RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy5872
         (91 letters)



>gnl|CDD|206052 pfam13881, Rad60-SLD_2, Ubiquitin-2 like Rad60 SUMO-like. 
          Length = 111

 Score =  112 bits (281), Expect = 7e-34
 Identities = 36/96 (37%), Positives = 51/96 (53%), Gaps = 6/96 (6%)

Query: 1  INLRLILVSGK-TKEFLFSPSDSAGDIAQHVFDNWPEDWSDEAVAKADILRLIYQGRFLH 59
          I L+  LV G     F FSP+ +  D+ + V   WP+D  +E     + ++LI  G+ L 
Sbjct: 3  IELKFRLVDGSDIGPFRFSPATTVADLKEKVLAQWPKDK-EEGPKSPNDVKLINAGKILE 61

Query: 60 SNVTLGALGLTCSKT----TVMHLVPRENLPEPNSQ 91
          +N TLG   L   +T     VMH+V R  LPEPNS+
Sbjct: 62 NNKTLGECRLPAGETPGGVIVMHVVVRPPLPEPNSE 97


>gnl|CDD|176364 cd01769, UBL, Ubiquitin-like domain of UBL.  UBLs function by
          remodeling the surface of their target proteins,
          changing their target's half-life, enzymatic activity,
          protein-protein interactions, subcellular localization
          or other properties. At least 10 different
          ubiquitin-like modifications exist in mammals, and
          attachment of different ubls to a target leads to
          different biological consequences. Ubl-conjugation
          cascades are initiated by activating enzymes, which
          also coordinate the ubls with their downstream
          pathways.
          Length = 69

 Score = 37.6 bits (88), Expect = 4e-05
 Identities = 20/74 (27%), Positives = 30/74 (40%), Gaps = 10/74 (13%)

Query: 9  SGKTKEFLFSPSDSAGDIAQHVFDNWPEDWSDEAVAKADILRLIYQGRFLHSNVTLGALG 68
          +GKT E   SP D+  ++   +                   RLIY G+ L  + TL   G
Sbjct: 6  TGKTFELEVSPDDTVAELKAKIAAKEGVPPEQ--------QRLIYAGKILKDDKTLSDYG 57

Query: 69 LTCSKTTVMHLVPR 82
          +     + +HLV R
Sbjct: 58 I--QDGSTLHLVLR 69


>gnl|CDD|214563 smart00213, UBQ, Ubiquitin homologues.  Ubiquitin-mediated
          proteolysis is involved in the regulated turnover of
          proteins required for controlling cell cycle
          progression.
          Length = 72

 Score = 33.0 bits (76), Expect = 0.003
 Identities = 19/79 (24%), Positives = 33/79 (41%), Gaps = 8/79 (10%)

Query: 1  INLRLILVSGKTKEFLFSPSDSAGDIAQHVFDNWPEDWSDEAVAKADILRLIYQGRFLHS 60
          I L +  + GKT      PSD+  ++ + + +              +  RLIY+G+ L  
Sbjct: 1  IELTVKTLDGKTITLEVKPSDTVSELKEKIAE--------LTGIPPEQQRLIYKGKVLED 52

Query: 61 NVTLGALGLTCSKTTVMHL 79
          + TL   G+    T  + L
Sbjct: 53 DRTLADYGIQDGSTIHLVL 71


>gnl|CDD|215813 pfam00240, ubiquitin, Ubiquitin family.  This family contains a
          number of ubiquitin-like proteins: SUMO (smt3
          homologue), Nedd8, Elongin B, Rub1, and Parkin. A
          number of them are thought to carry a distinctive
          five-residue motif termed the proteasome-interacting
          motif (PIM), which may have a biologically significant
          role in protein delivery to proteasomes and recruitment
          of proteasomes to transcription sites.
          Length = 69

 Score = 31.8 bits (73), Expect = 0.009
 Identities = 20/74 (27%), Positives = 31/74 (41%), Gaps = 8/74 (10%)

Query: 9  SGKTKEFLFSPSDSAGDIAQHVFDNWPEDWSDEAVAKADILRLIYQGRFLHSNVTLGALG 68
           GKT      PSD+  ++ + + D        E +   D  RLI+ G+ L  + TL   G
Sbjct: 4  DGKTITLEVDPSDTVSELKEKIEDK-------EGIP-VDQQRLIFSGKVLEDDTTLSEYG 55

Query: 69 LTCSKTTVMHLVPR 82
          +    T  + L  R
Sbjct: 56 IQDGSTLHLVLRLR 69


>gnl|CDD|148445 pfam06838, Alum_res, Aluminium resistance protein.  This family
           represents the aluminium resistance protein, which
           confers resistance to aluminium in bacteria. Structural
           characterisation has shown proteins in this family bind
           a pyridoxal-5'-phosphate cofactor, and that they belongs
           to the PLP dependent aminotransferase superfamily.
           Crystal packing analysis suggests that in solution, a
           tetramer may be the stable oligomeric form. This is in
           contrast to most other aminotransferases which form
           dimers (information from TOPSAN).
          Length = 405

 Score = 29.2 bits (66), Expect = 0.20
 Identities = 17/53 (32%), Positives = 25/53 (47%), Gaps = 4/53 (7%)

Query: 41  EAVAKADILRLIYQGRFLHSNVTLGAL--GLTCSKTTVMHLVPRENLPEPNSQ 91
           E  A    LR +YQG FL  +V   AL      ++  V+ L+    LP+ N +
Sbjct: 258 EGGATLGSLREMYQGLFLAPHVVGEALKGAHFTAR--VLELLGFPVLPKYNEK 308


>gnl|CDD|176404 cd01809, Scythe_N, Ubiquitin-like domain of Scythe protein.
          Scythe protein (also known as Bat3) is an apoptotic
          regulator that is highly conserved in eukaryotes and
          contains a ubiquitin-like domain near its N-terminus.
          Scythe binds reaper, a potent apoptotic inducer, and
          Scythe/Reaper are thought to signal apoptosis, in part
          through regulating the folding and activity of
          apoptotic signaling molecules.
          Length = 72

 Score = 28.0 bits (63), Expect = 0.23
 Identities = 14/33 (42%), Positives = 17/33 (51%), Gaps = 2/33 (6%)

Query: 50 RLIYQGRFLHSNVTLGALGLTCSKTTVMHLVPR 82
          RLIY GR L  + TL    +    T  +HLV R
Sbjct: 42 RLIYSGRVLKDDETLSEYKVEDGHT--IHLVKR 72


>gnl|CDD|220681 pfam10302, DUF2407, DUF2407 ubiquitin-like domain.  This is a
          family of proteins found in fungi. The function is not
          known. This domain is related to the ubiquitin domain.
          Length = 90

 Score = 27.2 bits (61), Expect = 0.51
 Identities = 9/19 (47%), Positives = 12/19 (63%)

Query: 48 ILRLIYQGRFLHSNVTLGA 66
           LRLIY GR L+ +  L +
Sbjct: 45 RLRLIYAGRLLNDSSKLAS 63


>gnl|CDD|226585 COG4100, COG4100, Cystathionine beta-lyase family protein involved
           in aluminum resistance [Inorganic ion transport and
           metabolism].
          Length = 416

 Score = 26.6 bits (59), Expect = 2.1
 Identities = 12/51 (23%), Positives = 21/51 (41%)

Query: 41  EAVAKADILRLIYQGRFLHSNVTLGALGLTCSKTTVMHLVPRENLPEPNSQ 91
           E  A    LR +YQG FL  +V   A+         +  +     P+ +++
Sbjct: 268 EGGATLYSLREMYQGLFLAPHVVSQAVKGAHFTARFLEKLGFPVNPKYDAK 318


>gnl|CDD|176393 cd01798, parkin_N, amino-terminal ubiquitin-like of parkin
          protein.  parkin_N  parkin protein is a RING-type E3
          ubiquitin ligase with an amino-terminal ubiquitin-like
          (Ubl) domain and an RBR signature consisting of two
          RING finger domains separated by an IBR/DRIL domain.
          Naturally occurring mutations in parkin are thought to
          cause the disease AR_JP (autosomal-recessive juvenile
          parkinsonism). Parkin binds the Rpn10 subunit of  26S
          proteasomes through its Ubl domain.
          Length = 70

 Score = 25.5 bits (56), Expect = 2.4
 Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 11/56 (19%)

Query: 36 EDWS----DEAVAK-----ADILRLIYQGRFLHSNVTLGALGLTCSKTTVMHLVPR 82
           D       E VAK      D LR+I+ G+ L +  T+        + +++H V R
Sbjct: 17 PDTDIKQLKEVVAKRQGVPPDQLRVIFAGKELRNTTTIQ--ECDLGQQSILHAVRR 70


>gnl|CDD|216407 pfam01278, Omptin, Omptin family.  The omptin family is a family
          of serine proteases.
          Length = 295

 Score = 25.9 bits (57), Expect = 3.0
 Identities = 21/65 (32%), Positives = 30/65 (46%), Gaps = 15/65 (23%)

Query: 8  VSGKTKEFLFSPSDSAGDIAQHVFDNWPEDW--SDEAVAKADILRLIYQGRFLHSNVTLG 65
          +SGKTKE ++   +    I+Q        DW   + A+ K DI   +Y        +TLG
Sbjct: 21 LSGKTKELVYDAPEGGRKISQL-------DWKIKNAAIIKGDISWDLYPF------LTLG 67

Query: 66 ALGLT 70
          A G T
Sbjct: 68 ASGWT 72


>gnl|CDD|176405 cd01810, ISG15_repeat2, ISG15 ubiquitin-like protein, second
          repeat of 2.  ISG15 is a ubiquitin-like protein
          containing two ubiquitin homology domains and becomes
          conjugated to a variety of proteins when cells are
          treated with type I interferon or lipopolysaccharide.
          Although ISG15 has properties similar to those of other
          ubiquitin-like molecules, it is a unique member of the
          ubiquitin-like superfamily, whose expression and
          conjugation to target proteins are tightly regulated by
          specific signaling pathways, indicating it may have
          specialized functions in the immune system.
          Length = 74

 Score = 24.8 bits (54), Expect = 4.4
 Identities = 12/35 (34%), Positives = 17/35 (48%)

Query: 45 KADILRLIYQGRFLHSNVTLGALGLTCSKTTVMHL 79
          +AD   L ++GR +     LG  GL    T  M+L
Sbjct: 35 QADQFWLSFEGRPMEDEHPLGEYGLKPGCTVFMNL 69


>gnl|CDD|236700 PRK10489, PRK10489, enterobactin exporter EntS; Provisional.
          Length = 417

 Score = 25.3 bits (56), Expect = 4.6
 Identities = 10/22 (45%), Positives = 12/22 (54%)

Query: 65  GALGLTCSKTTVMHLVPRENLP 86
           G+LG+T        LV RENL 
Sbjct: 124 GSLGVTALLAATPALVGRENLM 145


>gnl|CDD|180607 PRK06526, PRK06526, transposase; Provisional.
          Length = 254

 Score = 24.8 bits (54), Expect = 8.5
 Identities = 10/23 (43%), Positives = 14/23 (60%)

Query: 31  FDNWPEDWSDEAVAKADILRLIY 53
           F  W E + D+ VA A I RL++
Sbjct: 202 FGRWGEVFGDDVVAAAMIDRLVH 224


  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    0.407 

Gapped
Lambda     K      H
   0.267   0.0756    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,646,519
Number of extensions: 370338
Number of successful extensions: 321
Number of sequences better than 10.0: 1
Number of HSP's gapped: 319
Number of HSP's successfully gapped: 15
Length of query: 91
Length of database: 10,937,602
Length adjustment: 58
Effective length of query: 33
Effective length of database: 8,365,070
Effective search space: 276047310
Effective search space used: 276047310
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: 53 (24.1 bits)