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= psy11729
(281 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1BNK|A Chain A, Human 3-Methyladenine Dna Glycosylase Complexed To Dna
Length = 216
Score = 177 bits (449), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 98/258 (37%), Positives = 133/258 (51%), Gaps = 50/258 (19%)
Query: 18 LDQAFFDQPCIDLANALLGKYLVRRLSCGTLLIGKIVETESYLGVEDRASHSYNNRRTPR 77
L FFDQP + LA A LG+ LVRRL GT L G+IVETE+YLG ED A+HS R+TPR
Sbjct: 7 LGLEFFDQPAVPLARAFLGQVLVRRLPNGTELRGRIVETEAYLGPEDEAAHSRGGRQTPR 66
Query: 78 NEPMYMKPGTIYVYFTYGMYHCFNLSSQESGGAVLIRSLEPVHGLDIMNRLRNQFNENQN 137
N M+MKPGT+YVY YGMY C N+SSQ G VL+R+LEP+ GL+ M +R+Q +
Sbjct: 67 NRGMFMKPGTLYVYIIYGMYFCMNISSQGDGACVLLRALEPLEGLETMRHVRSQLRKG-- 124
Query: 138 KSKRNNHLPNSQNNEETHSQSNRNSPAKKQKLIKSKQTLSSNDWDQPNKKSKLQDRDLCN 197
L+DR+LC+
Sbjct: 125 -----------------------------------------------TASRVLKDRELCS 137
Query: 198 GPSKLCISMDITIEYLNKRHICESEEMWVQDLDCESNITIVESSRIGIGDFAKEWKAKLL 257
GPSKLC ++ I + ++R + + E +W++ E + V ++ A EW K L
Sbjct: 138 GPSKLCQALAINKSF-DQRDLAQDEAVWLERGPLEPSEPAVVAAARVGVGHAGEWARKPL 196
Query: 258 RFYILGNKCVSKTDKKME 275
RFY+ G+ VS D+ E
Sbjct: 197 RFYVRGSPWVSVVDRVAE 214
>pdb|3QI5|A Chain A, Crystal Structure Of Human Alkyladenine Dna Glycosylase In
Complex With 3,N4-Ethenocystosine Containing Duplex Dna
pdb|3QI5|B Chain B, Crystal Structure Of Human Alkyladenine Dna Glycosylase In
Complex With 3,N4-Ethenocystosine Containing Duplex Dna
pdb|3UBY|A Chain A, Crystal Structure Of Human Alklyadenine Dna Glycosylase In
A Lower And Higher-Affinity Complex With Dna
pdb|3UBY|B Chain B, Crystal Structure Of Human Alklyadenine Dna Glycosylase In
A Lower And Higher-Affinity Complex With Dna
Length = 219
Score = 177 bits (449), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 97/254 (38%), Positives = 132/254 (51%), Gaps = 50/254 (19%)
Query: 22 FFDQPCIDLANALLGKYLVRRLSCGTLLIGKIVETESYLGVEDRASHSYNNRRTPRNEPM 81
FFDQP + LA A LG+ LVRRL GT L G+IVETE+YLG ED A+HS R+TPRN M
Sbjct: 11 FFDQPAVPLARAFLGQVLVRRLPNGTELRGRIVETEAYLGPEDEAAHSRGGRQTPRNRGM 70
Query: 82 YMKPGTIYVYFTYGMYHCFNLSSQESGGAVLIRSLEPVHGLDIMNRLRNQFNENQNKSKR 141
+MKPGT+YVY YGMY C N+SSQ G VL+R+LEP+ GL+ M +LR+ +
Sbjct: 71 FMKPGTLYVYIIYGMYFCMNISSQGDGACVLLRALEPLEGLETMRQLRSTLRKG------ 124
Query: 142 NNHLPNSQNNEETHSQSNRNSPAKKQKLIKSKQTLSSNDWDQPNKKSKLQDRDLCNGPSK 201
L+DR+LC+GPSK
Sbjct: 125 -------------------------------------------TASRVLKDRELCSGPSK 141
Query: 202 LCISMDITIEYLNKRHICESEEMWVQDLDCESNITIVESSRIGIGDFAKEWKAKLLRFYI 261
LC ++ I + ++R + + E +W++ E + V ++ A EW K LRFY+
Sbjct: 142 LCQALAINKSF-DQRDLAQDEAVWLERGPLEPSEPAVVAAARVGVGHAGEWARKPLRFYV 200
Query: 262 LGNKCVSKTDKKME 275
G+ VS D+ E
Sbjct: 201 RGSPWVSVVDRVAE 214
>pdb|1F4R|A Chain A, Crystal Structure Of The Human Aag Dna Repair Glycosylase
Complexed With 1,N6-Ethenoadenine-Dna
pdb|1F6O|A Chain A, Crystal Structure Of The Human Aag Dna Repair Glycosylase
Complexed With Dna
Length = 219
Score = 177 bits (448), Expect = 7e-45, Method: Compositional matrix adjust.
Identities = 97/254 (38%), Positives = 132/254 (51%), Gaps = 50/254 (19%)
Query: 22 FFDQPCIDLANALLGKYLVRRLSCGTLLIGKIVETESYLGVEDRASHSYNNRRTPRNEPM 81
FFDQP + LA A LG+ LVRRL GT L G+IVETE+YLG ED A+HS R+TPRN M
Sbjct: 11 FFDQPAVPLARAFLGQVLVRRLPNGTELRGRIVETEAYLGPEDEAAHSRGGRQTPRNRGM 70
Query: 82 YMKPGTIYVYFTYGMYHCFNLSSQESGGAVLIRSLEPVHGLDIMNRLRNQFNENQNKSKR 141
+MKPGT+YVY YGMY C N+SSQ G VL+R+LEP+ GL+ M +LR+ +
Sbjct: 71 FMKPGTLYVYIIYGMYFCMNISSQGDGACVLLRALEPLEGLETMRQLRSTLRKG------ 124
Query: 142 NNHLPNSQNNEETHSQSNRNSPAKKQKLIKSKQTLSSNDWDQPNKKSKLQDRDLCNGPSK 201
L+DR+LC+GPSK
Sbjct: 125 -------------------------------------------TASRVLKDRELCSGPSK 141
Query: 202 LCISMDITIEYLNKRHICESEEMWVQDLDCESNITIVESSRIGIGDFAKEWKAKLLRFYI 261
LC ++ I + ++R + + E +W++ E + V ++ A EW K LRFY+
Sbjct: 142 LCQALAINKSF-DQRDLAQDEAVWLERGPLEPSEPAVVAAARVGVGHAGEWARKPLRFYV 200
Query: 262 LGNKCVSKTDKKME 275
G+ VS D+ E
Sbjct: 201 RGSPWVSVVDRVAE 214
>pdb|1EWN|A Chain A, Crystal Structure Of The Human Aag Dna Repair Glycosylase
Complexed With 1,N6-Ethenoadenine-Dna
Length = 219
Score = 176 bits (445), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 96/254 (37%), Positives = 132/254 (51%), Gaps = 50/254 (19%)
Query: 22 FFDQPCIDLANALLGKYLVRRLSCGTLLIGKIVETESYLGVEDRASHSYNNRRTPRNEPM 81
FFDQP + LA A LG+ LVRRL GT L G+IVET++YLG ED A+HS R+TPRN M
Sbjct: 11 FFDQPAVPLARAFLGQVLVRRLPNGTELRGRIVETQAYLGPEDEAAHSRGGRQTPRNRGM 70
Query: 82 YMKPGTIYVYFTYGMYHCFNLSSQESGGAVLIRSLEPVHGLDIMNRLRNQFNENQNKSKR 141
+MKPGT+YVY YGMY C N+SSQ G VL+R+LEP+ GL+ M +LR+ +
Sbjct: 71 FMKPGTLYVYIIYGMYFCMNISSQGDGACVLLRALEPLEGLETMRQLRSTLRKG------ 124
Query: 142 NNHLPNSQNNEETHSQSNRNSPAKKQKLIKSKQTLSSNDWDQPNKKSKLQDRDLCNGPSK 201
L+DR+LC+GPSK
Sbjct: 125 -------------------------------------------TASRVLKDRELCSGPSK 141
Query: 202 LCISMDITIEYLNKRHICESEEMWVQDLDCESNITIVESSRIGIGDFAKEWKAKLLRFYI 261
LC ++ I + ++R + + E +W++ E + V ++ A EW K LRFY+
Sbjct: 142 LCQALAINKSF-DQRDLAQDEAVWLERGPLEPSEPAVVAAARVGVGHAGEWARKPLRFYV 200
Query: 262 LGNKCVSKTDKKME 275
G+ VS D+ E
Sbjct: 201 RGSPWVSVVDRVAE 214
>pdb|1SHZ|A Chain A, Crystal Structure Of The P115rhogef Rgrgs Domain In A
Complex With Galpha(13):galpha(i1) Chimera
pdb|1SHZ|D Chain D, Crystal Structure Of The P115rhogef Rgrgs Domain In A
Complex With Galpha(13):galpha(i1) Chimera
Length = 340
Score = 28.9 bits (63), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 20/90 (22%), Positives = 36/90 (40%), Gaps = 15/90 (16%)
Query: 102 LSSQESGGAVLIRSLEPVHGLDIMNRLRNQFN----ENQNKSKR-------NNHLPNSQN 150
L + ESG + ++ + +HG D R R +F N K R H+P N
Sbjct: 18 LGAGESGKSTFLKQMRIIHGQDFDQRAREEFRPTIYSNVIKGMRVLVDAREKLHIPWGDN 77
Query: 151 NEETHSQS----NRNSPAKKQKLIKSKQTL 176
+ H + +P Q +++++ L
Sbjct: 78 KNQLHGDKLMAFDTRAPMAAQGMVETRVFL 107
>pdb|3CX6|A Chain A, Crystal Structure Of Pdzrhogef Rgrgs Domain In A Complex
With Galpha-13 Bound To Gdp
Length = 338
Score = 27.7 bits (60), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 20/90 (22%), Positives = 36/90 (40%), Gaps = 15/90 (16%)
Query: 102 LSSQESGGAVLIRSLEPVHGLDIMNRLRNQFN----ENQNKSKR-------NNHLPNSQN 150
L + ESG + ++ + +HG D R R +F N K R H+P N
Sbjct: 15 LGAGESGKSTFLKQMRIIHGQDFDQRAREEFRPTIYSNVIKGMRVLVDAREKLHIPWGDN 74
Query: 151 NEETHSQS----NRNSPAKKQKLIKSKQTL 176
+ H + +P Q +++++ L
Sbjct: 75 KNQLHGDKLMAFDTRAPMAAQGMVETRVFL 104
>pdb|3CX7|A Chain A, Crystal Structure Of Pdzrhogef Rgrgs Domain In A Complex
With Galpha-13 Bound To Gdp-Alf4
pdb|3CX8|A Chain A, Crystal Structure Of Pdzrhogef Rgrgs Domain In A Complex
With Galpha-13 Bound To Gtp-Gamma-S
Length = 338
Score = 27.7 bits (60), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 20/90 (22%), Positives = 36/90 (40%), Gaps = 15/90 (16%)
Query: 102 LSSQESGGAVLIRSLEPVHGLDIMNRLRNQFN----ENQNKSKR-------NNHLPNSQN 150
L + ESG + ++ + +HG D R R +F N K R H+P N
Sbjct: 15 LGAGESGKSTFLKQMRIIHGQDFDQRAREEFRPTIYSNVIKGMRVLVDAREKLHIPWGDN 74
Query: 151 NEETHSQS----NRNSPAKKQKLIKSKQTL 176
+ H + +P Q +++++ L
Sbjct: 75 KNQLHGDKLMAFDTRAPMAAQGMVETRVFL 104
>pdb|1ZCB|A Chain A, Crystal Structure Of G Alpha 13 In Complex With Gdp
pdb|3AB3|A Chain A, Crystal Structure Of P115rhogef Rgs Domain In Complex With
G Alpha 13
pdb|3AB3|C Chain C, Crystal Structure Of P115rhogef Rgs Domain In Complex With
G Alpha 13
Length = 362
Score = 27.7 bits (60), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 20/90 (22%), Positives = 36/90 (40%), Gaps = 15/90 (16%)
Query: 102 LSSQESGGAVLIRSLEPVHGLDIMNRLRNQFN----ENQNKSKR-------NNHLPNSQN 150
L + ESG + ++ + +HG D R R +F N K R H+P N
Sbjct: 39 LGAGESGKSTFLKQMRIIHGQDFDQRAREEFRPTIYSNVIKGMRVLVDAREKLHIPWGDN 98
Query: 151 NEETHSQS----NRNSPAKKQKLIKSKQTL 176
+ H + +P Q +++++ L
Sbjct: 99 KNQLHGDKLMAFDTRAPMAAQGMVETRVFL 128
>pdb|3NIV|A Chain A, The Crystal Structure Of Glutathione S-Transferase From
Legionella Pneumophila
pdb|3NIV|B Chain B, The Crystal Structure Of Glutathione S-Transferase From
Legionella Pneumophila
pdb|3NIV|C Chain C, The Crystal Structure Of Glutathione S-Transferase From
Legionella Pneumophila
pdb|3NIV|D Chain D, The Crystal Structure Of Glutathione S-Transferase From
Legionella Pneumophila
Length = 222
Score = 27.3 bits (59), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 11/39 (28%), Positives = 23/39 (58%)
Query: 100 FNLSSQESGGAVLIRSLEPVHGLDIMNRLRNQFNENQNK 138
F ++ +S ++ P++ L ++NRL+ QFN N+ +
Sbjct: 91 FXKATLKSXALIVACDXHPLNNLRVLNRLKEQFNANEEQ 129
>pdb|3T7I|A Chain A, Crystal Structure Of Se-Met Rtt107p (Residues 820-1070)
pdb|3T7I|B Chain B, Crystal Structure Of Se-Met Rtt107p (Residues 820-1070)
Length = 256
Score = 27.3 bits (59), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 24/54 (44%)
Query: 78 NEPMYMKPGTIYVYFTYGMYHCFNLSSQESGGAVLIRSLEPVHGLDIMNRLRNQ 131
NE + K F C NL + GG I S+ HG++ +N LR++
Sbjct: 122 NESIISKTKLPTKVFERANIRCINLVNDIPGGVDTIGSVLKAHGIEKINVLRSK 175
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
0.316 0.131 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,121,197
Number of Sequences: 62578
Number of extensions: 321358
Number of successful extensions: 728
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 707
Number of HSP's gapped (non-prelim): 38
length of query: 281
length of database: 14,973,337
effective HSP length: 98
effective length of query: 183
effective length of database: 8,840,693
effective search space: 1617846819
effective search space used: 1617846819
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (24.3 bits)