RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy538
(97 letters)
>1saw_A Hypothetical protein FLJ36880; structural genomics,
fumarylacetoacetatehydrolase family, unknown function;
2.20A {Homo sapiens} SCOP: d.177.1.1
Length = 225
Score = 136 bits (346), Expect = 2e-42
Identities = 42/80 (52%), Positives = 57/80 (71%)
Query: 3 AREHGLPWTVGKGFDTACPVSDFIPEHEIKDPDDVPLWLKVNGELRQKSTTGDMLFKTGD 62
++ GLPWT+ K F +CPVS F+P+ +I DP + LWLKVNGELRQ+ T M+F
Sbjct: 113 CKKKGLPWTLAKSFTASCPVSAFVPKEKIPDPHKLKLWLKVNGELRQEGETSSMIFSIPY 172
Query: 63 LISYISQHMTLEPYDLILTG 82
+ISY+S+ +TLE D+ILTG
Sbjct: 173 IISYVSKIITLEEGDIILTG 192
>3s52_A Putative fumarylacetoacetate hydrolase family Pro; csgid,
structural genomics, center for structural genomics O
infectious diseases; 2.01A {Yersinia pestis} PDB: 1nr9_A
Length = 221
Score = 136 bits (344), Expect = 3e-42
Identities = 35/80 (43%), Positives = 47/80 (58%)
Query: 3 AREHGLPWTVGKGFDTACPVSDFIPEHEIKDPDDVPLWLKVNGELRQKSTTGDMLFKTGD 62
++ G PW K FD +CP+S FIP E D L L +NGE+RQ+ T DM+
Sbjct: 114 FKKAGQPWEKAKAFDGSCPISGFIPVAEFGDAQQADLSLTINGEIRQQGNTRDMITPIIP 173
Query: 63 LISYISQHMTLEPYDLILTG 82
LISY+S+ TL D++LTG
Sbjct: 174 LISYMSRFFTLRAGDIVLTG 193
>3l53_A Putative fumarylacetoacetate isomerase/hydrolase; structural
genomics, PSI-2, protein structure initiative; HET: TAR;
2.10A {Oleispira antarctica} PDB: 3v77_A*
Length = 224
Score = 130 bits (329), Expect = 7e-40
Identities = 30/82 (36%), Positives = 53/82 (64%), Gaps = 2/82 (2%)
Query: 3 AREHGLPWTVGKGFDTACPVSDFIPEHEIKDPD--DVPLWLKVNGELRQKSTTGDMLFKT 60
+E G PW K FD ACP+++F+ + + + + L L+ NG+ +Q+ ++ +MLF
Sbjct: 110 LKEKGHPWERAKSFDGACPLTEFVAVNLASEDEWQAIGLTLEKNGQFQQQGSSAEMLFPI 169
Query: 61 GDLISYISQHMTLEPYDLILTG 82
LI+++S+H +L+P D+ILTG
Sbjct: 170 LPLIAHMSEHFSLQPGDVILTG 191
>1nkq_A Hypothetical 28.8 kDa protein in PSD1-SKO1 intergenic region;
dimer, PSI, protein structure initiative; 2.20A
{Saccharomyces cerevisiae} SCOP: d.177.1.1
Length = 259
Score = 129 bits (326), Expect = 5e-39
Identities = 33/85 (38%), Positives = 47/85 (55%), Gaps = 5/85 (5%)
Query: 3 AREHGLPWTVGKGFDTACPVSDFIPEHEIKDP-----DDVPLWLKVNGELRQKSTTGDML 57
A++ GLPWT+ KGFDT P+S + + D + VNG+LRQ T ML
Sbjct: 131 AKKKGLPWTISKGFDTFMPISAIVSREKFSSYKSNLQDIFRVKCSVNGQLRQDGGTNLML 190
Query: 58 FKTGDLISYISQHMTLEPYDLILTG 82
++ +IS ++LEP D+ILTG
Sbjct: 191 HPLHKILQHISTMISLEPGDIILTG 215
>1wzo_A HPCE; structural genomics, riken structural genomics/proteom
initiative, RSGI, NPPSFA, isomerase; 1.90A {Thermus
thermophilus}
Length = 246
Score = 119 bits (301), Expect = 3e-35
Identities = 35/79 (44%), Positives = 48/79 (60%)
Query: 4 REHGLPWTVGKGFDTACPVSDFIPEHEIKDPDDVPLWLKVNGELRQKSTTGDMLFKTGDL 63
P KG DT P+ F+ E++DP D+ L VNGELRQ+ T ML+ +L
Sbjct: 136 TNTFRPPIRAKGRDTFLPLGPFLVVEEVEDPQDLWLRAYVNGELRQEGHTSRMLYSVAEL 195
Query: 64 ISYISQHMTLEPYDLILTG 82
+ +IS+ MTLEPYD++LTG
Sbjct: 196 LEFISEFMTLEPYDVLLTG 214
>1gtt_A 4-hydroxyphenylacetate degradation bifunctional
isomerase/decarboxylase; lyase, bifunctional enzyme,
multifunctional enzyme decarboxylase; 1.7A {Escherichia
coli} SCOP: d.177.1.1 d.177.1.1 PDB: 1i7o_A
Length = 429
Score = 116 bits (292), Expect = 1e-32
Identities = 33/80 (41%), Positives = 45/80 (56%), Gaps = 1/80 (1%)
Query: 4 REHGLPWTVGKGFDTACPVSDFI-PEHEIKDPDDVPLWLKVNGELRQKSTTGDMLFKTGD 62
+ P K D P+ I P+ I DP ++ L VNGELRQ+ TT D++F
Sbjct: 315 ENYYRPNLRVKSRDGLTPMLSTIVPKEAIPDPHNLTLRTFVNGELRQQGTTADLIFSVPF 374
Query: 63 LISYISQHMTLEPYDLILTG 82
LI+Y+S+ MTL P D+I TG
Sbjct: 375 LIAYLSEFMTLNPGDMIATG 394
Score = 111 bits (279), Expect = 8e-31
Identities = 20/74 (27%), Positives = 35/74 (47%), Gaps = 3/74 (4%)
Query: 9 PWTVGKGFDTACPVSDFIPEHEIKDPDDVPLWLKVNGELRQKSTTGDMLFKTGDLISYIS 68
P K D CP+ + + + + D++ ++ ++NG T D+ L+S +S
Sbjct: 105 PAIKAKCRDGFCPIGETV---ALSNVDNLTIYTEINGRPADHWNTADLQRNAAQLLSALS 161
Query: 69 QHMTLEPYDLILTG 82
+ TL P D IL G
Sbjct: 162 EFATLNPGDAILLG 175
>2dfu_A Probable 2-hydroxyhepta-2,4-diene-1,7-dioate ISOM;
2-hydroxyhepta-2,4-diene-1,7-dioate isomerase,
structural GE NPPSFA; 2.20A {Thermus thermophilus}
Length = 264
Score = 110 bits (278), Expect = 9e-32
Identities = 30/78 (38%), Positives = 45/78 (57%), Gaps = 2/78 (2%)
Query: 5 EHGLPWTVGKGFDTACPVSDFIPEHEIKDPDDVPLWLKVNGELRQKSTTGDMLFKTGDLI 64
+ L W K D P+ ++ E ++ +P D + VNG LRQ+ T M+F +++
Sbjct: 153 KKDLQWVRAKSADKFLPLGPWL-ETDL-NPQDTWVRTYVNGTLRQEGHTSQMIFSVAEIL 210
Query: 65 SYISQHMTLEPYDLILTG 82
SYIS MTLEP D++LTG
Sbjct: 211 SYISTFMTLEPLDVVLTG 228
>3rr6_A Putative uncharacterized protein; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid; 1.58A {Mycobacterium abscessus} PDB: 3qdf_A
Length = 265
Score = 109 bits (275), Expect = 2e-31
Identities = 31/78 (39%), Positives = 47/78 (60%), Gaps = 2/78 (2%)
Query: 5 EHGLPWTVGKGFDTACPVSDFIPEHEIKDPDDVPLWLKVNGELRQKSTTGDMLFKTGDLI 64
WT KG DT CP+ +I ++ DP D+ + +VNG++RQ+S T +L G ++
Sbjct: 157 RADGQWTRAKGHDTFCPLGPWI-VTDL-DPADLEIRTEVNGQVRQRSRTSLLLHDVGAIV 214
Query: 65 SYISQHMTLEPYDLILTG 82
++S MTL P D+ILTG
Sbjct: 215 EWVSAVMTLLPGDVILTG 232
>3r6o_A 2-hydroxyhepta-2,4-diene-1, 7-dioateisomerase; ssgcid, struc
genomics, seattle structural genomics center for
infectious isomerase; 1.95A {Mycobacterium abscessus}
Length = 329
Score = 106 bits (267), Expect = 1e-29
Identities = 23/74 (31%), Positives = 36/74 (48%), Gaps = 1/74 (1%)
Query: 10 WTVGKGFDTACPVSDFI-PEHEIKDPDDVPLWLKVNGELRQKSTTGDMLFKTGDLISYIS 68
GKG+ T CP ++ + L++NGELRQ +T DM +++ +S
Sbjct: 210 VVRGKGYPTFCPTGPWLFTTGSDTTFETFDFELRINGELRQSGSTVDMTLGFAEVVETVS 269
Query: 69 QHMTLEPYDLILTG 82
+ L D+ILTG
Sbjct: 270 ATIALRAGDIILTG 283
>2q18_X 2-keto-3-deoxy-D-arabinonate dehydratase; FAH-family fold, lyase;
2.10A {Sulfolobus solfataricus} PDB: 2q19_X 2q1a_X
2q1c_X 2q1d_X 3bqb_A
Length = 293
Score = 101 bits (253), Expect = 8e-28
Identities = 20/84 (23%), Positives = 32/84 (38%), Gaps = 5/84 (5%)
Query: 4 REHGLPWTVGKGFDTACPVSDFI-PEHEIKDPDDVPLWLKVNGELR----QKSTTGDMLF 58
E+ L K + C I EIK+P + + LK+ E R T M
Sbjct: 172 AENPLYLPQSKIYAGCCAFGPVIVTSDEIKNPYSLDITLKIVREGRVFFEGSVNTNKMRR 231
Query: 59 KTGDLISYISQHMTLEPYDLILTG 82
K + I Y+ + + ++ TG
Sbjct: 232 KIEEQIQYLIRDNPIPDGTILTTG 255
>3lzk_A Fumarylacetoacetate hydrolase family protein; structural genomics,
PSI-2, protein structure initiative; 1.90A
{Sinorhizobium meliloti}
Length = 359
Score = 79.2 bits (195), Expect = 3e-19
Identities = 19/82 (23%), Positives = 32/82 (39%), Gaps = 4/82 (4%)
Query: 5 EHGLPWTVGKGFDTACPV---SDFIPEHEIKDPDDVPLWLKVNGELRQKSTTG-DMLFKT 60
G + K PV + + E +PL + +NGE ++ G DM F
Sbjct: 203 AKGFGFYQSKPSSAFSPVAVTPEELGEAWDGGKLHLPLHVDLNGEPFGRANAGIDMTFDF 262
Query: 61 GDLISYISQHMTLEPYDLILTG 82
LI + ++ L +I +G
Sbjct: 263 PQLIVHAARTRPLSAGTIIGSG 284
>1hyo_A Fumarylacetoacetate hydrolase; beta-sandwich roll; HET: HBU; 1.30A
{Mus musculus} SCOP: b.34.8.1 d.177.1.1 PDB: 1qcn_A
2hzy_A* 1qco_A 1qqj_A
Length = 421
Score = 41.3 bits (96), Expect = 9e-06
Identities = 15/109 (13%), Positives = 29/109 (26%), Gaps = 30/109 (27%)
Query: 4 REHGLPWTVGKGFDTACPVSDFI---------------------PEHEIKDPDDVPLWLK 42
+ +P G +S ++ P P + L
Sbjct: 243 QWEYVPLGPFLGKSFGTTISPWVVPMDALMPFVVPNPKQDPKPLPYLCHSQPYTFDINLS 302
Query: 43 VN--------GELRQKSTTGDMLFKTGDLISYIS-QHMTLEPYDLILTG 82
V+ +S M + +++ S L P DL+ +G
Sbjct: 303 VSLKGEGMSQAATICRSNFKHMYWTMLQQLTHHSVNGCNLRPGDLLASG 351
>3u7v_A Beta-galactosidase; structural genomics, PSI-biology, midwest
center for structu genomics, MCSG, TIM barrel,
glyco_hydro_42; HET: MSE; 1.80A {Caulobacter crescentus}
Length = 552
Score = 27.7 bits (61), Expect = 0.67
Identities = 16/91 (17%), Positives = 25/91 (27%), Gaps = 4/91 (4%)
Query: 1 KHAREHGLPWTVGKGFDTACPVSDFIPEHEIKDPDDVPLWLKVNGELRQKSTTGDMLFKT 60
+ ARE + + + PE D P +K +GE R S +
Sbjct: 116 EQARERKVRLVLLWFGTWKNSSPSYAPEWVKLDDKRFPRLIKDDGE-RSYSMSPLAKSTL 174
Query: 61 GDLISYISQHMTLEPYDLILTGKAGFILMFQ 91
MT ++M Q
Sbjct: 175 DADRKAFVALMTHL---KAKDAAQKTVIMVQ 202
>3ruf_A WBGU; rossmann fold, UDP-hexose 4-epimerase, isomerase; HET: NAD
UDP; 2.00A {Plesiomonas shigelloides} PDB: 3ru9_A*
3rud_A* 3rue_A* 3rua_A* 3ruh_A* 3ruc_A* 3ru7_A* 3lu1_A*
Length = 351
Score = 27.2 bits (61), Expect = 0.88
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 64 ISYISQHMTLEPYDLILTGKAGFI 87
I+Q + P ++TG AGFI
Sbjct: 14 YEEITQQLIFSPKTWLITGVAGFI 37
>1vb5_A Translation initiation factor EIF-2B; 2.20A {Pyrococcus horikoshii}
SCOP: c.124.1.5
Length = 276
Score = 26.8 bits (60), Expect = 1.2
Identities = 6/41 (14%), Positives = 12/41 (29%), Gaps = 3/41 (7%)
Query: 3 AREHGLPWTV---GKGFDTACPVSDFIPEHEIKDPDDVPLW 40
E+ +P+ V F D + +V +
Sbjct: 207 CHENAIPFYVAAETYKFHPTLKSGDVMLMERDLIRGNVRIR 247
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 26.1 bits (56), Expect = 1.8
Identities = 4/22 (18%), Positives = 8/22 (36%), Gaps = 3/22 (13%)
Query: 28 EHEIK--DPDDVPLWLKVNGEL 47
+ +K D P L + +
Sbjct: 26 QASLKLYADDSAPA-LAIKATM 46
>3t58_A Sulfhydryl oxidase 1; oxidoreductase; HET: FAD; 2.40A {Mus
musculus} PDB: 3t59_A*
Length = 519
Score = 25.7 bits (55), Expect = 2.9
Identities = 10/38 (26%), Positives = 17/38 (44%), Gaps = 6/38 (15%)
Query: 27 PEHEIKDPDDVPLWL-----KVNGELRQKSTTGDMLFK 59
H+++ P + LWL +VN L + + D F
Sbjct: 435 SMHQVRSPSNAILWLWTSHNRVNARL-SGALSEDPHFP 471
>2yhg_A SDE_182CT, cellulose-binding protein; hydrolase, glycoside
hydrolase; HET: BTB; 1.08A {Saccharophagus degradans}
Length = 437
Score = 25.5 bits (55), Expect = 3.2
Identities = 7/33 (21%), Positives = 10/33 (30%), Gaps = 1/33 (3%)
Query: 13 GKGFDTACPVSDFIPEHEIKDPDDVPLWLKVNG 45
G S+ I + D P+W G
Sbjct: 121 DVGSGKDSAGSNLIIA-AVDKDDPRPVWATCWG 152
>1sb8_A WBPP; epimerase, 4-epimerase, UDP-galnac, UDP-GLCNAC, SDR, G SYK,
UDP, N-acetylglucosamine, N- acetylgalactosamine,
UDP-GLC, isomerase; HET: NAD UD2; 2.10A {Pseudomonas
aeruginosa} SCOP: c.2.1.2 PDB: 1sb9_A*
Length = 352
Score = 25.3 bits (56), Expect = 3.7
Identities = 7/21 (33%), Positives = 13/21 (61%)
Query: 67 ISQHMTLEPYDLILTGKAGFI 87
+ + + +P ++TG AGFI
Sbjct: 19 LRKELPAQPKVWLITGVAGFI 39
>3hm6_X Plexin-B1; structural genomics consortium, SGC, membrane,
transmembrane receptor, cell membrane, glycoprotein,
phosphoprotein; 2.40A {Homo sapiens} PDB: 3sua_D*
3su8_X*
Length = 644
Score = 25.5 bits (55), Expect = 3.7
Identities = 11/44 (25%), Positives = 18/44 (40%), Gaps = 3/44 (6%)
Query: 5 EHGLPWTVGKGFDTACPVSDFIPEHEIKDPDDVPLWLKVNGELR 48
+P V FD + + +H I D D + +W + LR
Sbjct: 453 SRPVPLAVKYFFDL---LDEQAQQHGISDQDTIHIWKTNSLPLR 493
>2fsx_A RV0390, COG0607: rhodanese-related sulfurtransferase; RV0390 BR SAD
DATA with FBAR, structural genomics, PSI; 1.80A
{Mycobacterium tuberculosis}
Length = 148
Score = 24.6 bits (53), Expect = 5.0
Identities = 6/14 (42%), Positives = 7/14 (50%)
Query: 4 REHGLPWTVGKGFD 17
R GLPW G+
Sbjct: 131 RAVGLPWRQGRSHH 144
>2x6h_A GH13170P, VPS34, phosphotidylinositol 3 kinase 59F; transferase;
2.90A {Drosophila melanogaster} PDB: 2x6f_A 2x6i_A*
2x6j_A* 2x6k_A*
Length = 696
Score = 24.4 bits (52), Expect = 7.6
Identities = 13/63 (20%), Positives = 23/63 (36%), Gaps = 1/63 (1%)
Query: 26 IPEHEIKDPDDVPLWLKVNGELRQKSTTGDMLFKTGDLISYISQHMTLEPYDLILTG-KA 84
+ + K +LRQ M+ L+ + + L PY ++ T K
Sbjct: 429 LTFVTSIAHHEYAAIFKHGDDLRQDQLILQMITLMDKLLRRENLDLKLTPYKVLATSSKH 488
Query: 85 GFI 87
GF+
Sbjct: 489 GFL 491
>1r6w_A OSB synthase, O-succinylbenzoate synthase, OSBS; enolase
superfamily, TIM barrel, capping alpha+beta domain,
lyase; HET: 164; 1.62A {Escherichia coli} SCOP: c.1.11.2
d.54.1.1 PDB: 1fhv_A* 1fhu_A 2ofj_A 3gc2_A*
Length = 322
Score = 24.3 bits (53), Expect = 9.5
Identities = 3/19 (15%), Positives = 8/19 (42%)
Query: 1 KHAREHGLPWTVGKGFDTA 19
+ A GL + +++
Sbjct: 252 QAAHALGLTAVISSSIESS 270
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.320 0.139 0.439
Gapped
Lambda K H
0.267 0.0549 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,569,035
Number of extensions: 82553
Number of successful extensions: 239
Number of sequences better than 10.0: 1
Number of HSP's gapped: 227
Number of HSP's successfully gapped: 32
Length of query: 97
Length of database: 6,701,793
Length adjustment: 63
Effective length of query: 34
Effective length of database: 4,942,770
Effective search space: 168054180
Effective search space used: 168054180
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (23.8 bits)