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= 040740
(217 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2BGH|A Chain A, Crystal Structure Of Vinorine Synthase
pdb|2BGH|B Chain B, Crystal Structure Of Vinorine Synthase
Length = 421
Score = 128 bits (321), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 77/198 (38%), Positives = 107/198 (54%), Gaps = 18/198 (9%)
Query: 28 PKMEKALEVLVRARESIKPAYPTPEHLRNFKLSLMDQITFPAYVSTIFLYK--ADGNVKA 85
P+MEK E E I P+ PTP+ L+ +K+S +DQ+ ++ I Y D N+
Sbjct: 3 PQMEKVSE------ELILPSSPTPQSLKCYKISHLDQLLLTCHIPFILFYPNPLDSNLDP 56
Query: 86 DQISQCLKSSLSKTLTKFYPLAGRVKDDFSIECNDEGAEYVEALANGFLFEYLQ------ 139
Q SQ LK SLSK LT FYPLAGR+ + S++CND G +VEA L + +Q
Sbjct: 57 AQTSQHLKQSLSKVLTHFYPLAGRINVNSSVDCNDSGVPFVEARVQAQLSQAIQNVVELE 116
Query: 140 KPDQNLLRDFHPFNYAESPVASNGGPMMRIQATFFKCGGLAITVCTCHKLIDGVSLGIFV 199
K DQ L +P E N + ++ +FF+CGG AI V HK+ D +SL F+
Sbjct: 117 KLDQYLPSAAYPGGKIE----VNEDVPLAVKISFFECGGTAIGVNLSHKIADVLSLATFL 172
Query: 200 NSWTTTARAGNKEVVPRF 217
N+WT T R + V+P F
Sbjct: 173 NAWTATCRGETEIVLPNF 190
>pdb|4G0B|A Chain A, Structure Of Native Hct From Coffea Canephora
pdb|4G0B|B Chain B, Structure Of Native Hct From Coffea Canephora
Length = 436
Score = 91.7 bits (226), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 59/188 (31%), Positives = 101/188 (53%), Gaps = 11/188 (5%)
Query: 33 ALEVLVRARESIKPAYPTPEHLRNFKLSLMDQITFPAYVSTIFLYKADGNVKADQISQCL 92
A+++ V+ ++PA TP RN S +D + + +++ Y+ G+ ++ L
Sbjct: 2 AMKIEVKESTMVRPAQETPG--RNLWNSNVDLVVPNFHTPSVYFYRPTGSSNFFD-AKVL 58
Query: 93 KSSLSKTLTKFYPLAGRVKDD----FSIECNDEGAEYVEALANGFLFEYLQ-KPDQNLLR 147
K +LS+ L FYP+AGR+K D IECN EG +VEA ++G + ++ P L R
Sbjct: 59 KDALSRALVPFYPMAGRLKRDEDGRIEIECNGEGVLFVEAESDGVVDDFGDFAPTLELRR 118
Query: 148 DFHPFNYAESPVASNGGPMMRIQATFFKCGGLAITVCTCHKLIDGVSLGIFVNSWTTTAR 207
+Y++ ++S ++ +Q T+FKCGG+++ V H DG S F+NSW+ AR
Sbjct: 119 LIPAVDYSQG-ISSYA--LLVLQVTYFKCGGVSLGVGMRHHAADGFSGLHFINSWSDMAR 175
Query: 208 AGNKEVVP 215
+ + P
Sbjct: 176 GLDVTLPP 183
>pdb|4G2M|A Chain A, Structure Of A Lys-Hct Mutant From Coffea Canephora
(Crystal Form 2)
Length = 439
Score = 90.5 bits (223), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 58/188 (30%), Positives = 101/188 (53%), Gaps = 11/188 (5%)
Query: 33 ALEVLVRARESIKPAYPTPEHLRNFKLSLMDQITFPAYVSTIFLYKADGNVKADQISQCL 92
++++ V+ ++PA TP RN S +D + + +++ Y+ G+ ++ L
Sbjct: 5 SMKIEVKESTMVRPAQETPG--RNLWNSNVDLVVPNFHTPSVYFYRPTGSSNFFD-AKVL 61
Query: 93 KSSLSKTLTKFYPLAGRVKDD----FSIECNDEGAEYVEALANGFLFEYLQ-KPDQNLLR 147
K +LS+ L FYP+AGR+K D IECN EG +VEA ++G + ++ P L R
Sbjct: 62 KDALSRALVPFYPMAGRLKRDEDGRIEIECNGEGVLFVEAESDGVVDDFGDFAPTLELRR 121
Query: 148 DFHPFNYAESPVASNGGPMMRIQATFFKCGGLAITVCTCHKLIDGVSLGIFVNSWTTTAR 207
+Y++ ++S ++ +Q T+FKCGG+++ V H DG S F+NSW+ AR
Sbjct: 122 LIPAVDYSQG-ISSYA--LLVLQVTYFKCGGVSLGVGMRHHAADGFSGLHFINSWSDMAR 178
Query: 208 AGNKEVVP 215
+ + P
Sbjct: 179 GLDVTLPP 186
>pdb|4G22|A Chain A, Structure Of A Lys-Hct Mutant From Coffea Canephora
(Crystal Form 1)
pdb|4G22|B Chain B, Structure Of A Lys-Hct Mutant From Coffea Canephora
(Crystal Form 1)
Length = 439
Score = 86.3 bits (212), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 57/188 (30%), Positives = 100/188 (53%), Gaps = 11/188 (5%)
Query: 33 ALEVLVRARESIKPAYPTPEHLRNFKLSLMDQITFPAYVSTIFLYKADGNVKADQISQCL 92
++++ V+ ++PA TP RN S +D + + +++ Y+ G+ ++ L
Sbjct: 5 SMKIEVKESTMVRPAQETPG--RNLWNSNVDLVVPNFHTPSVYFYRPTGSSNFFD-AKVL 61
Query: 93 KSSLSKTLTKFYPLAGRVKDD----FSIECNDEGAEYVEALANGFLFEYLQ-KPDQNLLR 147
K +LS+ L FYP+AGR+K D IECN EG +VEA ++G + ++ P L R
Sbjct: 62 KDALSRALVPFYPMAGRLKRDEDGRIEIECNGEGVLFVEAESDGVVDDFGDFAPTLELRR 121
Query: 148 DFHPFNYAESPVASNGGPMMRIQATFFKCGGLAITVCTCHKLIDGVSLGIFVNSWTTTAR 207
+Y++ ++S ++ +Q T+FK GG+++ V H DG S F+NSW+ AR
Sbjct: 122 LIPAVDYSQG-ISSYA--LLVLQVTYFKXGGVSLGVGMRHHAADGFSGLHFINSWSDMAR 178
Query: 208 AGNKEVVP 215
+ + P
Sbjct: 179 GLDVTLPP 186
>pdb|2E1V|A Chain A, Crystal Structure Of Dendranthema Morifolium Dmat, Seleno-
Methionine Derivative
pdb|2E1V|B Chain B, Crystal Structure Of Dendranthema Morifolium Dmat, Seleno-
Methionine Derivative
Length = 454
Score = 47.4 bits (111), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 39/133 (29%), Positives = 55/133 (41%), Gaps = 14/133 (10%)
Query: 92 LKSSLSKTLTKFYPLAGRVKDDFSIECNDEGAEYVEALANGFLFEYLQKPDQNLLRDFHP 151
+K SLS TL FYP G++ + YVE + F D N L HP
Sbjct: 65 IKHSLSITLKHFYPFVGKLVV-YPAPTKKPEICYVEGDSVAVTFAECNL-DLNELTGNHP 122
Query: 152 FN----YAESPVASNGG--------PMMRIQATFFKCGGLAITVCTCHKLIDGVSLGIFV 199
N Y P+ P+ +Q T F G+AI + H L D + F+
Sbjct: 123 RNCDKFYDLVPILGESTRLSDCIKIPLFSVQVTLFPNQGIAIGITNHHCLGDASTRFCFL 182
Query: 200 NSWTTTARAGNKE 212
+WT+ AR+GN +
Sbjct: 183 KAWTSIARSGNND 195
>pdb|2E1T|A Chain A, Crystal Structure Of Dendranthema Morifolium Dmat
Complexed With Malonyl-coa
pdb|2E1T|B Chain B, Crystal Structure Of Dendranthema Morifolium Dmat
Complexed With Malonyl-coa
pdb|2E1U|A Chain A, Crystal Structure Of Dendranthema Morifolium Dmat
pdb|2E1U|B Chain B, Crystal Structure Of Dendranthema Morifolium Dmat
Length = 454
Score = 47.4 bits (111), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 39/133 (29%), Positives = 55/133 (41%), Gaps = 14/133 (10%)
Query: 92 LKSSLSKTLTKFYPLAGRVKDDFSIECNDEGAEYVEALANGFLFEYLQKPDQNLLRDFHP 151
+K SLS TL FYP G++ + YVE + F D N L HP
Sbjct: 65 IKHSLSITLKHFYPFVGKLVV-YPAPTKKPEICYVEGDSVAVTFAECNL-DLNELTGNHP 122
Query: 152 FN----YAESPVASNGG--------PMMRIQATFFKCGGLAITVCTCHKLIDGVSLGIFV 199
N Y P+ P+ +Q T F G+AI + H L D + F+
Sbjct: 123 RNCDKFYDLVPILGESTRLSDCIKIPLFSVQVTLFPNQGIAIGITNHHCLGDASTRFCFL 182
Query: 200 NSWTTTARAGNKE 212
+WT+ AR+GN +
Sbjct: 183 KAWTSIARSGNND 195
>pdb|2XR7|A Chain A, Crystal Structure Of Nicotiana Tabacum Malonyltransferase
(Ntmat1) Complexed With Malonyl-Coa
Length = 453
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 41/139 (29%), Positives = 56/139 (40%), Gaps = 18/139 (12%)
Query: 88 ISQCLKSSLSKTLTKFYPLAGRVK--DDFSIECNDEGAEYVEALANGFLFEYLQKPDQNL 145
I LK SLS TL + PLAG V D+S YV + +F D N
Sbjct: 56 IIPTLKDSLSLTLKYYLPLAGNVACPQDWS---GYPELRYVTGNSVSVIFSE-SDXDFNY 111
Query: 146 LRDFHPFNYAE---------SPVASNG---GPMMRIQATFFKCGGLAITVCTCHKLIDGV 193
L +HP N + P + G P++ IQ T F G++I H DG
Sbjct: 112 LIGYHPRNTKDFYHFVPQLAEPKDAPGVQLAPVLAIQVTLFPNHGISIGFTNHHVAGDGA 171
Query: 194 SLGIFVNSWTTTARAGNKE 212
++ FV +W + G E
Sbjct: 172 TIVKFVRAWALLNKFGGDE 190
>pdb|2WV0|A Chain A, Crystal Structure Of The Gntr-Hutc Family Member Yvoa From
Bacillus Subtilis
pdb|2WV0|B Chain B, Crystal Structure Of The Gntr-Hutc Family Member Yvoa From
Bacillus Subtilis
pdb|2WV0|C Chain C, Crystal Structure Of The Gntr-Hutc Family Member Yvoa From
Bacillus Subtilis
pdb|2WV0|D Chain D, Crystal Structure Of The Gntr-Hutc Family Member Yvoa From
Bacillus Subtilis
pdb|2WV0|E Chain E, Crystal Structure Of The Gntr-Hutc Family Member Yvoa From
Bacillus Subtilis
pdb|2WV0|F Chain F, Crystal Structure Of The Gntr-Hutc Family Member Yvoa From
Bacillus Subtilis
pdb|2WV0|G Chain G, Crystal Structure Of The Gntr-Hutc Family Member Yvoa From
Bacillus Subtilis
pdb|2WV0|H Chain H, Crystal Structure Of The Gntr-Hutc Family Member Yvoa From
Bacillus Subtilis
pdb|2WV0|I Chain I, Crystal Structure Of The Gntr-Hutc Family Member Yvoa From
Bacillus Subtilis
pdb|2WV0|J Chain J, Crystal Structure Of The Gntr-Hutc Family Member Yvoa From
Bacillus Subtilis
Length = 243
Score = 28.5 bits (62), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 22/54 (40%), Positives = 29/54 (53%), Gaps = 6/54 (11%)
Query: 4 SRAT-RQALKSILTRSLQTVAK-----VAKPKMEKALEVLVRARESIKPAYPTP 51
SR T RQAL +++ L K V+KPKME+AL+ L E +K TP
Sbjct: 47 SRMTVRQALSNLVNEGLLYRLKGRGTFVSKPKMEQALQGLTSFTEDMKSRGMTP 100
>pdb|3OL2|B Chain B, Receptor-Ligand Structure Of Human Semaphorin 4d With
Plexin B1
Length = 528
Score = 27.3 bits (59), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 16/26 (61%)
Query: 146 LRDFHPFNYAESPVASNGGPMMRIQA 171
LRD H ++Y E P+A GG IQA
Sbjct: 237 LRDQHYYSYVELPLACEGGRYGLIQA 262
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 0.134 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,023,475
Number of Sequences: 62578
Number of extensions: 229247
Number of successful extensions: 526
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 506
Number of HSP's gapped (non-prelim): 12
length of query: 217
length of database: 14,973,337
effective HSP length: 95
effective length of query: 122
effective length of database: 9,028,427
effective search space: 1101468094
effective search space used: 1101468094
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 49 (23.5 bits)