BLASTP 2.2.26 [Sep-21-2011]
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= 002099
(967 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3T5V|B Chain B, Sac3:thp1:sem1 Complex
pdb|3T5V|E Chain E, Sac3:thp1:sem1 Complex
Length = 455
Score = 32.0 bits (71), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 27/46 (58%)
Query: 189 LNTIIEGESLMNDGTAIVVYQLFFQMVLGKSFGWGAIIKFLAQVSL 234
LN + +++ +GT I+ Y + ++LGK WG + FL+Q ++
Sbjct: 251 LNLPLTNQAITRNGTRILNYMIPTGLILGKMVKWGPLRPFLSQETI 296
>pdb|3H3Z|A Chain A, Crystal Structure Of A Putative Cyclic Nucleotide Binding
Protein (Spoa0323) From Ruegeria Pomeroyi Dss-3 At 2.35
A Resolution
pdb|3H3Z|B Chain B, Crystal Structure Of A Putative Cyclic Nucleotide Binding
Protein (Spoa0323) From Ruegeria Pomeroyi Dss-3 At 2.35
A Resolution
Length = 235
Score = 31.6 bits (70), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 39/88 (44%), Gaps = 4/88 (4%)
Query: 767 GVTLYREGSKPSGIWLISNGVVKWTSKSIRNKHSLHPVFTHGSNLGLYEVLIGKPYMSDM 826
G TL+ + K I ++ +G VK + ++ VFT G + G L PY +
Sbjct: 40 GETLFLQEEKAQAIHVVIDGWVKLFRXTPTGSEAVVSVFTRGESFGEAVALRNTPY--PV 97
Query: 827 VTDSVVLC--FFIESDKILSILRSDPAV 852
++V C I S +S+ R DP +
Sbjct: 98 SAEAVTPCEVXHIPSPVFVSLXRRDPEI 125
>pdb|2EEN|A Chain A, Structure Of Ph1819 Protein From Pyrococcus Horikoshii Ot3
pdb|2EEN|B Chain B, Structure Of Ph1819 Protein From Pyrococcus Horikoshii Ot3
Length = 183
Score = 31.2 bits (69), Expect = 2.6, Method: Composition-based stats.
Identities = 29/86 (33%), Positives = 47/86 (54%), Gaps = 6/86 (6%)
Query: 657 EDARKFLEDV-RVNFPQVLHVVKTRQVTY--SVLNHLIDYIQNLEKVGLLEE--KEMLHL 711
ED K+ E + R+ F +VL VVKTR+ Y + +D ++ L K +E KE +
Sbjct: 87 EDVDKYFELLDRLGFKEVLKVVKTREKYYVEKGVTITLDEVEGLGKFIEIETLVKEKDEI 146
Query: 712 HDAVQSDLKRLLRNPPLVKFPKISDL 737
+AV+ L+++LR + KF + S L
Sbjct: 147 PEAVEK-LEKILRELGVEKFERRSYL 171
>pdb|3FX3|A Chain A, Structure Of A Putative Camp-Binding Regulatory Protein
From Silicibacter Pomeroyi Dss-3
pdb|3FX3|B Chain B, Structure Of A Putative Camp-Binding Regulatory Protein
From Silicibacter Pomeroyi Dss-3
Length = 237
Score = 30.8 bits (68), Expect = 3.3, Method: Composition-based stats.
Identities = 24/88 (27%), Positives = 39/88 (44%), Gaps = 4/88 (4%)
Query: 767 GVTLYREGSKPSGIWLISNGVVKWTSKSIRNKHSLHPVFTHGSNLGLYEVLIGKPYMSDM 826
G TL+ + K I ++ +G VK + ++ VFT G + G L PY +
Sbjct: 42 GETLFLQEEKAQAIHVVIDGWVKLFRXTPTGSEAVVSVFTRGESFGEAVALRNTPY--PV 99
Query: 827 VTDSVVLC--FFIESDKILSILRSDPAV 852
++V C I S +S+ R DP +
Sbjct: 100 SAEAVTPCEVXHIPSPVFVSLXRRDPEI 127
>pdb|3SHR|A Chain A, Crystal Structure Of Cgmp-Dependent Protein Kinase Reveals
Novel Site Of Interchain Communication
pdb|3SHR|B Chain B, Crystal Structure Of Cgmp-Dependent Protein Kinase Reveals
Novel Site Of Interchain Communication
Length = 299
Score = 30.4 bits (67), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 26/117 (22%), Positives = 51/117 (43%), Gaps = 7/117 (5%)
Query: 728 LVKFPKISDLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSGIWLISNGV 787
L+K + + + + P + LP + L +E +G + R+G++ ++IS G
Sbjct: 149 LIKHTEYMEFLKSVPTFQSLPEEILSKLADVLEETHYENGEYIIRQGARGDTFFIISKGK 208
Query: 788 VKWTSKSIRNKHSLHPVFTHGSNLGLY---EVLIGKP-YMSDMVTDSVVLCFFIESD 840
V T + N+ PVF G + + L G+ ++++ V C I+ D
Sbjct: 209 VNVTREDSPNE---DPVFLRTLGKGDWFGEKALQGEDVRTANVIAAEAVTCLVIDRD 262
>pdb|1VFF|A Chain A, Beta-Glycosidase From Pyrococcus Horikoshii
Length = 423
Score = 30.4 bits (67), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 26/109 (23%), Positives = 52/109 (47%), Gaps = 2/109 (1%)
Query: 649 IEESKVEGEDARKFLEDVRVNFPQVLHVVKTRQVTYSV-LNHLIDYIQNLEKVGLLEEKE 707
IE S++ E+ KF ED + + +++ ++ TR +T V L+H + ++K G L E+
Sbjct: 71 IEWSRLFPEE-NKFNEDAFMKYREIIDLLLTRGITPLVTLHHFTSPLWFMKKGGFLREEN 129
Query: 708 MLHLHDAVQSDLKRLLRNPPLVKFPKISDLISAHPLLRELPPSVREPLE 756
+ H ++ + L + + F + + L PP +R P +
Sbjct: 130 LKHWEKYIEKVAELLEKVKLVATFNEPMVYVMMGYLTAYWPPFIRSPFK 178
>pdb|2ZPA|A Chain A, Crystal Structure Of Trna(Met) Cytidine Acetyltransferase
pdb|2ZPA|B Chain B, Crystal Structure Of Trna(Met) Cytidine Acetyltransferase
Length = 671
Score = 29.6 bits (65), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 30/68 (44%), Gaps = 6/68 (8%)
Query: 572 LASNELCDWRGLKDNVSFPNYYKFLQTSMFPQKLITYFTVERLE-----FACSICAAFLR 626
LAS+E DW + + + P S FP+ L+T TV+ E F CA F
Sbjct: 250 LASDEQADWLVVDEAAAIPAPLLHQLVSRFPRTLLTT-TVQGYEGTGRGFLLKFCARFPH 308
Query: 627 AHKIARQQ 634
H+ QQ
Sbjct: 309 LHRFELQQ 316
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.323 0.139 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,443,149
Number of Sequences: 62578
Number of extensions: 980917
Number of successful extensions: 1987
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1983
Number of HSP's gapped (non-prelim): 15
length of query: 967
length of database: 14,973,337
effective HSP length: 108
effective length of query: 859
effective length of database: 8,214,913
effective search space: 7056610267
effective search space used: 7056610267
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 56 (26.2 bits)