RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16628
(107 letters)
>3eh1_A Protein transport protein SEC24B; copii coat protein, vesicle
transport, transport signal sequence, cytoplasm,
endoplasmic reticulum; 1.80A {Homo sapiens} PDB: 2nut_B
2nup_B 3egd_B 3egx_B
Length = 751
Score = 47.6 bits (112), Expect = 8e-08
Identities = 31/66 (46%), Positives = 44/66 (66%)
Query: 42 ACYCKYQALQREVLLNQLKSMPGDRRTSIAIITYDSAVHFYSLAEGQTQPSQMILTDIDD 101
A Y + + LL L +PGD RT I +T+DS +HFY+L EG +QP +I++DIDD
Sbjct: 173 AVEAGYLTILCQSLLENLDKLPGDSRTRIGFMTFDSTIHFYNLQEGLSQPQMLIVSDIDD 232
Query: 102 IFLPSP 107
+FLP+P
Sbjct: 233 VFLPTP 238
>3efo_B SEC24 related gene family, member D; copii, coat protein, transport
signal, disease mutation, endoplasmic reticulum,
ER-golgi transport, golgi apparatus, membrane; 2.70A
{Homo sapiens} PDB: 3eg9_B
Length = 770
Score = 47.2 bits (111), Expect = 1e-07
Identities = 16/60 (26%), Positives = 31/60 (51%), Gaps = 5/60 (8%)
Query: 53 EVLLNQLKSMPGD-----RRTSIAIITYDSAVHFYSLAEGQTQPSQMILTDIDDIFLPSP 107
E L L+ +P + + ITY+ +HF+++ QP M++TD+ ++F+P
Sbjct: 201 EELKTMLEKIPKEEQEETSAIRVGFITYNKVLHFFNVKSNLAQPQMMVVTDVGEVFVPLL 260
>3eh2_A Protein transport protein SEC24C; copii-coat protein, vesicle
transport, cytoplasm, endoplasmic reticulum, ER-golgi
transport, golgi apparatus; 2.35A {Homo sapiens}
Length = 766
Score = 46.8 bits (110), Expect = 2e-07
Identities = 20/83 (24%), Positives = 37/83 (44%), Gaps = 7/83 (8%)
Query: 32 PLYFMV--VKGYACYCKYQALQREVLLNQLKSMP-----GDRRTSIAIITYDSAVHFYSL 84
P + + V A L E L + L +P + + +TY+ +HFY++
Sbjct: 174 PAFIFMIDVSYNAIRTGLVRLLCEELKSLLDFLPREGGAEESAIRVGFVTYNKVLHFYNV 233
Query: 85 AEGQTQPSQMILTDIDDIFLPSP 107
QP M+++D+ D+F+P
Sbjct: 234 KSSLAQPQMMVVSDVADMFVPLL 256
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein,
abnormal nuclear; zinc-finger, beta barrel, VWA domain,
gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP:
a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1
Length = 926
Score = 40.2 bits (93), Expect = 4e-05
Identities = 20/63 (31%), Positives = 33/63 (52%), Gaps = 8/63 (12%)
Query: 53 EVLLNQLKSMPG-DRRTSIAIITYDSAVHFYSLAEGQT-------QPSQMILTDIDDIFL 104
LL L S+P D RT I+I+ D+A+H++ + Q + M + D+++ FL
Sbjct: 327 NTLLQNLDSIPNHDERTRISILCVDNAIHYFKIPLDSENNEESADQINMMDIADLEEPFL 386
Query: 105 PSP 107
P P
Sbjct: 387 PRP 389
>1pcx_A Protein transport protein SEC24; 2.50A {Saccharomyces cerevisiae}
SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 PDB:
1pd0_A 1pd1_A
Length = 810
Score = 38.5 bits (88), Expect = 2e-04
Identities = 20/63 (31%), Positives = 33/63 (52%), Gaps = 8/63 (12%)
Query: 53 EVLLNQLKSMPG-DRRTSIAIITYDSAVHFYSLAEGQT-------QPSQMILTDIDDIFL 104
LL L S+P D RT I+I+ D+A+H++ + Q + M + D+++ FL
Sbjct: 211 NTLLQNLDSIPNHDERTRISILCVDNAIHYFKIPLDSENNEESADQINMMDIADLEEPFL 270
Query: 105 PSP 107
P P
Sbjct: 271 PRP 273
>1m2o_A SEC23, protein transport protein SEC23, SEC23P; zinc-finger, beta
barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A
{Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1
c.62.1.2 d.109.2.1 g.41.10.1 PDB: 1m2v_A 2qtv_A*
Length = 768
Score = 36.2 bits (82), Expect = 0.001
Identities = 12/63 (19%), Positives = 24/63 (38%), Gaps = 12/63 (19%)
Query: 55 LLNQLKSMPGDRRTSIAIITYDSAVHFYSLA----------EGQTQPSQMILTDIDDIFL 104
++ L +P + I +ITY + V + L+ G + LT++
Sbjct: 144 IITSLSLLPPNAL--IGLITYGNVVQLHDLSSETIDRCNVFRGDREYQLEALTEMLTGQK 201
Query: 105 PSP 107
P+
Sbjct: 202 PTG 204
>2nut_A Protein transport protein SEC23A; human copii SEC23/24 complexed
with SEC22, protein transport; 2.30A {Homo sapiens} PDB:
2nup_A 3egd_A 3eg9_A 3egx_A 3efo_A
Length = 769
Score = 34.1 bits (77), Expect = 0.004
Identities = 12/62 (19%), Positives = 21/62 (33%), Gaps = 2/62 (3%)
Query: 31 CPLYFMVVKGYACYCKYQALQREVLLNQLKSMPGDRRTSIAIITYDSAVHFYSLAEGQTQ 90
PL F+ V + +E + L +P + +IT+ V + L
Sbjct: 131 MPLIFLYVVDTCMEDEDLQALKESMQMSLSLLPPTAL--VGLITFGRMVQVHELGCEGIS 188
Query: 91 PS 92
S
Sbjct: 189 KS 190
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 31.2 bits (70), Expect = 0.047
Identities = 19/98 (19%), Positives = 32/98 (32%), Gaps = 35/98 (35%)
Query: 36 M-VVKGYACYCKYQALQREV-LLNQLKSMPGDRRTSIAIITYDSAVHF---------YSL 84
M + + +Q V N +P ++ I+++ + A + Y L
Sbjct: 338 MLSISN----LTQEQVQDYVNKTNS--HLPAGKQVEISLV--NGAKNLVVSGPPQSLYGL 389
Query: 85 ---------AEGQTQ---P-SQMILTDIDDIFLP--SP 107
G Q P S+ L + FLP SP
Sbjct: 390 NLTLRKAKAPSGLDQSRIPFSERKLK-FSNRFLPVASP 426
Score = 28.1 bits (62), Expect = 0.52
Identities = 21/114 (18%), Positives = 35/114 (30%), Gaps = 42/114 (36%)
Query: 31 CPLYFMVVKGYACY---CKYQALQREVLLNQLKSMPGDRR---TSIAIITYDSAVHFY-- 82
CPL ++ A Y K L + LK G + T++AI DS F+
Sbjct: 238 CPLIGVI--QLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVS 295
Query: 83 -------------------------------SLAEGQTQPSQMI-LTDIDDIFL 104
SL + PS M+ ++++ +
Sbjct: 296 VRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQV 349
>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 = 26.8 bits (58), Expect = 1.4
Identities = 10/30 (33%), Positives = 14/30 (46%), Gaps = 12/30 (40%)
Query: 48 QALQREVLLNQLK-----SMPGDRRTSIAI 72
QAL++ L LK S P ++AI
Sbjct: 20 QALKK--LQASLKLYADDSAP-----ALAI 42
>3pbl_A D(3) dopamine receptor, lysozyme chimera; structural genomics,
PSI-2, protein structure initiative, AC technologies
center for gene to 3D structure; HET: ETQ MAL; 2.89A
{Homo sapiens}
Length = 481
Score = 26.6 bits (58), Expect = 2.0
Identities = 11/58 (18%), Positives = 21/58 (36%), Gaps = 5/58 (8%)
Query: 16 SHAYYTIVWELGIFKCPLYFMVVKGYACYCK-YQALQREVLLNQLKSMPGDRRTSIAI 72
S+ + I + F P V+ Y + Y L++ N + + D + I
Sbjct: 193 SNPDFVIYSSVVSFYLPFGVTVL----VYARIYVVLKQRRRKNIFEMLRIDEGLRLKI 246
>3eck_A Protein (homoprotocatechuate 2,3-dioxygenase); oxidoreductase,
extradiol, FEII, crystal packing; HET: XXG; 1.60A
{Brevibacterium fuscum} SCOP: d.32.1.3 d.32.1.3 PDB:
3ecj_A* 3ojn_A* 1q0o_A 1q0c_A 2iga_A* 2ig9_A 3ojj_A*
3bza_A* 3ojk_A* 3ojt_A*
Length = 365
Score = 25.8 bits (56), Expect = 3.7
Identities = 6/24 (25%), Positives = 9/24 (37%)
Query: 1 MGLGYVEFRTLHLSNSHAYYTIVW 24
+ Y E L+ S +Y V
Sbjct: 16 LRCAYAELVVTDLAKSRNFYVDVL 39
>1lgt_A Biphenyl-2,3-DIOL 1,2-dioxygenase; extradiol dioxygenase,
2,3-dihydroxybiphenyl, non-heme iron, anaerobic, PCB
biodegradation; HET: BP3; 1.70A {Burkholderia
xenovorans} SCOP: d.32.1.3 d.32.1.3 PDB: 1kmy_A* 1knd_A
1knf_A 1han_A* 1lkd_A*
Length = 297
Score = 25.6 bits (56), Expect = 4.1
Identities = 5/24 (20%), Positives = 10/24 (41%)
Query: 1 MGLGYVEFRTLHLSNSHAYYTIVW 24
LGY+ F ++ ++ T
Sbjct: 3 RSLGYMGFAVSDVAAWRSFLTQKL 26
>1kw3_B 2,3-dihydroxybiphenyl dioxygenase; four TIME repetitions of the
beta-alpha-beta-BETA-beta motif oxidoreductase; 1.45A
{Pseudomonas SP} SCOP: d.32.1.3 d.32.1.3 PDB: 1dhy_A
1eiq_A 1eir_A* 1eil_A 1kw6_B* 1kw8_B* 1kw9_B* 1kwb_B
1kwc_B*
Length = 292
Score = 25.4 bits (55), Expect = 4.3
Identities = 5/24 (20%), Positives = 8/24 (33%)
Query: 1 MGLGYVEFRTLHLSNSHAYYTIVW 24
LGY+ F + + T
Sbjct: 3 ERLGYLGFAVKDVPAWDHFLTKSV 26
>1mpy_A Catechol 2,3-dioxygenase; extradiol dioxygenase, non heme iron
dioxygenase, metapyrocatechase, oxidoreductase; 2.80A
{Pseudomonas putida} SCOP: d.32.1.3 d.32.1.3
Length = 307
Score = 25.2 bits (55), Expect = 4.6
Identities = 7/24 (29%), Positives = 13/24 (54%)
Query: 1 MGLGYVEFRTLHLSNSHAYYTIVW 24
M G+V+ R L +S + +Y +
Sbjct: 6 MRPGHVQLRVLDMSKALEHYVELL 29
>2ehz_A 1,2-dihydroxynaphthalene dioxygenase; extradiol dioxygenase,
protein substrate complex, oxidoreduc; 1.35A
{Pseudomonas SP} PDB: 2ei0_A* 2ei1_A* 2ei3_A* 2ei2_A
Length = 302
Score = 25.3 bits (55), Expect = 4.6
Identities = 4/24 (16%), Positives = 9/24 (37%)
Query: 1 MGLGYVEFRTLHLSNSHAYYTIVW 24
+ LGY+ ++ T +
Sbjct: 8 IELGYMGISVKDPDAWKSFATDML 31
>2zyq_A Probable biphenyl-2,3-DIOL 1,2-dioxygenase BPHC; extradiol, DHSA,
TB, catechol, cholesterol, steroid, aromatic
hydrocarbons catabolism; HET: TAR; 2.00A {Mycobacterium
tuberculosis} PDB: 2zi8_A*
Length = 300
Score = 25.3 bits (55), Expect = 5.1
Identities = 5/24 (20%), Positives = 8/24 (33%)
Query: 1 MGLGYVEFRTLHLSNSHAYYTIVW 24
LGY+ ++ Y V
Sbjct: 4 RSLGYLRIEATDMAAWREYGLKVL 27
>3hpy_A Catechol 2,3-dioxygenase; repeated motifs, aromatic hydrocarbons
catabolism, iron, oxidoreductase; 1.94A {Pseudomonas
SP} PDB: 3hpv_A 3hq0_A*
Length = 309
Score = 25.2 bits (55), Expect = 5.2
Identities = 6/24 (25%), Positives = 11/24 (45%)
Query: 1 MGLGYVEFRTLHLSNSHAYYTIVW 24
+ G+ + R L+L +Y V
Sbjct: 7 LRPGHAQVRVLNLEEGIHFYRNVL 30
>2wl9_A Catechol 2,3-dioxygenase; aromatic hydrocarbons catabolism, iron,
oxidoreductase; 1.90A {Rhodococcus SP} PDB: 2wl3_A
Length = 305
Score = 24.9 bits (54), Expect = 5.7
Identities = 5/24 (20%), Positives = 8/24 (33%)
Query: 1 MGLGYVEFRTLHLSNSHAYYTIVW 24
LGY+ +L Y +
Sbjct: 5 TELGYLGLSVSNLDAWRDYAAGIM 28
>3b59_A Glyoxalase/bleomycin resistance protein/dioxygena; 11004Z,
NYSGXRC, PSI-2, structural genomics, Pro structure
initiative; 2.53A {Novosphingobium aromaticivorans}
Length = 310
Score = 24.8 bits (54), Expect = 6.4
Identities = 6/24 (25%), Positives = 9/24 (37%)
Query: 1 MGLGYVEFRTLHLSNSHAYYTIVW 24
+ YV + A+Y VW
Sbjct: 7 TEIRYVGYGVKDFDAEKAFYADVW 30
>1f1u_A Homoprotocatechuate 2,3-dioxygenase; extradiol, manganese,
biodegradation, aromatic, oxidoreductase; 1.50A
{Arthrobacter globiformis} SCOP: d.32.1.3 d.32.1.3 PDB:
1f1r_A 1f1v_A* 1f1x_A
Length = 323
Score = 24.9 bits (54), Expect = 6.5
Identities = 6/24 (25%), Positives = 10/24 (41%)
Query: 1 MGLGYVEFRTLHLSNSHAYYTIVW 24
+ Y+E L+ S +Y V
Sbjct: 16 VRCAYMEIVVTDLAKSREFYVDVL 39
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
0.326 0.140 0.435
Gapped
Lambda K H
0.267 0.0525 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,626,558
Number of extensions: 79883
Number of successful extensions: 190
Number of sequences better than 10.0: 1
Number of HSP's gapped: 186
Number of HSP's successfully gapped: 24
Length of query: 107
Length of database: 6,701,793
Length adjustment: 72
Effective length of query: 35
Effective length of database: 4,691,481
Effective search space: 164201835
Effective search space used: 164201835
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (23.9 bits)