RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy8289
         (91 letters)



>gnl|CDD|218280 pfam04825, Rad21_Rec8_N, N terminus of Rad21 / Rec8 like protein.
           This family represents a conserved N-terminal region
          found in eukaryotic cohesins of the Rad21, Rec8 and
          Scc1 families. Members of this family mediate sister
          chromatid cohesion during mitosis and meiosis, as part
          of the cohesin complex. Cohesion is necessary for
          homologous recombination (including double-strand break
          repair) and correct chromatid segregation. These
          proteins may also be involved in chromosome
          condensation. Dissociation at the metaphase to anaphase
          transition causes loss of cohesion and chromatid
          segregation.
          Length = 110

 Score = 82.7 bits (205), Expect = 2e-22
 Identities = 24/47 (51%), Positives = 33/47 (70%)

Query: 1  MFYAQFVLAKKGPLARIWLAAHWDKKLTKAHVFETNIEKSVDGILQP 47
          MFY+  +L KKGPLA +WLAA  +KKL++  + E +I KS + IL P
Sbjct: 1  MFYSHELLTKKGPLATVWLAATLEKKLSRKQILEVDIPKSCEEILNP 47


>gnl|CDD|185054 PRK15099, PRK15099, O-antigen translocase; Provisional.
          Length = 416

 Score = 26.1 bits (58), Expect = 3.1
 Identities = 7/24 (29%), Positives = 12/24 (50%)

Query: 4   AQFVLAKKGPLARIWLAAHWDKKL 27
           A  +L ++G +   +L   WD  L
Sbjct: 190 AGIMLIRRGTIPLSYLKPSWDNGL 213


>gnl|CDD|233250 TIGR01052, top6b, DNA topoisomerase VI, B subunit.  This model
           describes DNA topoisomerase VI, an archaeal type II DNA
           topoisomerase (DNA gyrase) [DNA metabolism, DNA
           replication, recombination, and repair].
          Length = 488

 Score = 25.9 bits (57), Expect = 3.1
 Identities = 16/35 (45%), Positives = 18/35 (51%), Gaps = 2/35 (5%)

Query: 34  ETNIEKSVDGILQPKFNQVTERLESRKVCPGGDNF 68
           E NIEK +  ILQP+F     R  S K   GG  F
Sbjct: 316 EENIEKGLKEILQPEFVGAVTR--SPKTYRGGIPF 348


>gnl|CDD|130920 TIGR01861, ANFD, nitrogenase iron-iron protein, alpha chain.  This
           model represents the all-iron variant of the nitrogenase
           component I alpha chain. Molybdenum-iron and vanadium
           iron forms are also found. The complete complex contains
           two alpha chains, two beta chains and two delta chains.
           The component I associates with component II also known
           as the iron protein which serves to provide electrons
           for component I [Central intermediary metabolism,
           Nitrogen fixation].
          Length = 513

 Score = 25.7 bits (56), Expect = 3.9
 Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 3/29 (10%)

Query: 46  QPKFNQVTERLESRKVC--PGGDNFEKHW 72
           +P+ +   ERL+ +KVC  PGG     HW
Sbjct: 316 KPELDWYKERLKGKKVCLWPGGSKLW-HW 343


>gnl|CDD|193501 cd03880, M28_QC_like, M28 Zn-Peptidase Glutaminyl Cyclase.
           Peptidase M28 family; Glutaminyl Cyclase (QC; EC
           2.3.2.5) subfamily. QC is involved in N-terminal
           glutamine cyclization of many endocrine peptides and is
           typically abundant in brain tissue. N-terminal glutamine
           residue cyclization is an important post-translational
           event in the processing of numerous bioactive proteins,
           including neuropeptides, hormones, and cytokines during
           their maturation in the secretory pathway. The
           N-terminal pGlu protects them from exopeptidase
           degradation and/or enables them to have proper
           conformation for binding to the receptors. QCs are
           highly conserved from yeast to human. In humans, several
           genetic diseases, such as osteoporosis, appear to result
           from mutations of the QC gene. N-terminal glutamate
           cyclization into pyroglutamate (pGlu) is a reaction that
           may be related to the formation of several
           plaque-forming peptides, such as amyloid-(A) peptides
           and collagen-like Alzheimer amyloid plaque component,
           which play a pivotal role in Alzheimer's disease.
          Length = 304

 Score = 25.6 bits (57), Expect = 4.4
 Identities = 10/29 (34%), Positives = 14/29 (48%), Gaps = 2/29 (6%)

Query: 7   VLAKKGPLA--RIWLAAHWDKKLTKAHVF 33
           ++A   P A   + LAAH+D K      F
Sbjct: 72  IIATLNPPAPRYLVLAAHYDSKYFPEGEF 100


>gnl|CDD|215141 PLN02252, PLN02252, nitrate reductase [NADPH].
          Length = 888

 Score = 25.0 bits (55), Expect = 6.3
 Identities = 5/10 (50%), Positives = 7/10 (70%)

Query: 71  HWFRIKVHPD 80
            WFR+KV+  
Sbjct: 452 CWFRVKVNVC 461


>gnl|CDD|182754 PRK10815, PRK10815, sensor protein PhoQ; Provisional.
          Length = 485

 Score = 24.6 bits (54), Expect = 9.0
 Identities = 7/11 (63%), Positives = 8/11 (72%), Gaps = 2/11 (18%)

Query: 13  PLARIWLAAHW 23
           PL  +WLAA W
Sbjct: 206 PL--LWLAAWW 214


  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
   0.321    0.136    0.451 

Gapped
Lambda     K      H
   0.267   0.0687    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,657,417
Number of extensions: 355861
Number of successful extensions: 273
Number of sequences better than 10.0: 1
Number of HSP's gapped: 273
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 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (24.3 bits)