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= 026745
(234 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1LFP|A Chain A, Crystal Structure Of A Conserved Hypothetical Protein
Aq1575 From Aquifex Aeolicus
Length = 249
Score = 99.0 bits (245), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 68/213 (31%), Positives = 110/213 (51%), Gaps = 17/213 (7%)
Query: 23 GGPNPTSNTVLAAVLEKAKELDVPKDIVERNIKR-ASEKGQEAFIEKVYEVYGYGGVSIV 81
GGPNP N L +E+AK+ + P + +ER IK+ A E E F E +YE Y GGV++
Sbjct: 39 GGPNPEFNPRLRTAIEQAKKANXPWENIERAIKKGAGELEGEQFEEVIYEGYAPGGVAVX 98
Query: 82 VEVLTDKITRSVAAVREVVKDCGGKMADPGSVMFKFRRARVVNIKFTDADKDQLLDIALD 141
V TD R+ + VR V GG + G V + F R + + + +++LL+ A++
Sbjct: 99 VLATTDNRNRTTSEVRHVFTKHGGNLGASGCVSYLFERKGYIEVPAKEVSEEELLEKAIE 158
Query: 142 AGAEDVIEPPVNEDDTDEDRAERYYKVVSTSDNYTDITTKLREAGIPFETDNGSELLPIT 201
GAEDV +P E + + + + ++ L + G+P E + PI+
Sbjct: 159 VGAEDV-QP-----------GEEVHIIYTVPEELYEVKENLEKLGVPIEKAQIT-WKPIS 205
Query: 202 TIEVDDE--AMELNKELIAKLLELDDVDAVYTD 232
T++++DE A ++ K L+ L ELDDV V +
Sbjct: 206 TVQINDEETAQKVIK-LLNALEELDDVQQVIAN 237
>pdb|1KON|A Chain A, Crystal Structure Of E.Coli Yebc
Length = 249
Score = 94.4 bits (233), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 71/214 (33%), Positives = 107/214 (50%), Gaps = 15/214 (7%)
Query: 20 VKKGGPNPTSNTVLAAVLEKAKELDVPKDIVERNIKRASEKGQEAFIEKV-YEVYGYGGV 78
K GG +P +N L A ++KA ++ +D + R I R +A +E + YE YG GG
Sbjct: 39 AKLGGGDPDANPRLRAAVDKALSNNMTRDTLNRAIARGVGGDDDANMETIIYEGYGPGGT 98
Query: 79 SIVVEVLTDKITRSVAAVREVVKDCGGKMADPGSVMFKFRRARVVNIKFTDADKDQLLDI 138
+I++E L+D R+VA VR CGG + GSV + F + V I F D+D +++
Sbjct: 99 AIMIECLSDNRNRTVAEVRHAFSKCGGNLGTDGSVAYLFSKKGV--ISFEKGDEDTIMEA 156
Query: 139 ALDAGAEDVIEPPVNEDDTDEDRAERYYKVVSTSDNYTDITTKLREAGIPFETDNGSELL 198
AL+AGAEDV V DD D V + + + L AG+ ++ S ++
Sbjct: 157 ALEAGAEDV----VTYDDGAID-------VYTAWEEMGKVRDALEAAGLKADSAEVS-MI 204
Query: 199 PITTIEVDDEAMELNKELIAKLLELDDVDAVYTD 232
P T ++D E LI L + DDV VY +
Sbjct: 205 PSTKADMDAETAPKLMRLIDMLEDCDDVQEVYHN 238
>pdb|4F3Q|A Chain A, Structure Of A Yebc Family Protein (Cbu_1566) From
Coxiella Burnetii
Length = 247
Score = 88.2 bits (217), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 66/212 (31%), Positives = 109/212 (51%), Gaps = 16/212 (7%)
Query: 23 GGPNPTSNTVLAAVLEKAKELDVPKDIVERNIKRASEKGQ-EAFIEKVYEVYGYGGVSIV 81
GG + SN L AV++KA + PKD + R IKR + G + +E YE YG GV++
Sbjct: 42 GGEDIDSNPRLRAVVDKAFAANXPKDTITRAIKRGAGSGAGDNLVEVRYEGYGPSGVAVX 101
Query: 82 VEVLTDKITRSVAAVREVVKDCGGKMADPGSVMFKFRRARVVNIKFTDADKDQLLDIALD 141
V+ LTD R+VA VR C G + GSV + F++ ++ ++D++++ +IAL+
Sbjct: 102 VDCLTDNKNRTVAEVRHAFSKCDGNLGTEGSVAYLFKQRGLITFP-PNSDEEKIXEIALE 160
Query: 142 AGAEDVIEPPVNEDDTDEDRAERYYKVVSTSDNYTDITTKLREAGI-PFETDNGSELLPI 200
GAEDV N+D + V + +++ I + A + P + +L
Sbjct: 161 VGAEDVT---TNDDGS--------IDVTTLPEDFEKIRNAXKAADLNPSHAE--VTVLAS 207
Query: 201 TTIEVDDEAMELNKELIAKLLELDDVDAVYTD 232
T + +D ++ E L L +LDDV VY++
Sbjct: 208 TEVGLDKDSAEQXLRLTEXLEDLDDVQNVYSN 239
>pdb|1MW7|A Chain A, X-Ray Structure Of Y162_helpy Northeast Structural
Genomics Consortium Target Pr6
Length = 240
Score = 66.6 bits (161), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 66/223 (29%), Positives = 108/223 (48%), Gaps = 28/223 (12%)
Query: 20 VKKGGPNPTSNTVLAAVLEKAKELDVPKDIVERNIKRASEKGQEAFIEKVYEVYGYGGVS 79
K GG P +N L + AK ++PKD ++ IKRAS K + E YE GV
Sbjct: 34 AKDGGSEPDTNAKLRTAILNAKAQNMPKDNIDAAIKRASSK-EGNLSEITYEGKANFGVL 92
Query: 80 IVVEVLTDKITRSVAAVREVV-KDCGGKMADPGSVMFKFRRARVV--------NIKFTDA 130
I++E +TD TR++A ++ K G + GS+ F F R V N+K +
Sbjct: 93 IIMECMTDNPTRTIANLKSYFNKTQGASIVPNGSLEFMFNRKSVFECLKNEVENLKLSLE 152
Query: 131 DKDQLLDIAL-DAGAEDVIEPPVNEDDTDEDRAERYYKVVSTSDNYTDITTKLREAGIPF 189
D L+ AL D G E++ E +D R + Y ++ + + + +A +
Sbjct: 153 D----LEFALIDYGLEELEEV----EDKIIIRGD-YNSFKLLNEGFESLKLPILKASL-- 201
Query: 190 ETDNGSELLPITTIEVDDEAMELNKELIAKLLELDDVDAVYTD 232
+ + T IE++DE MEL ++L+ ++ + DDV A+YT+
Sbjct: 202 ------QRIATTPIELNDEQMELTEKLLDRIEDDDDVVALYTN 238
>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 = 30.8 bits (68), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 26/38 (68%), Gaps = 1/38 (2%)
Query: 22 KGGPNPTSNTVLAAVLEKAKELDVPKDIVERNIKRASE 59
KG NP SN + ++ K K++++ KD+ +R IK+A+E
Sbjct: 51 KGFANPNSN-IXVRIVTKDKDVEINKDLFKRRIKKANE 87
>pdb|4ARZ|A Chain A, The Crystal Structure Of Gtr1p-Gtr2p Complexed With
Gtp-Gdp
Length = 310
Score = 30.4 bits (67), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 33/60 (55%), Gaps = 4/60 (6%)
Query: 4 KQSCIR-GWGRKSYLRNVKKGGPNPTSNTVLAAVLEKAKELDVPKDIVERNIKRASEKGQ 62
KQSC + G K+ + N +SN V VL K++++P+++V NIK+A E Q
Sbjct: 254 KQSCTKLKSGFKTLILNNNIYVSELSSNMVCFIVL---KDMNIPQELVLENIKKAKEFFQ 310
>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 = 30.4 bits (67), Expect = 0.89, Method: Composition-based stats.
Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 8/49 (16%)
Query: 120 ARVVNIKFTDADKDQLLDIALDAGAEDVI--EP------PVNEDDTDED 160
AR +IKF D+D D LDI ++ G ++ P PV E D E+
Sbjct: 116 ARSFSIKFADSDSDGPLDIVMNTGEANIFWNSPSLEDFVPVEEGDAAEE 164
>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 = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 18/29 (62%)
Query: 120 ARVVNIKFTDADKDQLLDIALDAGAEDVI 148
AR +IKF D+D D LDI ++ G ++
Sbjct: 116 ARSFSIKFADSDSDGPLDIVMNTGEANIF 144
>pdb|1JCE|A Chain A, Mreb From Thermotoga Maritima
Length = 344
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 19/46 (41%), Positives = 24/46 (52%), Gaps = 2/46 (4%)
Query: 108 ADPGSVMFKFRRARVVNIKFTDADKDQLLDIALDAGAEDV--IEPP 151
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 = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 108 ADPGSVMFKFRRARVVNIKFTDADKDQLLDIALDAGAEDV--IEPPV 152
A G +FK R V I TD ++ +LD L+AGA V IE P+
Sbjct: 87 AKGGMNLFKPRVVIGVPIGITDVERRAILDAGLEAGASKVFLIEEPM 133
>pdb|3U7J|A Chain A, Crystal Structure Of Ribose-5-Phosphate Isomerase A From
Burkholderia Thailandensis
pdb|3UW1|A Chain A, Crystal Structure Of Ribose-5-Phosphate Isomerase A From
Burkholderia Thailandensis With Ribose-5-Phosphate
Length = 239
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 20/27 (74%)
Query: 181 KLREAGIPFETDNGSELLPITTIEVDD 207
++++ G P+ TDNG+E+L + + +DD
Sbjct: 169 RVKQDGTPYVTDNGNEILDVKGLRIDD 195
>pdb|3R7W|A Chain A, Crystal Structure Of Gtr1p-Gtr2p Complex
pdb|3R7W|C Chain C, Crystal Structure Of Gtr1p-Gtr2p Complex
Length = 307
Score = 28.9 bits (63), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 4/60 (6%)
Query: 4 KQSCIR-GWGRKSYLRNVKKGGPNPTSNTVLAAVLEKAKELDVPKDIVERNIKRASEKGQ 62
KQSC + G K+ + N +SN V VL K+ ++P+++V NIK+A E Q
Sbjct: 251 KQSCTKLKSGFKTLILNNNIYVSELSSNXVCFIVL---KDXNIPQELVLENIKKAKEFFQ 307
>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 = 28.9 bits (63), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 37/90 (41%), Gaps = 19/90 (21%)
Query: 122 VVNIKFTDADKDQLLDIALDAGAEDVI--EPPV----------------NEDDTDEDRAE 163
+ NI T+ D+D LL + G E I E P ED +R E
Sbjct: 179 LSNIADTEEDRDTLLQLLFTMGVEPHIGKEKPTFIYHFPASQASLAQISTEDHRVAERFE 238
Query: 164 RYYKVVSTSDNYTDITTKLREAGIPFETDN 193
YYK + ++ + ++T RE FE DN
Sbjct: 239 VYYKGIELANGFHELTDA-REQQQRFEQDN 267
>pdb|3HKX|A Chain A, Crystal Structure Analysis Of An Amidase From
Nesterenkonia Sp
Length = 283
Score = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 44/81 (54%), Gaps = 8/81 (9%)
Query: 29 SNTVLAAVLEKAKELDVPK---DIVERNIKRASEKGQEAFIEKVYEVYGYGGV--SIVVE 83
S+ +A + A+ LD P+ D+++ RASE+G + + E++G+G V I +
Sbjct: 19 SHMRIALMQHTARPLD-PQHNLDLIDDAAARASEQGAQLLLTP--ELFGFGYVPSQICAQ 75
Query: 84 VLTDKITRSVAAVREVVKDCG 104
V +++ + + +R + +D G
Sbjct: 76 VSAEQVDAARSRLRGIARDRG 96
>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 = 28.1 bits (61), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 36/88 (40%), Gaps = 19/88 (21%)
Query: 124 NIKFTDADKDQLLDIALDAGAEDVI--EPPV----------------NEDDTDEDRAERY 165
N+ T+ D+D LL + G E I E P ED +R E Y
Sbjct: 200 NVADTEEDRDTLLQLLFTFGVEPNIGKEKPTFVYHFPASQASLAQISTEDHRVAERFEVY 259
Query: 166 YKVVSTSDNYTDITTKLREAGIPFETDN 193
YK + ++ + ++T RE FE DN
Sbjct: 260 YKGIELANGFHELTDA-REQQQRFEQDN 286
>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 = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 36/88 (40%), Gaps = 19/88 (21%)
Query: 124 NIKFTDADKDQLLDIALDAGAEDVI--EPPV----------------NEDDTDEDRAERY 165
N+ T+ D+D LL + G E I E P ED +R E Y
Sbjct: 183 NVADTEEDRDTLLQLLFTFGVEPNIGKEKPTFVYHFPASQASLAQISTEDHRVAERFEVY 242
Query: 166 YKVVSTSDNYTDITTKLREAGIPFETDN 193
YK + ++ + ++T RE FE DN
Sbjct: 243 YKGIELANGFHELTDA-REQQQRFEQDN 269
>pdb|2A4E|A Chain A, Crystal Structure Of Mouse Cadherin-11 Ec1-2
Length = 215
Score = 27.7 bits (60), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 20/88 (22%), Positives = 40/88 (45%), Gaps = 10/88 (11%)
Query: 135 LLDIALDAGAEDVIEPPVNEDDTDEDRAERYYKVVSTSDNYTDITTKLREAGIPFETDNG 194
L+ A+D +EPP +E KV +DN + ++ A +P ++ G
Sbjct: 74 LMAQAVDRDTNRPLEPP----------SEFIVKVQDINDNPPEFLHEIYHANVPERSNVG 123
Query: 195 SELLPITTIEVDDEAMELNKELIAKLLE 222
+ ++ +T + DD + +L+ +LE
Sbjct: 124 TSVIQVTASDADDPTYGNSAKLVYSILE 151
>pdb|3J21|L Chain L, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (50s Ribosomal Proteins)
Length = 147
Score = 26.9 bits (58), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 21/34 (61%), Gaps = 2/34 (5%)
Query: 118 RRARVVNIKFTDADKDQLLD--IALDAGAEDVIE 149
R RVVN+KF D D+L+ IA + G + +++
Sbjct: 71 REVRVVNLKFIDEHLDELMQMGIAYEEGGKIIVD 104
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
0.314 0.134 0.368
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,908,891
Number of Sequences: 62578
Number of extensions: 288683
Number of successful extensions: 772
Number of sequences better than 100.0: 33
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 741
Number of HSP's gapped (non-prelim): 33
length of query: 234
length of database: 14,973,337
effective HSP length: 96
effective length of query: 138
effective length of database: 8,965,849
effective search space: 1237287162
effective search space used: 1237287162
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 50 (23.9 bits)