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= 042018
(346 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2L9N|A Chain A, Structure Of The Human Shwachman-Bodian-Diamond Syndrome
(Sbds) Protein
Length = 252
Score = 227 bits (578), Expect = 8e-60, Method: Compositional matrix adjust.
Identities = 119/248 (47%), Positives = 164/248 (66%), Gaps = 15/248 (6%)
Query: 2 SKTLVQPVGQKRLTNVAVVRLKKHGMRFEIACYKNKVLSWRSQVEKDLDEVLQSHTVYSN 61
S ++ P Q RLTNVAVVR+K+ G RFEIACYKNKV+ WRS VEKDLDEVLQ+H+V+ N
Sbjct: 2 SMSIFTPTNQIRLTNVAVVRMKRAGKRFEIACYKNKVVGWRSGVEKDLDEVLQTHSVFVN 61
Query: 62 VSKGILAKSKDLIQHL-----------ILEKGELQVAGKERETQFSNQFRDIATIVMQKT 110
VSKG +AK +DLI IL KGE+QV+ KER TQ FRDIATIV K
Sbjct: 62 VSKGQVAKKEDLISAFGTDDQTEICKQILTKGEVQVSDKERHTQLEQMFRDIATIVADKC 121
Query: 111 VNSETQRPYTISMIERLMHEIHFAVDPNSSSKKQALEVIRELQKHFPIKRSPMRVGLTVP 170
VN ET+RPYT+ +IER M +IH++V N S+K+QALEVI++L++ I+R+ MR+ +P
Sbjct: 122 VNPETKRPYTVILIERAMKDIHYSVKTNKSTKQQALEVIKQLKEKMKIERAHMRLRFILP 181
Query: 171 EQNISSLMEKLDAWNASIVSKDNSGSQLSLICEMEPGLFRDCDTLLR---NLQGRLEILA 227
N +++ ++ ++ G QL ++C ++PG FR+ D L++ +G LE+L
Sbjct: 182 -VNEGKKLKEKLKPLIKVIESEDYGQQLEIVCLIDPGCFREIDELIKKETKGKGSLEVLN 240
Query: 228 VSVHAEGD 235
+ EGD
Sbjct: 241 LKDVEEGD 248
>pdb|2KDO|A Chain A, Structure Of The Human Shwachman-Bodian-Diamond Syndrome
Protein, Sbds
Length = 252
Score = 226 bits (575), Expect = 2e-59, Method: Compositional matrix adjust.
Identities = 118/246 (47%), Positives = 163/246 (66%), Gaps = 15/246 (6%)
Query: 4 TLVQPVGQKRLTNVAVVRLKKHGMRFEIACYKNKVLSWRSQVEKDLDEVLQSHTVYSNVS 63
++ P Q RLTNVAVVR+K+ G RFEIACYKNKV+ WRS VEKDLDEVLQ+H+V+ NVS
Sbjct: 4 SIFTPTNQIRLTNVAVVRMKRAGKRFEIACYKNKVVGWRSGVEKDLDEVLQTHSVFVNVS 63
Query: 64 KGILAKSKDLIQHL-----------ILEKGELQVAGKERETQFSNQFRDIATIVMQKTVN 112
KG +AK +DLI IL KGE+QV+ KER TQ FRDIATIV K VN
Sbjct: 64 KGQVAKKEDLISAFGTDDQTEICKQILTKGEVQVSDKERHTQLEQMFRDIATIVADKCVN 123
Query: 113 SETQRPYTISMIERLMHEIHFAVDPNSSSKKQALEVIRELQKHFPIKRSPMRVGLTVPEQ 172
ET+RPYT+ +IER M +IH++V N S+K+QALEVI++L++ I+R+ MR+ +P
Sbjct: 124 PETKRPYTVILIERAMKDIHYSVKTNKSTKQQALEVIKQLKEKMKIERAHMRLRFILP-V 182
Query: 173 NISSLMEKLDAWNASIVSKDNSGSQLSLICEMEPGLFRDCDTLLR---NLQGRLEILAVS 229
N +++ ++ ++ G QL ++C ++PG FR+ D L++ +G LE+L +
Sbjct: 183 NEGKKLKEKLKPLIKVIESEDYGQQLEIVCLIDPGCFREIDELIKKETKGKGSLEVLNLK 242
Query: 230 VHAEGD 235
EGD
Sbjct: 243 DVEEGD 248
>pdb|1P9Q|C Chain C, Structure Of A Hypothetical Protein Af0491 From
Archaeoglobus Fulgidus
Length = 256
Score = 64.7 bits (156), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 48/216 (22%), Positives = 94/216 (43%), Gaps = 15/216 (6%)
Query: 14 LTNVAVVRLKKHGMRFEIACYKNKVLSWRSQVEKDLDEVLQSHTVYSNVSKGILAKSKDL 73
L + RL+K G FE+ + E + +++L + V+ + KG A +L
Sbjct: 26 LDKAVIARLRKGGEEFEVLVDPYLARDLKEGKEVNFEDLLAAEEVFKDAKKGERASVDEL 85
Query: 74 -----------IQHLILEKGELQVAGKERETQFSNQFRDIATIVMQKTVNSETQRPYTIS 122
I I+ +GE+Q+ ++R + + I + + T++ T P+ S
Sbjct: 86 RKIFGTDDVFEIARKIILEGEVQITAEQRREMLEAKRKQIINFISRNTIDPRTNAPHPPS 145
Query: 123 MIERLMHEIHFAVDPNSSSKKQALEVIRELQKHFPIKRSPMRVGLTVPEQNISSLMEKLD 182
IER + E +D S + Q ++++ L+ P+K M + + +P ++ + L
Sbjct: 146 RIERALEEAKVHIDIFKSVEAQVKDIVKALKPILPLKFEEMEIAIKIPPEHTGRAISAL- 204
Query: 183 AWNASIVSKDNSGSQLSLICEME--PGLFRDCDTLL 216
+N V+++ S IC M G++ D LL
Sbjct: 205 -YNFGGVTREEWQRDGSWICVMRIPSGMYGDLMDLL 239
>pdb|1T95|A Chain A, Crystal Structure Of The Shwachman-Bodian-Diamond Syndrome
Protein Orthologue From Archaeoglobus Fulgidus
Length = 240
Score = 60.8 bits (146), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 46/216 (21%), Positives = 92/216 (42%), Gaps = 15/216 (6%)
Query: 14 LTNVAVVRLKKHGMRFEIACYKNKVLSWRSQVEKDLDEVLQSHTVYSNVSKGILAKSKDL 73
L + RL+K G FE+ + E + +++L + V+ + KG A +L
Sbjct: 10 LDKAVIARLRKGGEEFEVLVDPYLARDLKEGKEVNFEDLLAAEEVFKDAKKGERASVDEL 69
Query: 74 -----------IQHLILEKGELQVAGKERETQFSNQFRDIATIVMQKTVNSETQRPYTIS 122
I I+ +GE+Q+ ++R + + I + + T++ T P+ S
Sbjct: 70 RKIFGTDDVFEIARKIILEGEVQITAEQRREXLEAKRKQIINFISRNTIDPRTNAPHPPS 129
Query: 123 MIERLMHEIHFAVDPNSSSKKQALEVIRELQKHFPIKRSPMRVGLTVPEQNISSLMEKLD 182
IER + E +D S + Q ++++ L+ P+K + + +P ++ + L
Sbjct: 130 RIERALEEAKVHIDIFKSVEAQVKDIVKALKPILPLKFEEXEIAIKIPPEHTGRAISAL- 188
Query: 183 AWNASIVSKDNSGSQLSLIC--EMEPGLFRDCDTLL 216
+N V+++ S IC + G + D LL
Sbjct: 189 -YNFGGVTREEWQRDGSWICVXRIPSGXYGDLXDLL 223
>pdb|2WBM|A Chain A, Crystal Structure Of Mthsbds, The Homologue Of The
Shwachman-Bodian-Diamond Syndrome Protein In The
Euriarchaeon Methanothermobacter Thermautotrophicus
pdb|2WBM|B Chain B, Crystal Structure Of Mthsbds, The Homologue Of The
Shwachman-Bodian-Diamond Syndrome Protein In The
Euriarchaeon Methanothermobacter Thermautotrophicus
Length = 252
Score = 58.2 bits (139), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 39/175 (22%), Positives = 80/175 (45%), Gaps = 12/175 (6%)
Query: 14 LTNVAVVRLKKHGMRFEIACYKNKVLSWRSQ-VEKDLDEVLQSHTVYSNVSKGILAKSKD 72
L + + RL+ HG RFE+ + +R + + +++VL V+ + KG A +
Sbjct: 24 LEDAVIARLESHGERFEVLVDPDLAAEFRREDSDVSVEDVLAVQEVFRDARKGDKASEEA 83
Query: 73 L-----------IQHLILEKGELQVAGKERETQFSNQFRDIATIVMQKTVNSETQRPYTI 121
+ + +IL +G +Q+ ++R ++ I + ++ +N + P+
Sbjct: 84 MRKVFETADPLEVTPVILRRGTIQLTAEQRRQMIEDKRLKIINKIAREAINPQNGLPHPP 143
Query: 122 SMIERLMHEIHFAVDPNSSSKKQALEVIRELQKHFPIKRSPMRVGLTVPEQNISS 176
IE+ M E VDP + +Q V++ ++ PIK +RV + +P + S
Sbjct: 144 KRIEKAMEEARVHVDPFKTVDEQVNIVLKAIRTKIPIKFEKVRVAIKIPGEMAGS 198
>pdb|1VM6|A Chain A, Crystal Structure Of Dihydrodipicolinate Reductase
(Tm1520) From Thermotoga Maritima At 2.27 A Resolution
pdb|1VM6|B Chain B, Crystal Structure Of Dihydrodipicolinate Reductase
(Tm1520) From Thermotoga Maritima At 2.27 A Resolution
pdb|1VM6|C Chain C, Crystal Structure Of Dihydrodipicolinate Reductase
(Tm1520) From Thermotoga Maritima At 2.27 A Resolution
pdb|1VM6|D Chain D, Crystal Structure Of Dihydrodipicolinate Reductase
(Tm1520) From Thermotoga Maritima At 2.27 A Resolution
Length = 228
Score = 31.6 bits (70), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 34/53 (64%), Gaps = 1/53 (1%)
Query: 138 NSSSKKQALEVIRELQKHFPIKRS-PMRVGLTVPEQNISSLMEKLDAWNASIV 189
++ K++ L+++REL K P+ ++ +G+ V ++ +S L++ L+ W+ IV
Sbjct: 84 TTALKEEHLQMLRELSKEVPVVQAYNFSIGINVLKRFLSELVKVLEDWDVEIV 136
>pdb|1S8O|A Chain A, Human Soluble Epoxide Hydrolase
pdb|1VJ5|A Chain A, Human Soluble Epoxide Hydrolase- N-Cyclohexyl-N'-(4-
Iodophenyl)urea Complex
pdb|1ZD2|P Chain P, Human Soluble Epoxide Hydrolase 4-(3-Cyclohexyluriedo)-
Ethanoic Acid Complex
pdb|1ZD3|A Chain A, Human Soluble Epoxide Hydrolase 4-(3-Cyclohexyluriedo)-
Butyric Acid Complex
pdb|1ZD4|A Chain A, Human Soluble Epoxide Hydrolase 4-(3-Cyclohexyluriedo)-
Hexanoic Acid Complex
pdb|1ZD5|A Chain A, Human Soluble Epoxide Hydrolase 4-(3-Cyclohexyluriedo)-
Heptanoic Acid Complex
pdb|3I1Y|A Chain A, Crystal Structure Of Soluble Epoxide Hydrolase
pdb|3I28|A Chain A, Crystal Structure Of Soluble Epoxide Hydrolase
pdb|3KOO|A Chain A, Crystal Structure Of Soluble Epoxide Hydrolase
pdb|3OTQ|A Chain A, Soluble Epoxide Hydrolase In Complex With Pyrazole
Antagonist
pdb|4HAI|A Chain A, Crystal Structure Of Human Soluble Epoxide Hydrolase
Complexed With N-
Cycloheptyl-1-(mesitylsulfonyl)piperidine-4-carboxamide
Length = 555
Score = 28.5 bits (62), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 28/99 (28%), Positives = 46/99 (46%), Gaps = 3/99 (3%)
Query: 147 EVIRELQKHFPIKRSPMRVGLTVPEQNISS-LMEKLDAWNASIVSKDNSGSQLSLI--CE 203
+++ EL+ HF +VG+ PE I L++ L A + +V D+ G+ L
Sbjct: 138 QLMCELKMHFDFLIESCQVGMVKPEPQIYKFLLDTLKASPSEVVFLDDIGANLKPARDLG 197
Query: 204 MEPGLFRDCDTLLRNLQGRLEILAVSVHAEGDTSVDHYD 242
M L +D DT L+ L+ I ++ A TS + D
Sbjct: 198 MVTILVQDTDTALKELEKVTGIQLLNTPAPLPTSCNPSD 236
>pdb|2F4E|A Chain A, N-Terminal Domain Of Fkbp42 From Arabidopsis Thaliana
pdb|2F4E|B Chain B, N-Terminal Domain Of Fkbp42 From Arabidopsis Thaliana
Length = 180
Score = 28.5 bits (62), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 41/83 (49%), Gaps = 12/83 (14%)
Query: 249 SLPPKESADDVLKLSEKIEKQSLSSGNGNTEGKVKQNKCSTCNA-YVGDAKQYRDHFKSD 307
++PPK ++ + L EK+ KQ + G+G+ K +K STC Y K + F+
Sbjct: 35 NVPPKVDSEAEV-LDEKVSKQIIKEGHGS-----KPSKYSTCFLHYRAWTKNSQHKFEDT 88
Query: 308 WHKHN-----LKRKTRQLPPLTV 325
WH+ L ++ ++L L +
Sbjct: 89 WHEQQPIELVLGKEKKELAGLAI 111
>pdb|2IF4|A Chain A, Crystal Structure Of A Multi-Domain Immunophilin From
Arabidopsis Thaliana
Length = 338
Score = 28.1 bits (61), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 41/83 (49%), Gaps = 12/83 (14%)
Query: 249 SLPPKESADDVLKLSEKIEKQSLSSGNGNTEGKVKQNKCSTCNA-YVGDAKQYRDHFKSD 307
++PPK ++ + L EK+ KQ + G+G+ K +K STC Y K + F+
Sbjct: 35 NVPPKVDSEAEV-LDEKVSKQIIKEGHGS-----KPSKYSTCFLHYRAWTKNSQHKFEDT 88
Query: 308 WHKHN-----LKRKTRQLPPLTV 325
WH+ L ++ ++L L +
Sbjct: 89 WHEQQPIELVLGKEKKELAGLAI 111
>pdb|1ZR9|A Chain A, Solution Structure Of A Human C2h2-Type Zinc Finger
Protein
Length = 124
Score = 28.1 bits (61), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 16/30 (53%)
Query: 285 NKCSTCNAYVGDAKQYRDHFKSDWHKHNLK 314
++C C Y D+ + HF+S HK LK
Sbjct: 51 HRCLACARYFIDSTNLKTHFRSKDHKKRLK 80
>pdb|3SZ3|A Chain A, Crystal Structure Of Tryptophanyl-Trna Synthetase From
Vibrio Cholerae With An Endogenous Tryptophan
Length = 341
Score = 27.7 bits (60), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 32/63 (50%), Gaps = 7/63 (11%)
Query: 137 PNSSSKKQALEVIRELQKHFPIKRSPMRVGLTVPEQNISSLMEKLDAWNASIVSKDNSGS 196
P S +KQ LE+ R++ F SP + T+PE I ++ NA ++S ++
Sbjct: 148 PVGSDQKQHLELARDIATRFNNIYSPEQPIFTIPEPYIPTV-------NARVMSLQDATK 200
Query: 197 QLS 199
++S
Sbjct: 201 KMS 203
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 0.130 0.366
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,797,886
Number of Sequences: 62578
Number of extensions: 387369
Number of successful extensions: 875
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 864
Number of HSP's gapped (non-prelim): 18
length of query: 346
length of database: 14,973,337
effective HSP length: 100
effective length of query: 246
effective length of database: 8,715,537
effective search space: 2144022102
effective search space used: 2144022102
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 52 (24.6 bits)