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= 021961
(305 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1KON|A Chain A, Crystal Structure Of E.Coli Yebc
Length = 249
Score = 112 bits (281), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 60/153 (39%), Positives = 95/153 (62%), Gaps = 3/153 (1%)
Query: 86 RKGAQDAKKAKLYSRMGKEVISAVKKGGPNPTSNTVLAAVLEKAKELDVPKDIVERNIKR 145
RK AQDAK+ K+++++ +E+++A K GG +P +N L A ++KA ++ +D + R I R
Sbjct: 16 RKAAQDAKRGKIFTKIIRELVTAAKLGGGDPDANPRLRAAVDKALSNNMTRDTLNRAIAR 75
Query: 146 ASEKGQEAFIEKV-YEVYGYGGVSIVVEVLTDKITRSVAAVREVVKDCGGKMADPGSVMF 204
+A +E + YE YG GG +I++E L+D R+VA VR CGG + GSV +
Sbjct: 76 GVGGDDDANMETIIYEGYGPGGTAIMIECLSDNRNRTVAEVRHAFSKCGGNLGTDGSVAY 135
Query: 205 KFRRARVVNIKFTDADKDQLLDIALDAGAEDVI 237
F + V I F D+D +++ AL+AGAEDV+
Sbjct: 136 LFSKKGV--ISFEKGDEDTIMEAALEAGAEDVV 166
>pdb|1LFP|A Chain A, Crystal Structure Of A Conserved Hypothetical Protein
Aq1575 From Aquifex Aeolicus
Length = 249
Score = 107 bits (266), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 66/214 (30%), Positives = 113/214 (52%), Gaps = 14/214 (6%)
Query: 81 SKIAGRKGAQDAKKAKLYSRMGKEVISAVKKGGPNPTSNTVLAAVLEKAKELDVPKDIVE 140
++I +K DA++ KL+S++ +E+I A + GGPNP N L +E+AK+ + P + +E
Sbjct: 8 AQIKHKKAKVDAQRGKLFSKLIREIIVATRLGGPNPEFNPRLRTAIEQAKKANXPWENIE 67
Query: 141 RNIKR-ASEKGQEAFIEKVYEVYGYGGVSIVVEVLTDKITRSVAAVREVVKDCGGKMADP 199
R IK+ A E E F E +YE Y GGV++ V TD R+ + VR V GG +
Sbjct: 68 RAIKKGAGELEGEQFEEVIYEGYAPGGVAVXVLATTDNRNRTTSEVRHVFTKHGGNLGAS 127
Query: 200 GSVMFKFRRARVVNIKFTDADKDQLLDIALDAGAEDVIEPPVNEDDTDEDRAERYYKVVS 259
G V + F R + + + +++LL+ A++ GAEDV +P E + + +
Sbjct: 128 GCVSYLFERKGYIEVPAKEVSEEELLEKAIEVGAEDV-QP-----------GEEVHIIYT 175
Query: 260 TSDNYTDITTKLREAGIPFETDNGSELLPITTIE 293
+ ++ L + G+P E + PI+T++
Sbjct: 176 VPEELYEVKENLEKLGVPIEKAQIT-WKPISTVQ 208
>pdb|4F3Q|A Chain A, Structure Of A Yebc Family Protein (Cbu_1566) From
Coxiella Burnetii
Length = 247
Score = 100 bits (249), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 57/157 (36%), Positives = 93/157 (59%), Gaps = 2/157 (1%)
Query: 81 SKIAGRKGAQDAKKAKLYSRMGKEVISAVKKGGPNPTSNTVLAAVLEKAKELDVPKDIVE 140
+ I K QDAK+ K+++++ +E+ A + GG + SN L AV++KA + PKD +
Sbjct: 11 ANIKHAKARQDAKRGKVFTKLIREITVAARLGGEDIDSNPRLRAVVDKAFAANXPKDTIT 70
Query: 141 RNIKRASEKGQ-EAFIEKVYEVYGYGGVSIVVEVLTDKITRSVAAVREVVKDCGGKMADP 199
R IKR + G + +E YE YG GV++ V+ LTD R+VA VR C G +
Sbjct: 71 RAIKRGAGSGAGDNLVEVRYEGYGPSGVAVXVDCLTDNKNRTVAEVRHAFSKCDGNLGTE 130
Query: 200 GSVMFKFRRARVVNIKFTDADKDQLLDIALDAGAEDV 236
GSV + F++ ++ ++D++++ +IAL+ GAEDV
Sbjct: 131 GSVAYLFKQRGLITFP-PNSDEEKIXEIALEVGAEDV 166
>pdb|1MW7|A Chain A, X-Ray Structure Of Y162_helpy Northeast Structural
Genomics Consortium Target Pr6
Length = 240
Score = 65.1 bits (157), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 55/173 (31%), Positives = 83/173 (47%), Gaps = 15/173 (8%)
Query: 76 MGRRSSKIAGRKGAQDAKKAKLYSRMGKEVISAVKKGGPNPTSNTVLAAVLEKAKELDVP 135
MGR K + K +K++ ++ K + A K GG P +N L + AK ++P
Sbjct: 1 MGRAFEYRRAAKEKRWDKMSKVFPKLAKAITLAAKDGGSEPDTNAKLRTAILNAKAQNMP 60
Query: 136 KDIVERNIKRASEKGQEAFIEKVYEVYGYGGVSIVVEVLTDKITRSVAAVREVV-KDCGG 194
KD ++ IKRAS K + E YE GV I++E +TD TR++A ++ K G
Sbjct: 61 KDNIDAAIKRASSK-EGNLSEITYEGKANFGVLIIMECMTDNPTRTIANLKSYFNKTQGA 119
Query: 195 KMADPGSVMFKFRRARVV--------NIKFTDADKDQLLDIAL-DAGAEDVIE 238
+ GS+ F F R V N+K + D L+ AL D G E++ E
Sbjct: 120 SIVPNGSLEFMFNRKSVFECLKNEVENLKLSLED----LEFALIDYGLEELEE 168
>pdb|2AS0|A Chain A, Crystal Structure Of Ph1915 (Apc 5817): A Hypothetical Rna
Methyltransferase
pdb|2AS0|B Chain B, Crystal Structure Of Ph1915 (Apc 5817): A Hypothetical Rna
Methyltransferase
Length = 396
Score = 33.5 bits (75), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 34/53 (64%), Gaps = 5/53 (9%)
Query: 96 KLYSRMGKEVISAVKKGGPNPTSNTVLAAVLEKAKELDVPKDIVERNIKRASE 148
++Y+R GK + KG NP SN + ++ K K++++ KD+ +R IK+A+E
Sbjct: 40 EVYTRGGK----FLGKGFANPNSN-IXVRIVTKDKDVEINKDLFKRRIKKANE 87
>pdb|3G1Z|A Chain A, Structure Of Idp01693YJEA, A POTENTIAL T-Rna Synthetase
From Salmonella Typhimurium
pdb|3G1Z|B Chain B, Structure Of Idp01693YJEA, A POTENTIAL T-Rna Synthetase
From Salmonella Typhimurium
Length = 326
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 36/88 (40%), Gaps = 19/88 (21%)
Query: 213 NIKFTDADKDQLLDIALDAGAEDVI--EPPV----------------NEDDTDEDRAERY 254
NI T+ D+D LL + G E I E P ED +R E Y
Sbjct: 181 NIADTEEDRDTLLQLLFTMGVEPHIGKEKPTFIYHFPASQASLAQISTEDHRVAERFEVY 240
Query: 255 YKVVSTSDNYTDITTKLREAGIPFETDN 282
YK + ++ + ++T RE FE DN
Sbjct: 241 YKGIELANGFHELTDA-REQQQRFEQDN 267
>pdb|1U5U|A Chain A, The Structure Of An Allene Oxide Synthase Reveals A Novel
Use For A Catalase Fold
pdb|1U5U|B Chain B, The Structure Of An Allene Oxide Synthase Reveals A Novel
Use For A Catalase Fold
Length = 374
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 18/29 (62%)
Query: 209 ARVVNIKFTDADKDQLLDIALDAGAEDVI 237
AR +IKF D+D D LDI ++ G ++
Sbjct: 116 ARSFSIKFADSDSDGPLDIVMNTGEANIF 144
>pdb|3A5Y|A Chain A, Crystal Structure Of Genx From Escherichia Coli In Complex
With Lysyladenylate Analog
pdb|3A5Y|B Chain B, Crystal Structure Of Genx From Escherichia Coli In Complex
With Lysyladenylate Analog
pdb|3A5Y|C Chain C, Crystal Structure Of Genx From Escherichia Coli In Complex
With Lysyladenylate Analog
pdb|3A5Y|D Chain D, Crystal Structure Of Genx From Escherichia Coli In Complex
With Lysyladenylate Analog
Length = 345
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 36/88 (40%), Gaps = 19/88 (21%)
Query: 213 NIKFTDADKDQLLDIALDAGAEDVI--EPPV----------------NEDDTDEDRAERY 254
N+ T+ D+D LL + G E I E P ED +R E Y
Sbjct: 200 NVADTEEDRDTLLQLLFTFGVEPNIGKEKPTFVYHFPASQASLAQISTEDHRVAERFEVY 259
Query: 255 YKVVSTSDNYTDITTKLREAGIPFETDN 282
YK + ++ + ++T RE FE DN
Sbjct: 260 YKGIELANGFHELTDA-REQQQRFEQDN 286
>pdb|3DY5|A Chain A, Allene Oxide Synthase 8r-Lipoxygenase From Plexaura
Homomalla
pdb|3DY5|C Chain C, Allene Oxide Synthase 8r-Lipoxygenase From Plexaura
Homomalla
Length = 1066
Score = 29.3 bits (64), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 18/29 (62%)
Query: 209 ARVVNIKFTDADKDQLLDIALDAGAEDVI 237
AR +IKF D+D D LDI ++ G ++
Sbjct: 116 ARSFSIKFADSDSDGPLDIVMNTGEANIF 144
>pdb|3A5Z|A Chain A, Crystal Structure Of Escherichia Coli Genx In Complex With
Elongation Factor P
pdb|3A5Z|C Chain C, Crystal Structure Of Escherichia Coli Genx In Complex With
Elongation Factor P
pdb|3A5Z|E Chain E, Crystal Structure Of Escherichia Coli Genx In Complex With
Elongation Factor P
pdb|3A5Z|G Chain G, Crystal Structure Of Escherichia Coli Genx In Complex With
Elongation Factor P
Length = 328
Score = 29.3 bits (64), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 36/88 (40%), Gaps = 19/88 (21%)
Query: 213 NIKFTDADKDQLLDIALDAGAEDVI--EPPV----------------NEDDTDEDRAERY 254
N+ T+ D+D LL + G E I E P ED +R E Y
Sbjct: 183 NVADTEEDRDTLLQLLFTFGVEPNIGKEKPTFVYHFPASQASLAQISTEDHRVAERFEVY 242
Query: 255 YKVVSTSDNYTDITTKLREAGIPFETDN 282
YK + ++ + ++T RE FE DN
Sbjct: 243 YKGIELANGFHELTDA-REQQQRFEQDN 269
>pdb|1JCE|A Chain A, Mreb From Thermotoga Maritima
Length = 344
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 19/46 (41%), Positives = 24/46 (52%), Gaps = 2/46 (4%)
Query: 197 ADPGSVMFKFRRARVVNIKFTDADKDQLLDIALDAGAEDV--IEPP 240
A G +FK R V I TD ++ +LD L+AGA V IE P
Sbjct: 87 AKGGXNLFKPRVVIGVPIGITDVERRAILDAGLEAGASKVFLIEEP 132
>pdb|1JCF|A Chain A, Mreb From Thermotoga Maritima, Trigonal
pdb|1JCG|A Chain A, Mreb From Thermotoga Maritima, Amppnp
pdb|2WUS|A Chain A, Bacterial Actin Mreb Assembles In Complex With Cell Shape
Protein Rodz
pdb|2WUS|B Chain B, Bacterial Actin Mreb Assembles In Complex With Cell Shape
Protein Rodz
Length = 344
Score = 28.9 bits (63), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 197 ADPGSVMFKFRRARVVNIKFTDADKDQLLDIALDAGAEDV--IEPPV 241
A G +FK R V I TD ++ +LD L+AGA V IE P+
Sbjct: 87 AKGGMNLFKPRVVIGVPIGITDVERRAILDAGLEAGASKVFLIEEPM 133
>pdb|2OJK|A Chain A, Crystal Structure Of Green Fluorescent Protein From
Zoanthus Sp At 2.2 A Resolution
pdb|2OJK|B Chain B, Crystal Structure Of Green Fluorescent Protein From
Zoanthus Sp At 2.2 A Resolution
Length = 229
Score = 28.5 bits (62), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 98 YSRMGKEVIS-AVKKGGPNPTSNTVLAAVLEKAKELDVPKDIVE 140
Y GK+ I+ V +GGP P + +L+A + P+DIV+
Sbjct: 36 YPFKGKQAINLCVVEGGPLPFAEDILSAAFXNRVFTEYPQDIVD 79
>pdb|3HKX|A Chain A, Crystal Structure Analysis Of An Amidase From
Nesterenkonia Sp
Length = 283
Score = 28.1 bits (61), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 44/81 (54%), Gaps = 8/81 (9%)
Query: 118 SNTVLAAVLEKAKELDVPK---DIVERNIKRASEKGQEAFIEKVYEVYGYGGV--SIVVE 172
S+ +A + A+ LD P+ D+++ RASE+G + + E++G+G V I +
Sbjct: 19 SHMRIALMQHTARPLD-PQHNLDLIDDAAARASEQGAQLLLTP--ELFGFGYVPSQICAQ 75
Query: 173 VLTDKITRSVAAVREVVKDCG 193
V +++ + + +R + +D G
Sbjct: 76 VSAEQVDAARSRLRGIARDRG 96
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
0.315 0.132 0.376
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,254,190
Number of Sequences: 62578
Number of extensions: 322968
Number of successful extensions: 1041
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 1023
Number of HSP's gapped (non-prelim): 22
length of query: 305
length of database: 14,973,337
effective HSP length: 98
effective length of query: 207
effective length of database: 8,840,693
effective search space: 1830023451
effective search space used: 1830023451
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)