BLASTP 2.2.21 [Jun-14-2009]

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= 0053.0022.p         (99 letters)

Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF excluding environmental samples
from WGS projects 
           15,459,386 sequences; 5,307,515,862 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

ref|ZP_07028227.1| histone family protein DNA-binding protein [A...   180   6e-44
ref|ZP_08629621.1| histone-like DNA-binding protein [Bradyrhizob...   176   9e-43
ref|YP_002288905.1| DNA-binding protein HU 1 [Oligotropha carbox...   176   1e-42
ref|NP_948294.1| DNA-binding protein HU-alpha [Rhodopseudomonas ...   173   6e-42
ref|ZP_01047413.1| Histone-like DNA-binding protein [Nitrobacter...   173   1e-41

>ref|ZP_07028227.1| histone family protein DNA-binding protein [Afipia sp. 1NLS2]
 gb|EFI50217.1| histone family protein DNA-binding protein [Afipia sp. 1NLS2]
          Length = 99

 Score =  180 bits (457), Expect = 6e-44,   Method: Compositional matrix adjust.
 Identities = 93/99 (93%), Positives = 96/99 (96%)

Query: 1  MAKKAATPATITLKHLAAAIAEEQELSKKQAEAILTDMVTRITKHLKKGERIRIVGLGIL 60
          MAKKAATPAT+TLKHLAAA+AEE ELSKK AEAILTDMVT+ITKHLKKGERIRIVGLGIL
Sbjct: 1  MAKKAATPATVTLKHLAAALAEEHELSKKTAEAILTDMVTKITKHLKKGERIRIVGLGIL 60

Query: 61 QVRKRAARMGRNPATGEQIHIKASKKVAFRAAKELKEAV 99
          QVRKRAARMGRNPATGE IHIKASKKVAFRAAKELKEAV
Sbjct: 61 QVRKRAARMGRNPATGEAIHIKASKKVAFRAAKELKEAV 99


>ref|ZP_08629621.1| histone-like DNA-binding protein [Bradyrhizobiaceae bacterium
          SG-6C]
 gb|EGP08114.1| histone-like DNA-binding protein [Bradyrhizobiaceae bacterium
          SG-6C]
          Length = 99

 Score =  176 bits (446), Expect = 9e-43,   Method: Compositional matrix adjust.
 Identities = 92/99 (92%), Positives = 95/99 (95%)

Query: 1  MAKKAATPATITLKHLAAAIAEEQELSKKQAEAILTDMVTRITKHLKKGERIRIVGLGIL 60
          MAKKAATPATITLKHLAAA+AEE ELSKK AEAILTD+VT+ITKHLKKGERIRIVGLGIL
Sbjct: 1  MAKKAATPATITLKHLAAALAEEHELSKKTAEAILTDLVTKITKHLKKGERIRIVGLGIL 60

Query: 61 QVRKRAARMGRNPATGEQIHIKASKKVAFRAAKELKEAV 99
          QVRKRAARMGRNPATGE I IKASKKVAFRAAKELKEAV
Sbjct: 61 QVRKRAARMGRNPATGEAIQIKASKKVAFRAAKELKEAV 99


>ref|YP_002288905.1| DNA-binding protein HU 1 [Oligotropha carboxidovorans OM5]
 ref|YP_004633049.1| histone-like DNA-binding protein [Oligotropha carboxidovorans
          OM5]
 gb|ACI93040.1| DNA-binding protein HU 1 [Oligotropha carboxidovorans OM5]
 gb|AEI03231.1| histone-like DNA-binding protein [Oligotropha carboxidovorans
          OM4]
 gb|AEI06808.1| histone-like DNA-binding protein [Oligotropha carboxidovorans
          OM5]
          Length = 99

 Score =  176 bits (445), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 88/99 (88%), Positives = 96/99 (96%)

Query: 1  MAKKAATPATITLKHLAAAIAEEQELSKKQAEAILTDMVTRITKHLKKGERIRIVGLGIL 60
          MAKKAATPAT+TLKHLAAA+AEE ELSKK AEAILTD+VT++TKHLKKG+RIRIVGLGIL
Sbjct: 1  MAKKAATPATVTLKHLAAALAEEHELSKKTAEAILTDLVTKVTKHLKKGDRIRIVGLGIL 60

Query: 61 QVRKRAARMGRNPATGEQIHIKASKKVAFRAAKELKEAV 99
          QVRKRAARMGRNPATGE IHIKASKKVAFRA+KELKEA+
Sbjct: 61 QVRKRAARMGRNPATGEAIHIKASKKVAFRASKELKEAI 99


>ref|NP_948294.1| DNA-binding protein HU-alpha [Rhodopseudomonas palustris CGA009]
 ref|YP_001992279.1| histone family protein DNA-binding protein [Rhodopseudomonas
           palustris TIE-1]
 ref|YP_004108810.1| histone family protein DNA-binding protein [Rhodopseudomonas
           palustris DX-1]
 emb|CAE28394.1| possible DNA-binding protein hu-alpha (NS2) (HU-2)
           [Rhodopseudomonas palustris CGA009]
 gb|ACF01804.1| histone family protein DNA-binding protein [Rhodopseudomonas
           palustris TIE-1]
 gb|ADU44077.1| histone family protein DNA-binding protein [Rhodopseudomonas
           palustris DX-1]
          Length = 103

 Score =  173 bits (439), Expect = 6e-42,   Method: Compositional matrix adjust.
 Identities = 92/103 (89%), Positives = 95/103 (92%), Gaps = 4/103 (3%)

Query: 1   MAKKA----ATPATITLKHLAAAIAEEQELSKKQAEAILTDMVTRITKHLKKGERIRIVG 56
           MAKKA    ATPAT+TLKHLAAA+AEE ELSKKQ EAIL DMVTRITKHLKKGERIRIVG
Sbjct: 1   MAKKAVAKSATPATVTLKHLAAALAEEHELSKKQTEAILGDMVTRITKHLKKGERIRIVG 60

Query: 57  LGILQVRKRAARMGRNPATGEQIHIKASKKVAFRAAKELKEAV 99
           LGILQVRKRAARMGRNPATGEQI IKASKKVAFRAAKELKEA+
Sbjct: 61  LGILQVRKRAARMGRNPATGEQIQIKASKKVAFRAAKELKEAI 103


>ref|ZP_01047413.1| Histone-like DNA-binding protein [Nitrobacter sp. Nb-311A]
 gb|EAQ34684.1| Histone-like DNA-binding protein [Nitrobacter sp. Nb-311A]
          Length = 112

 Score =  173 bits (438), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 88/99 (88%), Positives = 95/99 (95%)

Query: 1   MAKKAATPATITLKHLAAAIAEEQELSKKQAEAILTDMVTRITKHLKKGERIRIVGLGIL 60
           MAKKAATP+T+TLKHLAAA+AE+ ELSKK AEAILTDMVTRITKHLKKG+RIRIVGLGIL
Sbjct: 14  MAKKAATPSTVTLKHLAAALAEDHELSKKAAEAILTDMVTRITKHLKKGDRIRIVGLGIL 73

Query: 61  QVRKRAARMGRNPATGEQIHIKASKKVAFRAAKELKEAV 99
           QVRKRAAR GRNPATGE+I IKASKKVAFRAAKELKEA+
Sbjct: 74  QVRKRAARKGRNPATGEEIQIKASKKVAFRAAKELKEAI 112