAPP II complex subunit.  This region is found at the N
           terminal of Saccharomyces cerevisiae Trs120 protein.
           Trs120 is a subunit of the multiprotein complex TRAPP
           (transport particle protein) which functions in ER to
           Golgi traffic. Trs120 is specific to the larger TRAPP
           complex, TRAPP II, along with Trs65p and
           Trs130p(TRAPPC10). It is suggested that Trs120p is
           required for the stability of the Trs130p subunit,
           suggesting that these two proteins might interact in
           some way. It is likely that there is a complex function
           for TRAPP II in multiple pathways.
          Length = 1183

 Score = 28.6 bits (63), Expect = 4.4
 Identities = 10/52 (19%), Positives = 20/52 (38%)

Query: 150 FSTFFYKRLTQKPTRKISGSIEGDPHISAAKKRHSRVQSWTKNINVFEKDFI 201
             ++ YK +T +    I+ S      ++ A KR S  +    N  +     +
Sbjct: 176 LESYSYKNITLRSPGSITDSAVLTKTLNNANKRLSSFKVTLLNTPLDSSLSL 227


>gnl|CDD|177328 PHA01929, PHA01929, putative scaffolding protein.
          Length = 306

 Score = 27.3 bits (60), Expect = 7.7
 Identities = 11/30 (36%), Positives = 13/30 (43%)

Query: 74  PPELRNVNSAAPPIPAPVSQPVQTIYIYKP 103
           PP L  + +  PP  AP  QP   I    P
Sbjct: 9   PPGLAGLVANVPPAAAPTPQPNPVIQPQAP 38


>gnl|CDD|171522 PRK12468, flhB, flagellar biosynthesis protein FlhB; Reviewed.
          Length = 386

 Score = 27.7 bits (61), Expect = 8.1
 Identities = 31/123 (25%), Positives = 50/123 (40%), Gaps = 19/123 (15%)

Query: 148 HIFSTFFYKRLTQKPTRKISGSIEGDPHISAAKKRHSRVQSWTKNI-NVFEKDFIVVPIN 206
            I S     R+T++  R    + EGDPH+    ++  R  +  + + +V + D IV    
Sbjct: 212 QITSHIKKLRMTKQDIRDEFKNQEGDPHVKGRIRQQQRAMARRRMMVDVPKADVIV---T 268

Query: 207 SNAHWFLAI------ICFPGL--KGCETPEGRAVEECQRFRSLRKRERIKLDEMQKTGRT 258
           +  H+ +A+      +  P +  KG       A     R R L    RI L E     R 
Sbjct: 269 NPTHYAVALQYNESKMSAPKVLAKG-------AGAVALRIRELGAEHRIPLLEAPPLARA 321

Query: 259 LYR 261
           L+R
Sbjct: 322 LFR 324


  Database: CDD.v3.10
    Posted date:  Mar 20, 2013  7:55 AM
  Number of letters in database: 10,937,602
  Number of sequences in database:  44,354
  
Lambda     K      H
   0.318    0.135    0.404 

Gapped
Lambda     K      H
   0.267   0.0511    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,827,249
Number of extensions: 1307709
Number of successful extensions: 1118
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1110
Number of HSP's successfully gapped: 15
Length of query: 264
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 169
Effective length of database: 6,723,972
Effective search space: 1136351268
Effective search space used: 1136351268
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: 58 (26.6 bits)