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= psy5230
(258 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3Q0I|A Chain A, Methionyl-Trna Formyltransferase From Vibrio Cholerae
Length = 318
Score = 85.1 bits (209), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 75/284 (26%), Positives = 127/284 (44%), Gaps = 64/284 (22%)
Query: 1 MKIIFAGTSISAAAILDTLYNSEHNIVLILTKPDLHSGRGMKLNFSPVKKYALKHSIKII 60
++I+FAGT AA L L +SEH I+ + T+P+ +GRG KL SPVK AL+H++ +
Sbjct: 8 LRIVFAGTPDFAARHLAALLSSEHEIIAVYTQPERPAGRGKKLTASPVKTLALEHNVPVY 67
Query: 61 QPISLKLNGKYHKIANETHK---------LLNKIEFD------IMIVMGILPE------- 98
QP + K + ++A LL K+ D I + ILP
Sbjct: 68 QPENFKSDESKQQLAALNADLXVVVAYGLLLPKVVLDTPKLGCINVHGSILPRWRGAAPI 127
Query: 99 ---------DTSLTLQNKLEKL--SKILIIDTIKKIEYDMTKLFFK------PQS----- 136
+T +T+ L L I T+ D + + PQ+
Sbjct: 128 QRSIWAGDSETGVTIXQXDVGLDTGDXLKIATLPIEASDTSASXYDKLAELGPQALLECL 187
Query: 137 -NIGESYAPLIKKNEAV-------------LDWSLSAKTIMRKINAFNPFPGAKTYYISY 182
+I + A +K+++ + ++WS +A I R I AFNP+P + +
Sbjct: 188 QDIAQGTAVAVKQDDGLANYAHKLSKEEARINWSDAATHIERCIRAFNPWPXSH-----F 242
Query: 183 QNKKKFLKIWKAHALSIESTKKPGTILNVNFHNGILVVCGKNVI 226
+ + +K+W+A + T+ PGTI+ + +GI V G++V+
Sbjct: 243 EVAENSIKVWQARVETRAVTQTPGTIIQAD-KSGIYVATGQDVL 285
>pdb|3R8X|A Chain A, Crystal Structure Of Methionyl-Trna Formyltransferase From
Yersinia Pestis Complexed With L-Methionine
Length = 318
Score = 82.4 bits (202), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 55/173 (31%), Positives = 88/173 (50%), Gaps = 14/173 (8%)
Query: 74 IANETHKLLNKIEFDIMIVMGILPEDTSLTLQNKLEKLSKILIIDTIKKIEYDMTKLFFK 133
I +T +L+KIE I PEDTS TL +KL +L ++ T++++ +
Sbjct: 147 IGLDTGAMLHKIE------CAIQPEDTSATLYDKLAQLGPQGLLITLQQLAAGTA--LAE 198
Query: 134 PQSNIGESYAPLIKKNEAVLDWSLSAKTIMRKINAFNPFPGAKTYYISYQNKKKFLKIWK 193
Q+ +YA + K EA LDW+LSA + R I AFNP+P +Y+I ++ +K+W+
Sbjct: 199 VQNETQATYAEKLSKEEAKLDWTLSATQLERCIRAFNPWP--VSYFIV---DEQPIKVWQ 253
Query: 194 AHALSIESTKKPGTILNVNFHNGILVVCGKNVIXXXXXXXXXXXXISATEFIN 246
A L +PGTI++ + H GI V V+ +SA + +N
Sbjct: 254 AQVLPAGEDAEPGTIIHADKH-GIQVATADGVLNITQLQPAGKKAMSAADLLN 305
Score = 69.3 bits (168), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 42/100 (42%), Positives = 56/100 (56%), Gaps = 11/100 (11%)
Query: 1 MKIIFAGTSISAAAILDTLYNSEHNIVLILTKPDLHSGRGMKLNFSPVKKYALKHSIKII 60
++IIFAGT AA L L +S+H IV + T+PD +GRG KL SPVK A H I +
Sbjct: 8 LRIIFAGTPDFAARHLGALLSSQHKIVGVFTQPDRPAGRGNKLTPSPVKILAEHHGIPVF 67
Query: 61 QPISLKLNGKYHKIANETHKLLNKIEFDIMIVMG---ILP 97
QP SL+ H +A+ + DIM+V+ ILP
Sbjct: 68 QPKSLRPEENQHLVAD--------LNADIMVVVAYGLILP 99
>pdb|1FMT|A Chain A, Methionyl-Trnafmet Formyltransferase From Escherichia Coli
pdb|1FMT|B Chain B, Methionyl-Trnafmet Formyltransferase From Escherichia Coli
pdb|2FMT|A Chain A, Methionyl-Trnafmet Formyltransferase Complexed With
Formyl- Methionyl-Trnafmet
pdb|2FMT|B Chain B, Methionyl-Trnafmet Formyltransferase Complexed With
Formyl- Methionyl-Trnafmet
Length = 314
Score = 77.0 bits (188), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 49/152 (32%), Positives = 77/152 (50%), Gaps = 8/152 (5%)
Query: 95 ILPEDTSLTLQNKLEKLSKILIIDTIKKIEYDMTKLFFKPQSNIGESYAPLIKKNEAVLD 154
I EDTS TL +KL +L +I T+K++ K + ++ + +YA + K EA +D
Sbjct: 158 ITAEDTSGTLYDKLAELGPQGLITTLKQLADGTAKPEVQDETLV--TYAEKLSKEEARID 215
Query: 155 WSLSAKTIMRKINAFNPFPGAKTYYISYQNKKKFLKIWKAHALSIESTKKPGTILNVNFH 214
WSLSA + R I AFNP+P ++ + + +K+WKA + + PGTIL N
Sbjct: 216 WSLSAAQLERCIRAFNPWP---MSWLEIEGQP--VKVWKASVIDTATNAAPGTILEAN-K 269
Query: 215 NGILVVCGKNVIXXXXXXXXXXXXISATEFIN 246
GI V G ++ +SA + +N
Sbjct: 270 QGIQVATGDGILNLLSLQPAGKKAMSAQDLLN 301
Score = 74.3 bits (181), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 40/100 (40%), Positives = 60/100 (60%), Gaps = 11/100 (11%)
Query: 1 MKIIFAGTSISAAAILDTLYNSEHNIVLILTKPDLHSGRGMKLNFSPVKKYALKHSIKII 60
++IIFAGT AA LD L +S HN+V + T+PD +GRG KL SPVK A + + +
Sbjct: 4 LRIIFAGTPDFAARHLDALLSSGHNVVGVFTQPDRPAGRGKKLMPSPVKVLAEEKGLPVF 63
Query: 61 QPISLKLNGKYHKIANETHKLLNKIEFDIMIVMG---ILP 97
QP+SL+ E +L+ +++ D+M+V+ ILP
Sbjct: 64 QPVSLR--------PQENQQLVAELQADVMVVVAYGLILP 95
>pdb|3TQQ|A Chain A, Structure Of The Methionyl-Trna Formyltransferase (Fmt)
From Coxiella Burnetii
Length = 314
Score = 75.5 bits (184), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 44/149 (29%), Positives = 78/149 (52%), Gaps = 8/149 (5%)
Query: 98 EDTSLTLQNKLEKLSKILIIDTIKKIEYDMTKLFFKPQSNIGESYAPLIKKNEAVLDWSL 157
EDT+ L ++L + L+++++ K+E KL + Q +YA I+K EA++DW
Sbjct: 160 EDTAADLHDRLSLIGADLLLESLAKLEKGDIKL--EKQDEASATYASKIQKQEALIDWRK 217
Query: 158 SAKTIMRKINAFNPFPGAKTYYISYQNKKKFLKIWKAHALSIESTKKPGTILNVNFHNGI 217
SA I R++ AFNP P A TY+ + + +IW+A + ++ +PG +++ + GI
Sbjct: 218 SAVEIARQVRAFNPTPIAFTYF-----EGQPXRIWRATVVDEKTDFEPGVLVDAD-KKGI 271
Query: 218 LVVCGKNVIXXXXXXXXXXXXISATEFIN 246
+ G ++ SA +FIN
Sbjct: 272 SIAAGSGILRLHQLQLPGKRVCSAGDFIN 300
Score = 65.5 bits (158), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 31/66 (46%), Positives = 43/66 (65%)
Query: 1 MKIIFAGTSISAAAILDTLYNSEHNIVLILTKPDLHSGRGMKLNFSPVKKYALKHSIKII 60
+KI+FAGT A L L +S H ++ + T+PD SGRG K+ SPVK+ A ++ I II
Sbjct: 3 LKIVFAGTPQFAVPTLRALIDSSHRVLAVYTQPDRPSGRGQKIXESPVKEIARQNEIPII 62
Query: 61 QPISLK 66
QP SL+
Sbjct: 63 QPFSLR 68
>pdb|4IQF|A Chain A, Crystal Structure Of Methyionyl-trna Formyltransferase
From Bacillus Anthracis
pdb|4IQF|B Chain B, Crystal Structure Of Methyionyl-trna Formyltransferase
From Bacillus Anthracis
pdb|4IQF|C Chain C, Crystal Structure Of Methyionyl-trna Formyltransferase
From Bacillus Anthracis
pdb|4IQF|D Chain D, Crystal Structure Of Methyionyl-trna Formyltransferase
From Bacillus Anthracis
Length = 317
Score = 65.1 bits (157), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 60/280 (21%), Positives = 110/280 (39%), Gaps = 64/280 (22%)
Query: 1 MKIIFAGTSISAAAILDTLYNSEHNIVLILTKPDLHSGRGMKLNFSPVKKYALKHSIKII 60
+K++F GT + +L L ++++ ++T+PD GR L +PVK A KH I ++
Sbjct: 5 IKVVFXGTPDFSVPVLRRLIEDGYDVIGVVTQPDRPVGRKKVLTPTPVKVEAEKHGIPVL 64
Query: 61 QPISLKLNGKYHKIANETHKLLNKIEFD---------------IMIVMGILP-------- 97
QP+ ++ +Y K+ L+ F I + +LP
Sbjct: 65 QPLRIREKDEYEKVLALEPDLIVTAAFGQIVPNEILEAPKYGCINVHASLLPELRGGAPI 124
Query: 98 --------EDTSLTLQNKLEKL--SKILIIDTIKKIEYDMTKLFFKPQSNIGE------- 140
E T +T+ +EKL IL ++ E + T F S G
Sbjct: 125 HYAIXEGKEKTGITIXYXVEKLDAGDILTQVEVEIEERETTGSLFDKLSEAGAHLLSKTV 184
Query: 141 ------------------SYAPLIKKNEAVLDWSLSAKTIMRKINAFNPFPGAKTYYISY 182
++A IK+ + +DW+ + + + I NP+P A T
Sbjct: 185 PLLIQGKLEPIKQNEEEVTFAYNIKREQEKIDWTKTGEEVYNHIRGLNPWPVAYTTLAG- 243
Query: 183 QNKKKFLKIWKAHALSIESTKKPGTILNVNFHNGILVVCG 222
+ +K+W + + + + GTI+ + +G +V G
Sbjct: 244 ----QVVKVWWGEKVPVTKSAEAGTIVAIE-EDGFVVATG 278
>pdb|1YRW|A Chain A, Crystal Structure Of E.Coli Arna Transformylase Domain
Length = 302
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 33/152 (21%), Positives = 72/152 (47%), Gaps = 14/152 (9%)
Query: 79 HKLLNKIEFDIMIV---MGILPEDTSLTLQNKLEKLSKILIIDTIKKIEYDMTKLFFKPQ 135
H+++ + + ++ + I P+D ++TL +KL ++ L+ T+ I++ L +
Sbjct: 133 HRMVKRADAGAIVAQLRIAIAPDDIAITLHHKLCHAARQLLEQTLPAIKHG-NILEIAQR 191
Query: 136 SNIGESYAPLIKKNEAVLDWSLSAKTIMRKINAF-NPFPGAKTYYISYQNKKKFLKIWKA 194
N + +++ L+W A + + A +P+PGA SY +KF +W +
Sbjct: 192 ENEATCFG-RRTPDDSFLEWHKPASVLHNMVRAVADPWPGA----FSYVGNQKF-TVWSS 245
Query: 195 HALSIESTKKPGTILNVNFHNGILVVCGKNVI 226
S +PG++++V +L+ CG +
Sbjct: 246 RVHPHASKAQPGSVISV---APLLIACGDGAL 274
>pdb|2BLN|A Chain A, N-Terminal Formyltransferase Domain Of Arna In Complex
With N-5-Formyltetrahydrofolate And Ump
pdb|2BLN|B Chain B, N-Terminal Formyltransferase Domain Of Arna In Complex
With N-5-Formyltetrahydrofolate And Ump
Length = 305
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 33/152 (21%), Positives = 72/152 (47%), Gaps = 14/152 (9%)
Query: 79 HKLLNKIEFDIMIV---MGILPEDTSLTLQNKLEKLSKILIIDTIKKIEYDMTKLFFKPQ 135
H+++ + + ++ + I P+D ++TL +KL ++ L+ T+ I++ L +
Sbjct: 133 HRMVKRADAGAIVAQLRIAIAPDDIAITLHHKLCHAARQLLEQTLPAIKHG-NILEIAQR 191
Query: 136 SNIGESYAPLIKKNEAVLDWSLSAKTIMRKINAF-NPFPGAKTYYISYQNKKKFLKIWKA 194
N + +++ L+W A + + A +P+PGA SY +KF +W +
Sbjct: 192 ENEATCFG-RRTPDDSFLEWHKPASVLHNMVRAVADPWPGA----FSYVGNQKF-TVWSS 245
Query: 195 HALSIESTKKPGTILNVNFHNGILVVCGKNVI 226
S +PG++++V +L+ CG +
Sbjct: 246 RVHPHASKAQPGSVISV---APLLIACGDGAL 274
>pdb|1Z7E|A Chain A, Crystal Structure Of Full Length Arna
pdb|1Z7E|B Chain B, Crystal Structure Of Full Length Arna
pdb|1Z7E|C Chain C, Crystal Structure Of Full Length Arna
pdb|1Z7E|D Chain D, Crystal Structure Of Full Length Arna
pdb|1Z7E|E Chain E, Crystal Structure Of Full Length Arna
pdb|1Z7E|F Chain F, Crystal Structure Of Full Length Arna
Length = 660
Score = 44.7 bits (104), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 33/152 (21%), Positives = 72/152 (47%), Gaps = 14/152 (9%)
Query: 79 HKLLNKIEFDIMIV---MGILPEDTSLTLQNKLEKLSKILIIDTIKKIEYDMTKLFFKPQ 135
H+++ + + ++ + I P+D ++TL +KL ++ L+ T+ I++ L +
Sbjct: 133 HRMVKRADAGAIVAQLRIAIAPDDIAITLHHKLCHAARQLLEQTLPAIKHGNI-LEIAQR 191
Query: 136 SNIGESYAPLIKKNEAVLDWSLSAKTIMRKINAF-NPFPGAKTYYISYQNKKKFLKIWKA 194
N + +++ L+W A + + A +P+PGA SY +KF +W +
Sbjct: 192 ENEATCFGRRT-PDDSFLEWHKPASVLHNMVRAVADPWPGA----FSYVGNQKF-TVWSS 245
Query: 195 HALSIESTKKPGTILNVNFHNGILVVCGKNVI 226
S +PG++++V +L+ CG +
Sbjct: 246 RVHPHASKAQPGSVISV---APLLIACGDGAL 274
>pdb|1S3I|A Chain A, Crystal Structure Of The N Terminal Hydrolase Domain Of
10- Formyltetrahydrofolate Dehydrogenase
Length = 310
Score = 35.8 bits (81), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 32/123 (26%), Positives = 50/123 (40%), Gaps = 13/123 (10%)
Query: 95 ILPEDTSLTLQNKLEKLSKI-LIIDTIKKIEYDMTKLFFKPQSNIGESYAPLIKKNEAVL 153
+LP+DT TL N+ I ++ ++ I PQS G +Y + KK A +
Sbjct: 154 VLPDDTVSTLYNRFLFPEGIKGMVQAVRLIAEGTAPRC--PQSEEGATYEGIQKKETAKI 211
Query: 154 DWSLSAKTIMRKINAFNPFPGAK--------TYYISYQNKKKFLKIWKAHALSIESTKKP 205
+W A+ I I + PGA T++ S N + AL I +P
Sbjct: 212 NWDQPAEAIHNWIRGNDKVPGAWTEACGQKLTFFNSTLNTSGLST--QGEALPIPGAHRP 269
Query: 206 GTI 208
G +
Sbjct: 270 GVV 272
>pdb|2BW0|A Chain A, Crystal Structure Of The Hydrolase Domain Of Human 10-
Formyltetrahydrofolate 2 Dehydrogenase
pdb|2CFI|A Chain A, The Hydrolase Domain Of Human 10-Fthfd In Complex With 6-
Formyltetrahydropterin
Length = 329
Score = 35.8 bits (81), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 33/124 (26%), Positives = 53/124 (42%), Gaps = 15/124 (12%)
Query: 95 ILPEDTSLTLQNKLEKLSKI-LIIDTIKKI-EYDMTKLFFKPQSNIGESYAPLIKKNEAV 152
+LP+DT TL N+ I ++ ++ I E +L PQ G +Y + KK A
Sbjct: 176 VLPDDTVSTLYNRFLFPEGIKGMVQAVRLIAEGKAPRL---PQPEEGATYEGIQKKETAK 232
Query: 153 LDWSLSAKTIMRKINAFNPFPGAK--------TYYISYQNKKKFLKIWKAHALSIESTKK 204
++W A+ I I + PGA T++ S N + + AL I +
Sbjct: 233 INWDQPAEAIHNWIRGNDKVPGAWTEACEQKLTFFNSTLNTSGLVP--EGDALPIPGAHR 290
Query: 205 PGTI 208
PG +
Sbjct: 291 PGVV 294
>pdb|1QHL|A Chain A, Crystal Structure Of The N-Terminal Domain Of Mukb At 2.2a
Resolution
Length = 227
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 32/61 (52%), Gaps = 1/61 (1%)
Query: 14 AILDTLYNSEHNIVLILTKPDLHSGRGMKLNFSPVKKYALKHSIKIIQPISLKLNGKYHK 73
++LDT+ NS H V++ + +GR K++ P L S++ Q ++ LN + +
Sbjct: 88 SMLDTI-NSRHQRVVVGVRLQQVAGRDRKVDIKPFAIQGLPMSVQPTQLVTETLNERQAR 146
Query: 74 I 74
+
Sbjct: 147 V 147
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
0.320 0.137 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,896,334
Number of Sequences: 62578
Number of extensions: 268268
Number of successful extensions: 631
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 604
Number of HSP's gapped (non-prelim): 28
length of query: 258
length of database: 14,973,337
effective HSP length: 97
effective length of query: 161
effective length of database: 8,903,271
effective search space: 1433426631
effective search space used: 1433426631
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: 50 (23.9 bits)