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= 047934
(344 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3NME|A Chain A, Structure Of A Plant Phosphatase
pdb|3NME|B Chain B, Structure Of A Plant Phosphatase
Length = 294
Score = 33.5 bits (75), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 29/100 (29%), Positives = 41/100 (41%), Gaps = 14/100 (14%)
Query: 213 AVVDGFCKAQKFDDAKRIFRKMQSNGIAPN-AFSYNLLIQG--LYKCNKLEEAVEYCIEM 269
AVV KA K + G AP A +Y +QG L + +KL + C
Sbjct: 93 AVVGTLYKAVKRNGGVTYVHSTAGXGRAPAVALTYXFWVQGYKLXEAHKLLXSKRSCFPK 152
Query: 270 LEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGF 309
L+A + + GL K ++V TLK+KGF
Sbjct: 153 LDAIRNATIDILTGL-----------KRKTVTLTLKDKGF 181
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
Length = 1134
Score = 30.4 bits (67), Expect = 1.6, Method: Composition-based stats.
Identities = 15/71 (21%), Positives = 36/71 (50%)
Query: 200 REKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKL 259
R+K + + +Y AV+ G+ + F + + ++ G+ P+ SY +Q + + ++
Sbjct: 157 RQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQD 216
Query: 260 EEAVEYCIEML 270
+E C+E +
Sbjct: 217 AGTIERCLEQM 227
>pdb|1LGA|A Chain A, Crystallographic Refinement Of Lignin Peroxidase At 2
Angstroms
pdb|1LGA|B Chain B, Crystallographic Refinement Of Lignin Peroxidase At 2
Angstroms
pdb|1LLP|A Chain A, Lignin Peroxidase (isozyme H2) Pi 4.15
Length = 343
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 24/49 (48%)
Query: 123 KLAIDKKPGNPQQNESLGQRQEQKPNRNEPISEPPQEADEIFKKMKETG 171
+A+ PG PQ N G++ +P + + EP D+I ++ + G
Sbjct: 114 AVALSNCPGAPQMNFFTGRKPATQPAPDGLVPEPFHTVDQIIARVNDAG 162
>pdb|4H6Q|A Chain A, Structure Of Oxidized Deinococcus Radiodurans Proline
Dehydrogenase Complexed With L-Tetrahydrofuroic Acid
pdb|4H6Q|C Chain C, Structure Of Oxidized Deinococcus Radiodurans Proline
Dehydrogenase Complexed With L-Tetrahydrofuroic Acid
pdb|4H6R|A Chain A, Structure Of Reduced Deinococcus Radiodurans Proline
Dehydrogenase
pdb|4H6R|C Chain C, Structure Of Reduced Deinococcus Radiodurans Proline
Dehydrogenase
Length = 312
Score = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 23/102 (22%), Positives = 44/102 (43%), Gaps = 11/102 (10%)
Query: 218 FCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPN 277
F + + A + + ++ +GIA N I KC + + V I+++EA H+
Sbjct: 36 FVAGESIESAIQAVQALERDGIAGNLDLLGEFIDSPAKCTEFADDV---IKLIEAAHAAG 92
Query: 278 VTTFVGL--------VDGLCRERGVEKAQSVIATLKEKGFLV 311
+ +V + D + G+ A+ +IA KE G +
Sbjct: 93 IKPYVSIKLSSVGQGKDENGEDLGLTNARRIIAKAKEYGGFI 134
>pdb|1QQW|A Chain A, Crystal Structure Of Human Erythrocyte Catalase
pdb|1QQW|B Chain B, Crystal Structure Of Human Erythrocyte Catalase
pdb|1QQW|C Chain C, Crystal Structure Of Human Erythrocyte Catalase
pdb|1QQW|D Chain D, Crystal Structure Of Human Erythrocyte Catalase
pdb|1F4J|A Chain A, Structure Of Tetragonal Crystals Of Human Erythrocyte
Catalase
pdb|1F4J|B Chain B, Structure Of Tetragonal Crystals Of Human Erythrocyte
Catalase
pdb|1F4J|C Chain C, Structure Of Tetragonal Crystals Of Human Erythrocyte
Catalase
pdb|1F4J|D Chain D, Structure Of Tetragonal Crystals Of Human Erythrocyte
Catalase
Length = 527
Score = 29.3 bits (64), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 29/114 (25%), Positives = 51/114 (44%), Gaps = 6/114 (5%)
Query: 234 MQSN-GIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEM--LEAGHSPNVTTFVGL-VDGLC 289
MQ N G APN + N + + LE +++Y E+ + NVT V+ L
Sbjct: 394 MQDNQGGAPNYYP-NSFGAPEQQPSALEHSIQYSGEVRRFNTANDDNVTQVRAFYVNVLN 452
Query: 290 RERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSSSVWEAIFGKKTLQKP 343
E+ +++ LK+ + KAV+ F + + S + +A+ K +KP
Sbjct: 453 EEQRKRLCENIAGHLKDAQIFIQKKAVKNFTEVHPDYGSHI-QALLDKYNAEKP 505
>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Ca
Length = 501
Score = 28.5 bits (62), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 28/134 (20%), Positives = 54/134 (40%), Gaps = 9/134 (6%)
Query: 180 LDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAK---------RI 230
LD K G + EA++L+ R G Y ++ A+ ++ I
Sbjct: 33 LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDI 92
Query: 231 FRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCR 290
F++M + + PN ++ + + E A + +M G P + ++ + G CR
Sbjct: 93 FKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCR 152
Query: 291 ERGVEKAQSVIATL 304
+ +KA V A +
Sbjct: 153 KGDADKAYEVDAHM 166
>pdb|1LZL|A Chain A, Bacterial Heroin Esterase
Length = 323
Score = 28.5 bits (62), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 30/68 (44%), Gaps = 8/68 (11%)
Query: 260 EEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREF 319
+E +EY + +L+AG S + +F G G A A + E+G A+R
Sbjct: 264 DEGIEYALRLLQAGVSVELHSFPGTFHG--------SALVATAAVSERGAAEALTAIRRG 315
Query: 320 LDKKAPFS 327
L +P S
Sbjct: 316 LRSLSPVS 323
>pdb|1LZK|A Chain A, Bacterial Heroin Esterase Complex With Transition State
Analog Dimethylarsenic Acid
Length = 323
Score = 28.5 bits (62), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 30/68 (44%), Gaps = 8/68 (11%)
Query: 260 EEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREF 319
+E +EY + +L+AG S + +F G G A A + E+G A+R
Sbjct: 264 DEGIEYALRLLQAGVSVELHSFPGTFHG--------SALVATAAVSERGAAEALTAIRRG 315
Query: 320 LDKKAPFS 327
L +P S
Sbjct: 316 LRSLSPVS 323
>pdb|1L9U|D Chain D, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9U|M Chain M, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9Z|D Chain D, Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Junction
Promoter Dna Complex At 6.5 A Resolution
pdb|1YNJ|D Chain D, Taq Rna Polymerase-Sorangicin Complex
pdb|1YNJ|J Chain J, Taq Rna Polymerase-Sorangicin Complex
pdb|1YNN|D Chain D, Taq Rna Polymerase-rifampicin Complex
pdb|1YNN|J Chain J, Taq Rna Polymerase-rifampicin Complex
Length = 1524
Score = 28.1 bits (61), Expect = 7.4, Method: Composition-based stats.
Identities = 11/35 (31%), Positives = 20/35 (57%)
Query: 300 VIATLKEKGFLVNDKAVREFLDKKAPFSSSVWEAI 334
++ ++EK F N KA R L+++ VW+A+
Sbjct: 657 LLKKMEEKAFAPNVKAARRMLERQRDIKDEVWDAL 691
>pdb|1B82|A Chain A, Pristine Recomb. Lignin Peroxidase H8
pdb|1B82|B Chain B, Pristine Recomb. Lignin Peroxidase H8
Length = 351
Score = 28.1 bits (61), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 23/49 (46%)
Query: 123 KLAIDKKPGNPQQNESLGQRQEQKPNRNEPISEPPQEADEIFKKMKETG 171
+A+ PG PQ N G+ +P + + EP D+I ++ + G
Sbjct: 121 AVALSNCPGAPQMNFFTGRAPATQPAPDGLVPEPFHTVDQIINRVNDAG 169
>pdb|1B85|A Chain A, Lignin Peroxidase
pdb|1B85|B Chain B, Lignin Peroxidase
Length = 351
Score = 28.1 bits (61), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 23/49 (46%)
Query: 123 KLAIDKKPGNPQQNESLGQRQEQKPNRNEPISEPPQEADEIFKKMKETG 171
+A+ PG PQ N G+ +P + + EP D+I ++ + G
Sbjct: 121 AVALSNCPGAPQMNFFTGRAPATQPAPDGLVPEPFHTVDQIINRVNDAG 169
>pdb|1B80|A Chain A, Rec. Lignin Peroxidase H8 Oxidatively Processed
pdb|1B80|B Chain B, Rec. Lignin Peroxidase H8 Oxidatively Processed
Length = 351
Score = 28.1 bits (61), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 23/49 (46%)
Query: 123 KLAIDKKPGNPQQNESLGQRQEQKPNRNEPISEPPQEADEIFKKMKETG 171
+A+ PG PQ N G+ +P + + EP D+I ++ + G
Sbjct: 121 AVALSNCPGAPQMNFFTGRAPATQPAPDGLVPEPFHTVDQIINRVNDAG 169
>pdb|1PMI|A Chain A, Candida Albicans Phosphomannose Isomerase
Length = 440
Score = 27.7 bits (60), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 33/72 (45%), Gaps = 1/72 (1%)
Query: 274 HSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDK-KAPFSSSVWE 332
H P + V +G C + +++ +AT+ E ++ + V EF+ K P +
Sbjct: 134 HKPEMAIAVTDFEGFCGFKPLDQLAKTLATVPELNEIIGQELVDEFISGIKLPAEVGSQD 193
Query: 333 AIFGKKTLQKPF 344
+ +K LQK F
Sbjct: 194 DVNNRKLLQKVF 205
>pdb|3OEH|D Chain D, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OEH|E Chain E, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OEH|F Chain F, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OEH|M Chain M, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OEH|N Chain N, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OEH|O Chain O, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OEH|V Chain V, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OEH|W Chain W, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OEH|X Chain X, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
Length = 484
Score = 27.7 bits (60), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 30/110 (27%), Positives = 46/110 (41%), Gaps = 31/110 (28%)
Query: 153 ISEPPQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYT 212
+ E +E ++++++MKETG+I L+G K L+ FG M E P
Sbjct: 193 VGERTREGNDLYREMKETGVIN-----LEGESKVALV------FGQMNE----PPGARAR 237
Query: 213 AVVDGFCKAQKFDDAK---------RIFRKMQSN-------GIAPNAFSY 246
+ G A+ F D + IFR Q+ G P+AF Y
Sbjct: 238 VALTGLTIAEYFRDEEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAFGY 287
>pdb|4GZY|D Chain D, Crystal Structures Of Bacterial Rna Polymerase Paused
Elongation Complexes
pdb|4GZZ|D Chain D, Crystal Structures Of Bacterial Rna Polymerase Paused
Elongation Complexes
Length = 1534
Score = 27.7 bits (60), Expect = 9.8, Method: Composition-based stats.
Identities = 11/35 (31%), Positives = 20/35 (57%)
Query: 300 VIATLKEKGFLVNDKAVREFLDKKAPFSSSVWEAI 334
++ ++EKG N KA R L+++ VW+A+
Sbjct: 657 LLKKMEEKGIAPNVKAARRMLERQRDIKDEVWDAL 691
>pdb|1IW7|D Chain D, Crystal Structure Of The Rna Polymerase Holoenzyme From
Thermus Thermophilus At 2.6a Resolution
pdb|1IW7|N Chain N, Crystal Structure Of The Rna Polymerase Holoenzyme From
Thermus Thermophilus At 2.6a Resolution
pdb|1SMY|D Chain D, Structural Basis For Transcription Regulation By Alarmone
Ppgpp
pdb|1SMY|N Chain N, Structural Basis For Transcription Regulation By Alarmone
Ppgpp
pdb|1ZYR|D Chain D, Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme In Complex With The Antibiotic Streptolydigin
pdb|1ZYR|N Chain N, Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme In Complex With The Antibiotic Streptolydigin
pdb|2A68|D Chain D, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Rifabutin
pdb|2A68|N Chain N, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Rifabutin
pdb|2A69|D Chain D, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Rifapentin
pdb|2A69|N Chain N, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Rifapentin
pdb|2A6E|D Chain D, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme
pdb|2A6E|N Chain N, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme
pdb|2A6H|D Chain D, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Sterptolydigin
pdb|2A6H|N Chain N, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Sterptolydigin
pdb|2CW0|D Chain D, Crystal Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme At 3.3 Angstroms Resolution
pdb|2CW0|N Chain N, Crystal Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme At 3.3 Angstroms Resolution
pdb|2BE5|D Chain D, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Inhibitor Tagetitoxin
pdb|2BE5|N Chain N, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Inhibitor Tagetitoxin
pdb|2O5I|D Chain D, Crystal Structure Of The T. Thermophilus Rna Polymerase
Elongation Complex
pdb|2O5I|N Chain N, Crystal Structure Of The T. Thermophilus Rna Polymerase
Elongation Complex
pdb|2O5J|D Chain D, Crystal Structure Of The T. Thermophilus Rnap Polymerase
Elongation Complex With The Ntp Substrate Analog
pdb|2O5J|N Chain N, Crystal Structure Of The T. Thermophilus Rnap Polymerase
Elongation Complex With The Ntp Substrate Analog
pdb|2PPB|D Chain D, Crystal Structure Of The T. Thermophilus Rnap Polymerase
Elongation Complex With The Ntp Substrate Analog And
Antibiotic Streptolydigin
pdb|2PPB|N Chain N, Crystal Structure Of The T. Thermophilus Rnap Polymerase
Elongation Complex With The Ntp Substrate Analog And
Antibiotic Streptolydigin
pdb|3DXJ|D Chain D, Crystal Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme In Complex With The Antibiotic Myxopyronin
pdb|3DXJ|N Chain N, Crystal Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme In Complex With The Antibiotic Myxopyronin
pdb|3EQL|D Chain D, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Myxopyronin
pdb|3EQL|N Chain N, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Myxopyronin
pdb|3AOH|D Chain D, Rna Polymerase-Gfh1 Complex (Crystal Type 1)
pdb|3AOH|I Chain I, Rna Polymerase-Gfh1 Complex (Crystal Type 1)
pdb|3AOH|N Chain N, Rna Polymerase-Gfh1 Complex (Crystal Type 1)
pdb|3AOI|D Chain D, Rna Polymerase-Gfh1 Complex (Crystal Type 2)
pdb|3AOI|I Chain I, Rna Polymerase-Gfh1 Complex (Crystal Type 2)
pdb|3AOI|N Chain N, Rna Polymerase-Gfh1 Complex (Crystal Type 2)
pdb|4G7H|D Chain D, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex
pdb|4G7H|N Chain N, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex
pdb|4G7O|D Chain D, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex Containing 2 Nt Of Rna
pdb|4G7O|N Chain N, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex Containing 2 Nt Of Rna
pdb|4G7Z|D Chain D, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex Containing 5-Bru At Template-Strand
Position +1
pdb|4G7Z|N Chain N, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex Containing 5-Bru At Template-Strand
Position +1
Length = 1524
Score = 27.7 bits (60), Expect = 9.8, Method: Composition-based stats.
Identities = 11/35 (31%), Positives = 20/35 (57%)
Query: 300 VIATLKEKGFLVNDKAVREFLDKKAPFSSSVWEAI 334
++ ++EKG N KA R L+++ VW+A+
Sbjct: 657 LLKKMEEKGIAPNVKAARRMLERQRDIKDEVWDAL 691
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
0.317 0.135 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,837,180
Number of Sequences: 62578
Number of extensions: 382332
Number of successful extensions: 870
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 854
Number of HSP's gapped (non-prelim): 26
length of query: 344
length of database: 14,973,337
effective HSP length: 100
effective length of query: 244
effective length of database: 8,715,537
effective search space: 2126591028
effective search space used: 2126591028
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: 52 (24.6 bits)