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= 016599
(386 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1R30|A Chain A, The Crystal Structure Of Biotin Synthase, An S-
Adenosylmethionine-dependent Radical Enzyme
pdb|1R30|B Chain B, The Crystal Structure Of Biotin Synthase, An S-
Adenosylmethionine-dependent Radical Enzyme
Length = 369
Score = 347 bits (891), Expect = 5e-96, Method: Compositional matrix adjust.
Identities = 170/320 (53%), Positives = 219/320 (68%), Gaps = 2/320 (0%)
Query: 50 RHDWSKDDIKSIYDSPVLDLLFHGAQVHRHAHNFREVQQCTLLSIKTGGCSEDCSYCPQS 109
R W+ + +++ P+LDLLF QVHR + R+VQ TLLSIKTG C EDC YCPQS
Sbjct: 27 RPRWTLSQVTELFEKPLLDLLFEAQQVHRQHFDPRQVQVSTLLSIKTGACPEDCKYCPQS 86
Query: 110 SRYDTGVKGQKLMTKDAVMQAAQKAKEAGSTRFCMGAAWRDTIGRKTNFNQILEYVKDIR 169
SRY TG++ ++LM + V+++A+KAK AGSTRFCMGAAW++ R + + + V+ ++
Sbjct: 87 SRYKTGLEAERLMEVEQVLESARKAKAAGSTRFCMGAAWKNPHERDMPY--LEQMVQGVK 144
Query: 170 DMGMEVCCTLGMLEKHQAIELKKAGLTAYNHNLDTSREFYSKIITTRSYDERLETLKHVR 229
MG+E C TLG L + QA L AGL YNHNLDTS EFY IITTR+Y ERL+TL+ VR
Sbjct: 145 AMGLEACMTLGTLSESQAQRLANAGLDYYNHNLDTSPEFYGNIITTRTYQERLDTLEKVR 204
Query: 230 EAGINVCSGGIIGLGEAEEDRVGXXXXXXXXXXXXESVPINALLAVKGTPLQDQKPVEIW 289
+AGI VCSGGI+GLGE +DR G ESVPIN L+ VKGTPL D V+ +
Sbjct: 205 DAGIKVCSGGIVGLGETVKDRAGLLLQLANLPTPPESVPINMLVKVKGTPLADNDDVDAF 264
Query: 290 EMIRMIATARIVMPKAMVRLSAGRVRFSMPEQALCFLAGANSIFTGEKLLTTPNNDFDAD 349
+ IR IA ARI+MP + VRLSAGR + + QA+CF+AGANSIF G KLLTTPN + D D
Sbjct: 265 DFIRTIAVARIMMPTSYVRLSAGREQMNEQTQAMCFMAGANSIFYGCKLLTTPNPEEDKD 324
Query: 350 QLMFKVLGLTPKAPSFHEGE 369
+F+ LGL P+ + G+
Sbjct: 325 LQLFRKLGLNPQQTAVLAGD 344
>pdb|3CIX|A Chain A, X-ray Structure Of The [fefe]-hydrogenase Maturase Hyde
From Thermotoga Maritima In Complex With Thiocyanate
Length = 348
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 62/290 (21%), Positives = 122/290 (42%), Gaps = 16/290 (5%)
Query: 50 RHDWSKDDIK---SIYDSPVLDLLFHGAQVHRHAHNFREVQQCTLLSIKTGGCSEDCSYC 106
R +++++ +K SI D + LF A R + EV ++ + C ++C YC
Sbjct: 12 RREFTREVLKEALSINDRGFNEALFKLADEIRRKYVGDEVHIRAIIEF-SNVCRKNCLYC 70
Query: 107 PQSSRYDTGVKGQKLMTKDAVMQAAQKAKEAGSTRFCMGAAWRDTIGRKTNF--NQILEY 164
R D + MT + +++ A+ A + G+ + + G + + I +
Sbjct: 71 --GLRRDNKNLKRYRMTPEEIVERARLAVQFGAKTIVLQS------GEDPYYMPDVISDI 122
Query: 165 VKDIRDMGMEVCCTLGMLEKHQAIELKKAGLTAYNHNLDTSRE-FYSKIITTRSYDERLE 223
VK+I+ MG+ V +LG + + K+AG Y +T+ + K+ S++ RL
Sbjct: 123 VKEIKKMGVAVTLSLGEWPREYYEKWKEAGADRYLLRHETANPVLHRKLRPDTSFENRLN 182
Query: 224 TLKHVREAGINVCSGGIIGLGEAEEDRVGXXXXXXXXXXXXESVPINALLAVKGTPLQDQ 283
L ++E G +G ++GL + + V I + TPL ++
Sbjct: 183 XLLTLKELGYETGAGSMVGL-PGQTIDDLVDDLLFLKEHDFDMVGIGPFIPHPDTPLANE 241
Query: 284 KPVEIWEMIRMIATARIVMPKAMVRLSAGRVRFSMPEQALCFLAGANSIF 333
K + ++M+A RI++P + + + + + GAN I
Sbjct: 242 KKGDFTLTLKMVALTRILLPDSNIPATTAMGTIVPGGREITLRCGANVIM 291
>pdb|3CIW|A Chain A, X-Ray Structure Of The [fefe]-Hydrogenase Maturase Hyde
From Thermotoga Maritima
pdb|3IIX|A Chain A, X-Ray Structure Of The Fefe-Hydrogenase Maturase Hyde From
T. Maritima In Complex With Methionine And
5'deoxyadenosine
Length = 348
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 62/288 (21%), Positives = 120/288 (41%), Gaps = 12/288 (4%)
Query: 50 RHDWSKDDIK---SIYDSPVLDLLFHGAQVHRHAHNFREVQQCTLLSIKTGGCSEDCSYC 106
R +++++ +K SI D + LF A R + EV ++ + C ++C YC
Sbjct: 12 RREFTREVLKEALSINDRGFNEALFKLADEIRRKYVGDEVHIRAIIEF-SNVCRKNCLYC 70
Query: 107 PQSSRYDTGVKGQKLMTKDAVMQAAQKAKEAGSTRFCMGAAWRDTIGRKTNFNQILEYVK 166
R D + MT + +++ A+ A + G+ + + D + I VK
Sbjct: 71 --GLRRDNKNLKRYRMTPEEIVERARLAVQFGAKTIVLQSG-EDPYXMPDVISDI---VK 124
Query: 167 DIRDMGMEVCCTLGMLEKHQAIELKKAGLTAYNHNLDTSRE-FYSKIITTRSYDERLETL 225
+I+ MG+ V +LG + + K+AG Y +T+ + K+ S++ RL L
Sbjct: 125 EIKKMGVAVTLSLGEWPREYYEKWKEAGADRYLLRHETANPVLHRKLRPDTSFENRLNXL 184
Query: 226 KHVREAGINVCSGGIIGLGEAEEDRVGXXXXXXXXXXXXESVPINALLAVKGTPLQDQKP 285
++E G +G ++GL + + V I + TPL ++K
Sbjct: 185 LTLKELGYETGAGSMVGL-PGQTIDDLVDDLLFLKEHDFDMVGIGPFIPHPDTPLANEKK 243
Query: 286 VEIWEMIRMIATARIVMPKAMVRLSAGRVRFSMPEQALCFLAGANSIF 333
+ ++M+A RI++P + + + + + GAN I
Sbjct: 244 GDFTLTLKMVALTRILLPDSNIPATTAMGTIVPGGREITLRCGANVIM 291
>pdb|3IIZ|A Chain A, X-Ray Structure Of The Fefe-Hydrogenase Maturase Hyde From
T. Maritima In Complex With S-Adenosyl-L-Methionine
Length = 348
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 62/288 (21%), Positives = 120/288 (41%), Gaps = 12/288 (4%)
Query: 50 RHDWSKDDIK---SIYDSPVLDLLFHGAQVHRHAHNFREVQQCTLLSIKTGGCSEDCSYC 106
R +++++ +K SI D + LF A R + EV ++ + C ++C YC
Sbjct: 12 RREFTREVLKEALSINDRGFNEALFKLADEIRRKYVGDEVHIRAIIEF-SNVCRKNCLYC 70
Query: 107 PQSSRYDTGVKGQKLMTKDAVMQAAQKAKEAGSTRFCMGAAWRDTIGRKTNFNQILEYVK 166
R D + MT + +++ A+ A + G+ + + D + I VK
Sbjct: 71 --GLRRDNKNLKRYRMTPEEIVERARLAVQFGAKTIVLQSG-EDPYXMPDVISDI---VK 124
Query: 167 DIRDMGMEVCCTLGMLEKHQAIELKKAGLTAYNHNLDTSRE-FYSKIITTRSYDERLETL 225
+I+ MG+ V +LG + + K+AG Y +T+ + K+ S++ RL L
Sbjct: 125 EIKKMGVAVTLSLGEWPREYYEKWKEAGADRYLLRHETANPVLHRKLRPDTSFENRLNXL 184
Query: 226 KHVREAGINVCSGGIIGLGEAEEDRVGXXXXXXXXXXXXESVPINALLAVKGTPLQDQKP 285
++E G +G ++GL + + V I + TPL ++K
Sbjct: 185 LTLKELGYETGAGSMVGL-PGQTIDDLVDDLLFLKEHDFDMVGIGPFIPHPDTPLANEKK 243
Query: 286 VEIWEMIRMIATARIVMPKAMVRLSAGRVRFSMPEQALCFLAGANSIF 333
+ ++M+A RI++P + + + + + GAN I
Sbjct: 244 GDFTLTLKMVALTRILLPDSNIPATTAMGTIVPGGREITLRCGANVIM 291
>pdb|3T7V|A Chain A, Crystal Structure Of Methylornithine Synthase (Pylb)
Length = 350
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 52/250 (20%), Positives = 108/250 (43%), Gaps = 24/250 (9%)
Query: 67 LDLLFHGA-QVHRHAHNFREVQQCTLLSIKTGGCSEDCSYCPQSSRYDTGVKGQKLMTKD 125
L+ L+ A +V H R C + + C CS+C + R + + +T +
Sbjct: 40 LERLYSAARKVRDHYFGNRVFLNCFIYF--STYCKNQCSFCYYNCRNEIN---RYRLTME 94
Query: 126 AVMQAAQKAKEAGSTRFCMGAAWRDTIGRKTNF----NQILEYVKDIRD-MGMEVCCTLG 180
+ + + K AG F M T+G + N+ +E V+ +++ +G+ + + G
Sbjct: 95 EIKETCKTLKGAG---FHMVDL---TMGEDPYYYEDPNRFVELVQIVKEELGLPIMISPG 148
Query: 181 MLEKHQAIELKKAG---LTAYNHNLDTSREFYSKIITTRSYDERLETLKHVREAGINVCS 237
+++ ++ ++ G L Y DT E Y K+ +S+D R+ + ++ G V
Sbjct: 149 LMDNATLLKAREKGANFLALYQETYDT--ELYRKLRVGQSFDGRVNARRFAKQQGYCVED 206
Query: 238 GGIIGLGEAEEDRVGXXXXXXXXXXXXESVPINALLAVKGTPLQDQKPVEIWEMIRMIAT 297
G + G+G E + + V + L +GTPL+ + +++I+
Sbjct: 207 GILTGVGNDIESTI--LSLRGMSTNDPDMVRVMTFLPQEGTPLEGFRDKSNLSELKIISV 264
Query: 298 ARIVMPKAMV 307
R++ PK ++
Sbjct: 265 LRLMFPKRLI 274
>pdb|4EGE|A Chain A, Crystal Structure Of Dipeptidase Pepe From Mycobacterium
Ulcerans
Length = 378
Score = 33.9 bits (76), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 38/85 (44%), Gaps = 5/85 (5%)
Query: 72 HGAQVHRHAHNFREVQQCTLLSIKTGGCSEDCSYCPQSSRYDTGVKGQKLMTKDAVMQAA 131
HGA H H ++ R++Q ++ + GG E Y + Y G + + + +Q A
Sbjct: 212 HGADPH-HGYSDRKLQVGDIVVVDIGGTYEPGYYSDSTRTYSIGDPSPDVAQQYSALQRA 270
Query: 132 QKAK----EAGSTRFCMGAAWRDTI 152
Q+A G T + AA RD +
Sbjct: 271 QRAAVDAVRPGVTAAQVDAAARDVL 295
>pdb|1YIX|A Chain A, Crystal Structure Of Ycfh, Tatd Homolog From Escherichia
Coli K12, At 1.9 A Resolution
pdb|1YIX|B Chain B, Crystal Structure Of Ycfh, Tatd Homolog From Escherichia
Coli K12, At 1.9 A Resolution
Length = 265
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 34/133 (25%), Positives = 54/133 (40%), Gaps = 22/133 (16%)
Query: 137 AGSTRFCMGAA--------WRDTIGRKTN---------FNQILEY-VKDIRDMGMEV-CC 177
A +FC+ A RD +G + N NQ Y V+D+R + E
Sbjct: 31 ARDVKFCLAVATTLPSYLHMRDLVGERDNVVFSCGVHPLNQNDPYDVEDLRRLAAEEGVV 90
Query: 178 TLGM--LEKHQAIELKKAGLTAYNHNLDTSREFYSKIITTRSYDERLETLKHVREAGINV 235
LG L+ + E K ++ H++ RE +K + + D R +TL +RE +
Sbjct: 91 ALGETGLDYYYTPETKVRQQESFIHHIQIGREL-NKPVIVHTRDARADTLAILREEKVTD 149
Query: 236 CSGGIIGLGEAEE 248
C G + E E
Sbjct: 150 CGGVLHCFTEDRE 162
>pdb|2FB2|A Chain A, Structure Of The Moaa Arg17266268ALA TRIPLE MUTANT
pdb|2FB2|B Chain B, Structure Of The Moaa Arg17266268ALA TRIPLE MUTANT
Length = 340
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 42/158 (26%), Positives = 63/158 (39%), Gaps = 16/158 (10%)
Query: 96 TGGCSEDCSYC-PQSSRYDTGV--KGQKLMTKDAVMQAAQKAKEAGSTRFCMGAA----W 148
T C+ C YC P+ D V +L+T D + + A+ E G + +
Sbjct: 21 TDRCNFRCDYCMPKEVFGDDFVFLPKNELLTFDEMARIAKVYAELGVKKIRITGGEPLMR 80
Query: 149 RDTIGRKTNFNQILEYVKDIRDMGMEVCCTLGMLEKHQAIELKKAGLTAYNHNLDTSREF 208
RD NQI I D+G+ T G+L K +L AGL N +LD +
Sbjct: 81 RDLDVLIAKLNQI----DGIEDIGL---TTNGLLLKKHGQKLYDAGLRRINVSLDAIDDT 133
Query: 209 YSKIITTRSYDER--LETLKHVREAGINVCSGGIIGLG 244
+ I R+ LE + + G+NV +I G
Sbjct: 134 LFQSINNRNIKATTILEQIDYATSIGLNVKVNVVIQKG 171
>pdb|1TV7|A Chain A, Structure Of The S-adenosylmethionine Dependent Enzyme
Moaa
pdb|1TV7|B Chain B, Structure Of The S-adenosylmethionine Dependent Enzyme
Moaa
pdb|1TV8|A Chain A, Structure Of Moaa In Complex With S-Adenosylmethionine
pdb|1TV8|B Chain B, Structure Of Moaa In Complex With S-Adenosylmethionine
pdb|2FB3|A Chain A, Structure Of Moaa In Complex With 5'-Gtp
pdb|2FB3|B Chain B, Structure Of Moaa In Complex With 5'-Gtp
Length = 340
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 42/158 (26%), Positives = 63/158 (39%), Gaps = 16/158 (10%)
Query: 96 TGGCSEDCSYC-PQSSRYDTGV--KGQKLMTKDAVMQAAQKAKEAGSTRFCMGAA----W 148
T C+ C YC P+ D V +L+T D + + A+ E G + +
Sbjct: 21 TDRCNFRCDYCMPKEVFGDDFVFLPKNELLTFDEMARIAKVYAELGVKKIRITGGEPLMR 80
Query: 149 RDTIGRKTNFNQILEYVKDIRDMGMEVCCTLGMLEKHQAIELKKAGLTAYNHNLDTSREF 208
RD NQI I D+G+ T G+L K +L AGL N +LD +
Sbjct: 81 RDLDVLIAKLNQI----DGIEDIGL---TTNGLLLKKHGQKLYDAGLRRINVSLDAIDDT 133
Query: 209 YSKIITTRSYDER--LETLKHVREAGINVCSGGIIGLG 244
+ I R+ LE + + G+NV +I G
Sbjct: 134 LFQSINNRNIKATTILEQIDYATSIGLNVKVNVVIQKG 171
>pdb|2PI2|A Chain A, Full-Length Replication Protein A Subunits Rpa14 And Rpa32
pdb|2PI2|B Chain B, Full-Length Replication Protein A Subunits Rpa14 And Rpa32
pdb|2PI2|C Chain C, Full-Length Replication Protein A Subunits Rpa14 And Rpa32
pdb|2PI2|D Chain D, Full-Length Replication Protein A Subunits Rpa14 And Rpa32
pdb|2Z6K|A Chain A, Crystal Structure Of Full-Length Human Rpa1432 HETERODIMER
pdb|2Z6K|B Chain B, Crystal Structure Of Full-Length Human Rpa1432 HETERODIMER
Length = 270
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 31/73 (42%), Gaps = 2/73 (2%)
Query: 271 ALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAMVRLSAGRVRFSMPEQALCFLAGAN 330
+L+A K PL+D E I + A +V+ KA + SAGR S P + G N
Sbjct: 140 SLVAFKIMPLEDMN--EFTTHILEVINAHMVLSKANSQPSAGRAPISNPGMSEAGNFGGN 197
Query: 331 SIFTGEKLLTTPN 343
S L N
Sbjct: 198 SFMPANGLTVAQN 210
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 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,815,276
Number of Sequences: 62578
Number of extensions: 368209
Number of successful extensions: 749
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 742
Number of HSP's gapped (non-prelim): 11
length of query: 386
length of database: 14,973,337
effective HSP length: 101
effective length of query: 285
effective length of database: 8,652,959
effective search space: 2466093315
effective search space used: 2466093315
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: 52 (24.6 bits)