BLASTP 2.2.18 [Mar-02-2008]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 0564.0082.p
         (106 letters)

Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF 
           2,715,099 sequences; 757,237,578 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gb|AAF77056.1| GlnB-like protein I; putative regulatory protein ...   142   3e-33
ref|NP_346895.1| Nitrogen regulatory protein PII (nitrogen fixat...   138   5e-32
gb|AAB63258.1| GlnB-like protein [Clostridium cellobioparum]          130   1e-29
ref|NP_987974.1| Nitrogen regulatory protein NifI1 [Methanococcu...   109   2e-23
ref|NP_662418.1| nitrogen regulatory protein, P-II family [Chlor...   108   5e-23

>gb|AAF77056.1| GlnB-like protein I; putative regulatory protein PII [Clostridium
           beijerinckii]
          Length = 108

 Score =  142 bits (357), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 61/106 (57%), Positives = 89/106 (83%)

Query: 1   MIKAIVRPEKADAVMAELLLAGFPSISKMDLLGRGKQKGIQVGTNHYNQISKKLLMIVIN 60
           MI+AI+RPE+   V++ELL AGFP ++KM + GRGKQKGI+VG  +Y+++ K++L+I + 
Sbjct: 3   MIRAIIRPERVSTVLSELLDAGFPEVTKMAVYGRGKQKGIKVGEIYYDELPKEMLLIAVK 62

Query: 61  DDEKEDVISIIMRTARTGEQGSFGDGKIFVLPVQEAYTISNGKSQL 106
           D++K+DVI +IMR +RTGE+G+FGDGKIFV P++E YT+S+GKS L
Sbjct: 63  DEDKDDVIKVIMRNSRTGEKGAFGDGKIFVAPIEEVYTVSSGKSGL 108


>ref|NP_346895.1| Nitrogen regulatory protein PII (nitrogen fixation nifHD)
           [Clostridium acetobutylicum]
 pir||H96930 nitrogen regulatory protein PII (nitrogen fixation nifHD)
           [imported] - Clostridium acetobutylicum
 gb|AAK78235.1| Nitrogen regulatory protein PII (nitrogen fixation nifHD)
           [Clostridium acetobutylicum]
          Length = 108

 Score =  138 bits (347), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 59/106 (55%), Positives = 93/106 (87%)

Query: 1   MIKAIVRPEKADAVMAELLLAGFPSISKMDLLGRGKQKGIQVGTNHYNQISKKLLMIVIN 60
           MIKAI+RP+K   V++EL  AGFP+++K  ++GRGKQ+G++VG  +Y++I K++L+IV+N
Sbjct: 3   MIKAILRPQKVTNVLSELSDAGFPAVTKFSVVGRGKQRGVKVGDIYYDEIPKEMLLIVVN 62

Query: 61  DDEKEDVISIIMRTARTGEQGSFGDGKIFVLPVQEAYTISNGKSQL 106
           D++K+DV++II + A+TGE+G+FGDGKIF++PV++AYTIS+GK+ L
Sbjct: 63  DEDKDDVVNIIAKNAKTGEKGAFGDGKIFIVPVEQAYTISSGKAGL 108


>gb|AAB63258.1| GlnB-like protein [Clostridium cellobioparum]
          Length = 105

 Score =  130 bits (326), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 63/106 (59%), Positives = 85/106 (80%), Gaps = 3/106 (2%)

Query: 1   MIKAIVRPEKADAVMAELLLAGFPSISKMDLLGRGKQKGIQVGTNHYNQISKKLLMIVIN 60
           +++AIVRPEK+ AVM+EL  A FP+I+KMD+ GRGKQKGI VG   Y++I K +L++V N
Sbjct: 3   LVRAIVRPEKSGAVMSEL--ARFPAITKMDVFGRGKQKGITVGEVTYDEIPKDMLLVVCN 60

Query: 61  DDEKEDVISIIMRTARTGEQGSFGDGKIFVLPVQEAYTISNGKSQL 106
           D++K+D++ II+RTARTG QG+FGDG+IFV  V+ AYTIS   S L
Sbjct: 61  DEDKDDLVKIIIRTARTG-QGTFGDGRIFVSAVESAYTISTAASGL 105


>ref|NP_987974.1| Nitrogen regulatory protein NifI1 [Methanococcus maripaludis S2]
 emb|CAF30410.1| Nitrogen regulatory protein NifI1 [Methanococcus maripaludis]
          Length = 105

 Score =  109 bits (273), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 52/99 (52%), Positives = 75/99 (75%), Gaps = 3/99 (3%)

Query: 1  MIKAIVRPEKADAVMAELLLAGFPSISKMDLLGRGKQKGIQVGTNHYNQISKKLLMIVIN 60
          MI+A+VRP KA+ V+  L  +G  +++KMD++GRGKQKGI++   +Y+++ K +LM+V+ 
Sbjct: 3  MIRAVVRPSKAEEVVDALAESGCVALTKMDVIGRGKQKGIKIDQIYYDELPKTMLMLVVE 62

Query: 61 DDEKEDVISIIMRTARTGEQGSFGDGKIFVLPVQEAYTI 99
          DD  E+VI +I +TA T   GSFGDGKIFV PV EAYT+
Sbjct: 63 DDAAENVIELITKTAYT---GSFGDGKIFVSPVDEAYTV 98


>ref|NP_662418.1| nitrogen regulatory protein, P-II family [Chlorobium tepidum TLS]
 gb|AAM72760.1| nitrogen regulatory protein, P-II family [Chlorobium tepidum TLS]
          Length = 116

 Score =  108 bits (269), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 53/102 (51%), Positives = 77/102 (75%), Gaps = 1/102 (0%)

Query: 1   MIKAIVRPEKADAVMAELLLAGFPSISKMDLLGRGKQKGIQVGTNHYNQISKKLLMIVIN 60
           MI+ IVRPEK   VM  LL AG+P+++K+ ++GRGKQ+G++VG   Y+++ K++L +V+ 
Sbjct: 3   MIRTIVRPEKVHDVMQGLLDAGYPAVTKISVVGRGKQRGLRVGDVVYDELPKEMLFLVVP 62

Query: 61  DDEKEDVISIIMRTARTGEQGSFGDGKIFVLPVQEAYTISNG 102
           D +K+ VI  IM  A+TG+ G FGDGKIFV  V+E YTIS+G
Sbjct: 63  DADKDFVIRAIMDNAKTGD-GKFGDGKIFVSAVEEVYTISSG 103


  Database: All non-redundant GenBank CDS
  translations+PDB+SwissProt+PIR+PRF
    Posted date:  Mar 24, 2004  1:53 AM
  Number of letters in database: 757,237,578
  Number of sequences in database:  2,715,099
  
Lambda     K      H
   0.317    0.136    0.366 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 2715099
Number of Hits to DB: 146,467,167
Number of extensions: 5108350
Number of successful extensions: 14846
Number of sequences better than 1.0e-05: 283
Number of HSP's gapped: 14756
Number of HSP's successfully gapped: 283
Length of query: 106
Length of database: 757,237,578
Length adjustment: 72
Effective length of query: 34
Effective length of database: 561,750,450
Effective search space: 19099515300
Effective search space used: 19099515300
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 (21.6 bits)
S2: 120 (50.8 bits)