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= 028964
(201 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3N1H|A Chain A, Crystal Structure Of Stwhy2
pdb|3N1I|A Chain A, Crystal Structure Of A Stwhy2-Ere32 Complex
pdb|3N1J|A Chain A, Crystal Structure Of A Stwhy2-Dt32 Complex
pdb|3N1K|A Chain A, Crystal Structure Of A Stwhy2-Cere32 Complex
pdb|3N1L|A Chain A, Crystal Structure Of A Stwhy2-Rcere32 Complex
Length = 178
Score = 224 bits (571), Expect = 2e-59, Method: Compositional matrix adjust.
Identities = 108/150 (72%), Positives = 128/150 (85%), Gaps = 2/150 (1%)
Query: 53 GSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDW 112
G GR+FAPY V+KGKAA S +P LPTF +LDSG +K+ R+GVI+LTF P++GERKYDW
Sbjct: 5 GKREGRVFAPYSVFKGKAALSAEPRLPTFNRLDSGGVKLNRRGVIMLTFWPSVGERKYDW 64
Query: 113 AKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANAD--GFFISL 170
K+Q FALS TEVGSL++MG RDSSEFFHDP+MLSSNAGQ+RKSLSIK NAD G+FISL
Sbjct: 65 EKRQLFALSATEVGSLISMGTRDSSEFFHDPSMLSSNAGQVRKSLSIKPNADGSGYFISL 124
Query: 171 NVANNILKTNERFVVPVSTAEFAVMKTACS 200
+V NN LKTN+RF VPV+TAEFAVM+TA S
Sbjct: 125 SVVNNNLKTNDRFTVPVTTAEFAVMRTAFS 154
>pdb|3R9Y|A Chain A, Crystal Structure Of Stwhy2 K67a (Form I)
pdb|3R9Z|A Chain A, Crystal Structure Of Stwhy2 K67a (Form Ii)
pdb|3RA0|A Chain A, Crystal Structure Of A Stwhy2 K67a-Dt32 Complex
Length = 178
Score = 222 bits (566), Expect = 9e-59, Method: Compositional matrix adjust.
Identities = 107/150 (71%), Positives = 127/150 (84%), Gaps = 2/150 (1%)
Query: 53 GSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDW 112
G GR+FAPY V+KG AA S +P LPTF +LDSG +K+ R+GVI+LTF P++GERKYDW
Sbjct: 5 GKREGRVFAPYSVFKGAAALSAEPRLPTFNRLDSGGVKLNRRGVIMLTFWPSVGERKYDW 64
Query: 113 AKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANAD--GFFISL 170
K+Q FALS TEVGSL++MG RDSSEFFHDP+MLSSNAGQ+RKSLSIK NAD G+FISL
Sbjct: 65 EKRQLFALSATEVGSLISMGTRDSSEFFHDPSMLSSNAGQVRKSLSIKPNADGSGYFISL 124
Query: 171 NVANNILKTNERFVVPVSTAEFAVMKTACS 200
+V NN LKTN+RF VPV+TAEFAVM+TA S
Sbjct: 125 SVVNNNLKTNDRFTVPVTTAEFAVMRTAFS 154
>pdb|1L3A|A Chain A, Structure Of The Plant Transcriptional Regulator Pbf-2
pdb|1L3A|B Chain B, Structure Of The Plant Transcriptional Regulator Pbf-2
pdb|1L3A|C Chain C, Structure Of The Plant Transcriptional Regulator Pbf-2
pdb|1L3A|D Chain D, Structure Of The Plant Transcriptional Regulator Pbf-2
Length = 227
Score = 145 bits (365), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 67/143 (46%), Positives = 101/143 (70%), Gaps = 2/143 (1%)
Query: 58 RIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQH 117
++F Y +YKGKAA +V+P P F LDSG K+ R+G+++L FAPA G R+YDW++KQ
Sbjct: 37 KVFVGYSIYKGKAALTVEPRSPEFSPLDSGAFKLSREGMVMLQFAPAAGVRQYDWSRKQV 96
Query: 118 FALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANAD--GFFISLNVANN 175
F+LS TE+GS++++G +DS EFFHDP S+ G++RK L ++ D G F +L+V N
Sbjct: 97 FSLSVTEIGSIISLGTKDSCEFFHDPNKGRSDEGRVRKVLKVEPLPDGSGHFFNLSVQNK 156
Query: 176 ILKTNERFVVPVSTAEFAVMKTA 198
++ +E +PV+ AEFAV+ +A
Sbjct: 157 LINLDENIYIPVTKAEFAVLVSA 179
>pdb|3TQQ|A Chain A, Structure Of The Methionyl-Trna Formyltransferase (Fmt)
From Coxiella Burnetii
Length = 314
Score = 27.7 bits (60), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 32/59 (54%), Gaps = 8/59 (13%)
Query: 75 DPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERK--YDWAK------KQHFALSPTEV 125
D +L + KL+ GD+K++++ T+A I +++ DW K +Q A +PT +
Sbjct: 176 DLLLESLAKLEKGDIKLEKQDEASATYASKIQKQEALIDWRKSAVEIARQVRAFNPTPI 234
>pdb|3QW3|A Chain A, Structure Of Leishmania Donovani Omp Decarboxylase
pdb|3QW3|B Chain B, Structure Of Leishmania Donovani Omp Decarboxylase
Length = 255
Score = 26.6 bits (57), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 34/133 (25%), Positives = 55/133 (41%), Gaps = 10/133 (7%)
Query: 47 HDVSAKGSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIG 106
H ++A +G P+ Y KA F VL S DL+ R G L A+
Sbjct: 106 HAITASPYMGSDSLQPFMRYPDKAVF----VLCKTSNKGSNDLQCLRVGDRYLY--EAVA 159
Query: 107 ER-KYDWAKKQHFAL--SPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANA 163
ER + W + L T+ +L + R + +F P + + G ++ SL A
Sbjct: 160 ERAEGPWNVNGNVGLVVGATDPVALARVRARAPTLWFLVPG-IGAQGGSLKASLDAGLRA 218
Query: 164 DGFFISLNVANNI 176
DG + +NV+ +
Sbjct: 219 DGSGMLINVSRGL 231
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
0.319 0.133 0.381
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,979,608
Number of Sequences: 62578
Number of extensions: 185882
Number of successful extensions: 366
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 359
Number of HSP's gapped (non-prelim): 8
length of query: 201
length of database: 14,973,337
effective HSP length: 94
effective length of query: 107
effective length of database: 9,091,005
effective search space: 972737535
effective search space used: 972737535
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)