RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4861
(101 letters)
>4ag4_A Epithelial discoidin domain-containing receptor 1; immune
system-transferase complex; HET: NAG; 2.80A {Homo
sapiens}
Length = 351
Score = 64.8 bits (157), Expect = 5e-14
Identities = 25/79 (31%), Positives = 43/79 (54%), Gaps = 1/79 (1%)
Query: 14 RTDYNGGAWCPKNQITTEPREWIEINLHFVHVITATGVQGRFGNGQGAEFTEAYLIDYWR 73
+ GAWCP + + E+++++L +H++ G QGR G G EF+ +Y + Y R
Sbjct: 40 ESSDGDGAWCPAGSVFPKEEEYLQVDLQRLHLVALVGTQGRHAGGLGKEFSRSYRLRYSR 99
Query: 74 PKLGKWVRYKDAKGNEMYS 92
+W+ +KD G E+ S
Sbjct: 100 D-GRRWMGWKDRWGQEVIS 117
>2qqo_A Neuropilin-2; VEGF receptor, semaphorin receptor, calcium-binding
domain, developmental protein, differentiation,
glycoprotein, membr neurogenesis; 2.30A {Homo sapiens}
Length = 460
Score = 63.2 bits (153), Expect = 2e-13
Identities = 13/81 (16%), Positives = 26/81 (32%), Gaps = 6/81 (7%)
Query: 14 RTDYNGGAWCPKNQITTEPREWIEINLHFVHVITATGVQGRFGNGQ-----GAEFTEAYL 68
R + W P+ EW++++L + +QG G F +
Sbjct: 325 RLVSSRSGWFPRIPQAQPGEEWLQVDLGTPKTVKGVIIQGARGGDSITAVEARAFVRKFK 384
Query: 69 IDYWRPKLGKWVRYKDAKGNE 89
+ Y W +D + +
Sbjct: 385 VSYSLNGK-DWEYIQDPRTQQ 404
Score = 47.8 bits (113), Expect = 6e-08
Identities = 15/85 (17%), Positives = 36/85 (42%), Gaps = 5/85 (5%)
Query: 9 YEDMVRTDYNGGAWCPKNQITTEPREWIEINLHFVHVITATGVQGRFG-NGQGAEFTEAY 67
R + W P +E+++++L F+ ++TA QG Q + ++Y
Sbjct: 164 TPQQSRLHGDDNGWTPNLD---SNKEYLQVDLRFLTMLTAIATQGAISRETQNGYYVKSY 220
Query: 68 LIDYWRPKLGKWVRYKDAKGNEMYS 92
++ W+ Y+ K ++++
Sbjct: 221 KLEVSTN-GEDWMVYRHGKNHKVFQ 244
>4deq_A Neuropilin-1, vascular endothelial growth factor; coagulation
factor domain, heparin binding domain, angiogene protein
binding-cytokine complex; 2.65A {Homo sapiens} PDB:
1kmx_A 1vgh_A 2vgh_A
Length = 218
Score = 58.5 bits (141), Expect = 4e-12
Identities = 19/80 (23%), Positives = 32/80 (40%), Gaps = 5/80 (6%)
Query: 14 RTDYNGGAWCPKNQITTEPREWIEINLHFVHVITATGVQGRFGNGQGAE-FTEAYLIDYW 72
R +Y W P REWI+++L + +TA G QG + + + Y ID
Sbjct: 38 RLNYPENGWTPGED---SYREWIQVDLGLLRFVTAVGTQGAISKETKKKYYVKTYKIDVS 94
Query: 73 RPKLGKWVRYKDAKGNEMYS 92
W+ K+ ++
Sbjct: 95 SNG-EDWITIKEGNKPVLFQ 113
>2r7e_B Coagulation factor VIII; ceruloplasmin fold, cupper protein fold,
C2 domain fold, ACU blood coagulation, disease mutation,
glycoprotein; HET: NAG BMA MAN; 3.70A {Homo sapiens}
PDB: 3cdz_B*
Length = 770
Score = 57.9 bits (139), Expect = 2e-11
Identities = 12/82 (14%), Positives = 31/82 (37%), Gaps = 5/82 (6%)
Query: 11 DMVRTDYNGGAWCPKNQITTEPREWIEINLHFVHVITATGVQGRFGNGQGAEFTEAYLID 70
+ AW P+ P+EW++++ +T QG + + + + +LI
Sbjct: 646 ARLHLQGRSNAWRPQVN---NPKEWLQVDFQKTMKVTGVTTQGV-KSLLTSMYVKEFLIS 701
Query: 71 YWRPKLGKWVRYKDAKGNEMYS 92
+ +W + +++
Sbjct: 702 SSQDG-HQWTLFFQNGKVKVFQ 722
Score = 42.5 bits (99), Expect = 5e-06
Identities = 17/86 (19%), Positives = 30/86 (34%), Gaps = 5/86 (5%)
Query: 4 RYEEIYEDMVRTDYNGGAWCPKNQITTEPREWIEINLHFVHVITATGVQGRFGNGQGAEF 63
+Y + + R Y+G + EP WI+++L +I QG +
Sbjct: 480 QYGQWAPKLARLHYSGSINAWSTK---EPFSWIKVDLLAPMIIHGIKTQGARQKFSS-LY 535
Query: 64 TEAYLIDYWRPKLGKWVRYKDAKGNE 89
++I Y KW Y+
Sbjct: 536 ISQFIIMYSLDG-KKWQTYRGNSTGT 560
>2wuh_A Discoidin domain receptor 2; receptor-peptide complex, transferase,
nucleotide-binding, tyrosine-protein kinase; 1.60A {Homo
sapiens} PDB: 2z4f_A
Length = 178
Score = 55.8 bits (134), Expect = 3e-11
Identities = 26/80 (32%), Positives = 45/80 (56%), Gaps = 2/80 (2%)
Query: 14 RTDYNGGAWCPKNQITTE-PREWIEINLHFVHVITATGVQGRFGNGQGAEFTEAYLIDYW 72
++ GAWCP+ + + +E+++I+LH +H IT G QGR G G EF Y I+Y
Sbjct: 52 DSEEGDGAWCPEIPVEPDDLKEFLQIDLHTLHFITLVGTQGRHAGGHGIEFAPMYKINYS 111
Query: 73 RPKLGKWVRYKDAKGNEMYS 92
R +W+ +++ G ++
Sbjct: 112 RD-GTRWISWRNRHGKQVLD 130
>1sdd_B Coagulation factor V; copper-binding protein, cofactor, blood
clottin; HET: NAG NDG; 2.80A {Bos taurus} SCOP: b.6.1.3
b.6.1.3 b.18.1.2 b.18.1.2
Length = 647
Score = 55.5 bits (133), Expect = 1e-10
Identities = 16/72 (22%), Positives = 27/72 (37%), Gaps = 5/72 (6%)
Query: 18 NGGAWCPKNQITTEPREWIEINLHFVHVITATGVQGRFGNGQGAEFTEAYLIDYWRPKLG 77
AW K +W++I+L + ITA QG + + ++Y I Y
Sbjct: 531 RVNAWQAKAN---NNNQWLQIDLLKIKKITAIVTQGC-KSLSSEMYVKSYTIHYSDQG-T 585
Query: 78 KWVRYKDAKGNE 89
W Y++
Sbjct: 586 DWKPYREKSSMV 597
Score = 47.1 bits (111), Expect = 1e-07
Identities = 12/87 (13%), Positives = 26/87 (29%), Gaps = 2/87 (2%)
Query: 4 RYEEIYEDMVRTDYNGGAWCPKNQITTEPREWIEINLHFVHVITATGVQGRFGNGQGAEF 63
+E + K P WI++++ ++T QG + +
Sbjct: 354 YWEPKLARLNNGGSYNAWIAEKLSTEFNPEPWIQVDMQKEVLLTGIQTQGA-KHYLKPYY 412
Query: 64 TEAYLIDYWRPKLGKWVRYKDAKGNEM 90
T + + Y W +K +
Sbjct: 413 TTEFCVAYSLD-RKNWRIFKGNSTRNV 438
>1czt_A Protein (coagulation factor V); membrane-binding, discoidin family,
calcium- independent, blood clotting; 1.87A {Homo
sapiens} SCOP: b.18.1.2 PDB: 1czs_A 1czv_A
Length = 160
Score = 53.3 bits (128), Expect = 2e-10
Identities = 17/73 (23%), Positives = 28/73 (38%), Gaps = 5/73 (6%)
Query: 18 NGGAWCPKNQITTEPREWIEINLHFVHVITATGVQGRFGNGQGAEFTEAYLIDYWRPKLG 77
AW K ++W+EI+L + ITA QG + + ++Y I Y
Sbjct: 44 RVNAWQAKAN---NNKQWLEIDLLKIKKITAIITQGC-KSLSSEMYVKSYTIHYSEQG-V 98
Query: 78 KWVRYKDAKGNEM 90
+W Y+
Sbjct: 99 EWKPYRLKSSMVD 111
>2qqi_A Neuropilin-1; VEGF receptor, semaphorin receptor, angiogenesis,
developmen protein, differentiation, glycoprotein,
heparan sulfate, ME neurogenesis; 1.80A {Homo sapiens}
SCOP: b.18.1.2 b.18.1.2 PDB: 2orz_A 2orx_A 2qqn_A
3i97_A* 1kex_A
Length = 318
Score = 53.2 bits (127), Expect = 6e-10
Identities = 19/80 (23%), Positives = 31/80 (38%), Gaps = 5/80 (6%)
Query: 14 RTDYNGGAWCPKNQITTEPREWIEINLHFVHVITATGVQGRFGNGQG-AEFTEAYLIDYW 72
R +Y W P REWI+++L + +TA G QG + + Y ID
Sbjct: 39 RLNYPENGWTPGED---SYREWIQVDLGLLRFVTAVGTQGAISKETKKKYYVKTYKIDVS 95
Query: 73 RPKLGKWVRYKDAKGNEMYS 92
W+ K+ ++
Sbjct: 96 SNG-EDWITIKEGNKPVLFQ 114
Score = 46.3 bits (109), Expect = 2e-07
Identities = 14/83 (16%), Positives = 29/83 (34%), Gaps = 2/83 (2%)
Query: 11 DMVRTDYNGGAWCPKNQITTEPREWIEINLHFVHVITATGVQGRFGNGQGAEFTEAYLID 70
+ +R + W + EW++I+L ++ +QG + + F + I
Sbjct: 192 ENIRLVTSRSGWALPPAPHSYINEWLQIDLGEEKIVRGIIIQGG-KHRENKVFMRKFKIG 250
Query: 71 YWRPKLGKWVRYKDAKGNEMYSY 93
Y W D + S+
Sbjct: 251 YSNNGS-DWKMIMDDSKRKAKSF 272
>2wn3_A Discoidin-1 subunit A; type-H lectin, cell adhesion, discoidin
domain, lectin; HET: NGA GAL 1PG; 1.59A {Dictyostelium
discoideum} PDB: 2w94_A* 2wn2_A* 2w95_A*
Length = 254
Score = 52.8 bits (126), Expect = 8e-10
Identities = 15/83 (18%), Positives = 24/83 (28%), Gaps = 7/83 (8%)
Query: 14 RTDYNGGAWCPKNQITTEPREWIEINLHFVHVITATGVQGRFGNGQGAEFTEAYLIDYWR 73
T AWC + ++I +QGR Q + +Y I Y
Sbjct: 43 NTIDGSEAWCSSIV---DTNQYIVAGCEVPRTFMCVALQGRGDADQ---WVTSYKIRYS- 95
Query: 74 PKLGKWVRYKDAKGNEMYSYVQT 96
W Y++ + T
Sbjct: 96 LDNVSWFEYRNGAAVTGVTDRNT 118
>3hny_M Coagulation factor VIII; blood clotting, acute phase, blood
coagulation, calcium, DIS mutation, disulfide bond,
glycoprotein, hemophilia; 1.07A {Homo sapiens} PDB:
3hnb_M 3hob_M 1d7p_M 1iqd_C 1cfg_A 1fac_A
Length = 159
Score = 51.4 bits (123), Expect = 1e-09
Identities = 12/76 (15%), Positives = 30/76 (39%), Gaps = 5/76 (6%)
Query: 18 NGGAWCPKNQITTEPREWIEINLHFVHVITATGVQGRFGNGQGAEFTEAYLIDYWRPKLG 77
AW P+ P+EW++++ +T QG + + + + +LI +
Sbjct: 46 RSNAWRPQVN---NPKEWLQVDFQKTMKVTGVTTQGV-KSLLTSMYVKEFLISSSQDG-H 100
Query: 78 KWVRYKDAKGNEMYSY 93
+W + +++
Sbjct: 101 QWTLFFQNGKVKVFQG 116
>3bn6_A Lactadherin; anticoagulation, anti-coagulation, anticoagulant,
anti- coagulant, membrane binding, phosphatidyl-serine
binding; 1.67A {Bos taurus} PDB: 2pqs_A
Length = 158
Score = 51.1 bits (122), Expect = 1e-09
Identities = 18/80 (22%), Positives = 28/80 (35%), Gaps = 5/80 (6%)
Query: 14 RTDYNGGAWCPKNQITTEPREWIEINLHFVHVITATGVQGRFGNGQGAEFTEAYLIDYWR 73
AW + EW++I+L +T QG G ++ AY + Y
Sbjct: 41 DNQGKFNAWTAQTN---SASEWLQIDLGSQKRVTGIITQGARDFGHI-QYVAAYRVAYGD 96
Query: 74 PKLGKWVRYKDAKGNEMYSY 93
W YKD +E +
Sbjct: 97 DG-VTWTEYKDPGASESKIF 115
>2vm9_A Discoidin-2, discoidin II; DDR, lectin, aggregation, cell adhesion;
1.75A {Dictyostelium discoideum} PDB: 2vmc_A* 2vmd_A*
2vme_A*
Length = 257
Score = 52.0 bits (124), Expect = 2e-09
Identities = 13/68 (19%), Positives = 22/68 (32%), Gaps = 7/68 (10%)
Query: 17 YNGGAWCPKNQITTEPREWIEINLHFVHVITATGVQGRFGNGQGAEFTEAYLIDYWRPKL 76
+W + ++I V A QGR + Q + +Y + Y
Sbjct: 47 DGSESWSSS---VLDKNQFIVAGSDSVKHFVAISTQGRGDHDQ---WVTSYKLRYTLDN- 99
Query: 77 GKWVRYKD 84
WV Y +
Sbjct: 100 VNWVEYNN 107
>2qqj_A Neuropilin-2; VEGF receptor, semaphorin receptor, developmental
protein, differentiation, glycoprotein, membrane,
neurogenesis, transmembrane; 1.95A {Homo sapiens}
Length = 325
Score = 49.4 bits (117), Expect = 1e-08
Identities = 15/80 (18%), Positives = 36/80 (45%), Gaps = 5/80 (6%)
Query: 14 RTDYNGGAWCPKNQITTEPREWIEINLHFVHVITATGVQGRFG-NGQGAEFTEAYLIDYW 72
R + W P +E+++++L F+ ++TA QG Q + ++Y ++
Sbjct: 40 RLHGDDNGWTPNLD---SNKEYLQVDLRFLTMLTAIATQGAISRETQNGYYVKSYKLEVS 96
Query: 73 RPKLGKWVRYKDAKGNEMYS 92
W+ Y+ K ++++
Sbjct: 97 TNG-EDWMVYRHGKNHKVFQ 115
Score = 46.0 bits (108), Expect = 2e-07
Identities = 13/87 (14%), Positives = 27/87 (31%), Gaps = 6/87 (6%)
Query: 12 MVRTDYNGGAWCPKNQITTEPREWIEINLHFVHVITATGVQGRFGNGQ-----GAEFTEA 66
R + W P+ EW++++L + +QG G F
Sbjct: 194 AARLVSSRSGWFPRIPQAQPGEEWLQVDLGTPKTVKGVIIQGARGGDSITAVEARAFVRK 253
Query: 67 YLIDYWRPKLGKWVRYKDAKGNEMYSY 93
+ + Y W +D + + +
Sbjct: 254 FKVSYSLNG-KDWEYIQDPRTQQPKLF 279
>2qqk_A Neuropilin-2; VEGF receptor, semaphorin receptor, phage-derived
antibody, developmental protein, differentiation,
glycoprotein; HET: NAG; 2.75A {Homo sapiens} PDB: 2qql_A
Length = 579
Score = 48.0 bits (114), Expect = 4e-08
Identities = 13/81 (16%), Positives = 27/81 (33%), Gaps = 6/81 (7%)
Query: 14 RTDYNGGAWCPKNQITTEPREWIEINLHFVHVITATGVQGRFGNG-----QGAEFTEAYL 68
R + W P+ EW++++L + +QG G + F +
Sbjct: 444 RLVSSRSGWFPRIPQAQPGEEWLQVDLGTPKTVKGVIIQGARGGDSITAVEARAFVRKFK 503
Query: 69 IDYWRPKLGKWVRYKDAKGNE 89
+ Y W +D + +
Sbjct: 504 VSYSL-NGKDWEYIQDPRTQQ 523
Score = 45.3 bits (107), Expect = 5e-07
Identities = 13/74 (17%), Positives = 33/74 (44%), Gaps = 5/74 (6%)
Query: 18 NGGAWCPKNQITTEPREWIEINLHFVHVITATGVQGRFGNGQG-AEFTEAYLIDYWRPKL 76
+ W P +E+++++L F+ ++TA QG + ++Y ++
Sbjct: 292 DDNGWTPN---LDSNKEYLQVDLRFLTMLTAIATQGAISRETQNGYYVKSYKLEVSTN-G 347
Query: 77 GKWVRYKDAKGNEM 90
W+ Y+ K +++
Sbjct: 348 EDWMVYRHGKNHKV 361
>2qqm_A Neuropilin-1; VEGF receptor, semaphorin receptor, calcium-binding
domain, angiogenesis, developmental protein,
differentiation; HET: NAG FUC; 2.00A {Homo sapiens}
SCOP: b.18.1.2 b.18.1.2 b.23.1.1
Length = 450
Score = 42.7 bits (100), Expect = 3e-06
Identities = 13/80 (16%), Positives = 27/80 (33%), Gaps = 2/80 (2%)
Query: 10 EDMVRTDYNGGAWCPKNQITTEPREWIEINLHFVHVITATGVQGRFGNGQGAEFTEAYLI 69
+ +R + W + EW++I+L ++ +QG + + F + I
Sbjct: 323 PENIRLVTSRSGWALPPAPHSYINEWLQIDLGEEKIVRGIIIQGG-KHRENKVFMRKFKI 381
Query: 70 DYWRPKLGKWVRYKDAKGNE 89
Y W D +
Sbjct: 382 GYSNNG-SDWKMIMDDSKRK 400
Score = 32.7 bits (74), Expect = 0.012
Identities = 19/81 (23%), Positives = 31/81 (38%), Gaps = 5/81 (6%)
Query: 13 VRTDYNGGAWCPKNQITTEPREWIEINLHFVHVITATGVQGRFGNGQG-AEFTEAYLIDY 71
R +Y W P REWI+++L + +TA G QG + + Y ID
Sbjct: 170 SRLNYPENGWTPGEDSY---REWIQVDLGLLRFVTAVGTQGAISKETKKKYYVKTYKIDV 226
Query: 72 WRPKLGKWVRYKDAKGNEMYS 92
W+ K+ ++
Sbjct: 227 SSNGED-WITIKEGNKPVLFQ 246
>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 = 34.6 bits (79), Expect = 0.003
Identities = 21/97 (21%), Positives = 29/97 (29%), Gaps = 31/97 (31%)
Query: 6 EEIYEDMVRTDYNGGAWCPKNQITTEPREWIEINLHFV--HVITATGVQGRFGNGQGAEF 63
I E +V I P +W E F H++ FG G +
Sbjct: 473 GSISERIVD------------CIIRLPVKW-ETTTQFKATHILD-------FGPGGASGL 512
Query: 64 TEAYLIDYWRPKLGKWVRY-----KDAKGNEMYSYVQ 95
L R K G VR D ++ Y + Q
Sbjct: 513 GV--LTH--RNKDGTGVRVIVAGTLDINPDDDYGFKQ 545
>4e5t_A Mandelate racemase / muconate lactonizing enzyme, terminal domain
protein; aldolase, structural genomics, biology; 2.90A
{Labrenzia alexandrii}
Length = 404
Score = 30.3 bits (69), Expect = 0.063
Identities = 9/52 (17%), Positives = 17/52 (32%), Gaps = 3/52 (5%)
Query: 28 ITTEPREWIEINLHFVHVITATGVQG---RFGNGQGAEFTEAYLIDYWRPKL 76
+ P FV ++TA G+ G + G + D + +
Sbjct: 12 VGNPPPRHGGRYFIFVKLVTACGITGYGEIYNATFGPDLVAKMAEDVFARQF 63
>3fxg_A Rhamnonate dehydratase; structural gemomics, enolase superfamily,
NYSGXRC, target 9265J, lyase, structural genomics,
PSI-2; 1.90A {Gibberella zeae ph-1} PDB: 2p0i_A
Length = 455
Score = 28.1 bits (63), Expect = 0.49
Identities = 13/74 (17%), Positives = 22/74 (29%), Gaps = 13/74 (17%)
Query: 15 TDYNGGAWCPKNQITTEPREWIEI------------NLHFVHVITATGVQGRFGNGQGAE 62
+ GG W + I+T +W + V + G G F G G
Sbjct: 29 HNVKGGHWLIDSDISTPASKWEQYKKSRTSWGINVLGSFLVEIEATDGTVG-FATGFGGP 87
Query: 63 FTEAYLIDYWRPKL 76
+ ++ L
Sbjct: 88 PACWLVHQHFERFL 101
>3rcy_A Mandelate racemase/muconate lactonizing enzyme-LI protein;
structural genomics, protein structure initiative; HET:
RIB; 1.99A {Roseovarius SP} PDB: 3t4w_A
Length = 433
Score = 27.3 bits (61), Expect = 0.80
Identities = 9/50 (18%), Positives = 15/50 (30%), Gaps = 3/50 (6%)
Query: 30 TEPREWIEINLHFVHVITATGVQG---RFGNGQGAEFTEAYLIDYWRPKL 76
W V + T G+ G + G E A + D + +
Sbjct: 14 PPAPGWGGRYWILVKLTTDDGITGWGECYAASVGPEAMRAVIEDVFARHM 63
>1sy7_A Catalase 1; heme oxidation, singlet oxygen, oxidoreductase; HET:
HDD HEM; 1.75A {Neurospora crassa} SCOP: c.23.16.3
Length = 715
Score = 27.4 bits (61), Expect = 0.92
Identities = 12/48 (25%), Positives = 18/48 (37%), Gaps = 2/48 (4%)
Query: 54 RFGNGQGAEFTEAYLIDYWRPKLGKWVRYKDAKGNEMYSYVQTGTLWR 101
RF A E ++Y + G R + AK E +S Q +
Sbjct: 406 RFDACPPASLKEGGYLEYAQKVAGIKARARSAKFKEHFS--QAQLFYN 451
>2ox4_A Putative mandelate racemase; enolase, dehydratase, structural
genomics, protein structure initiative, PSI, nysgrc;
1.80A {Zymomonas mobilis}
Length = 403
Score = 26.8 bits (60), Expect = 1.4
Identities = 8/52 (15%), Positives = 12/52 (23%), Gaps = 3/52 (5%)
Query: 28 ITTEPREWIEINLHFVHVITATGVQG---RFGNGQGAEFTEAYLIDYWRPKL 76
R V V T G+ G A ++ + L
Sbjct: 11 FHVHTRPQSGQRPILVKVSTDEGIYGLGEAGIAYGVGGSAAAGILKDYAALL 62
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 26.7 bits (58), Expect = 1.7
Identities = 7/30 (23%), Positives = 16/30 (53%), Gaps = 4/30 (13%)
Query: 5 YEEIYEDMVRTDYNGGAWCPKNQITTEPRE 34
++ E+++R +Y + + I TE R+
Sbjct: 79 VQKFVEEVLRINYK---FL-MSPIKTEQRQ 104
>3cb0_A 4-hydroxyphenylacetate 3-monooxygenase; corrin reductase, COBR,
six-stranded anti-parallel beta- barrel,
oxidoreductase; HET: FMN; 1.60A {Brucella melitensis}
Length = 173
Score = 25.2 bits (56), Expect = 3.4
Identities = 7/19 (36%), Positives = 10/19 (52%), Gaps = 3/19 (15%)
Query: 41 HF---VHVITATGVQGRFG 56
H+ V ++T G GR G
Sbjct: 25 HYAGAVQIVTTAGAAGRRG 43
>3tcs_A Racemase, putative; PSI-biology, nysgrc, structural genomics, NEW
YORK structura genomics research consortium, TIM
barrel; HET: PG4; 1.88A {Roseobacter denitrificans}
PDB: 3u4f_A 3t9p_A 3t8q_A
Length = 388
Score = 25.3 bits (56), Expect = 3.6
Identities = 13/50 (26%), Positives = 16/50 (32%), Gaps = 8/50 (16%)
Query: 29 TTEPREWIEINLHFVHVITATGVQGRFGN--GQGAEFTEAYLIDYWRPKL 76
T FV V T G QG +G A+ T L P +
Sbjct: 30 TFTNDAVG-----FVRVTTQDGAQG-WGQVSTYHADITCTVLHRQVAPWM 73
>2r0x_A Possible flavin reductase; split barrel-like, structural
genomics, joint center for STR genomics, JCSG, protein
structure initiative; HET: MSE SO4; 1.06A {Haemophilus
somnus 129PT}
Length = 158
Score = 24.8 bits (55), Expect = 4.4
Identities = 6/14 (42%), Positives = 10/14 (71%)
Query: 43 VHVITATGVQGRFG 56
VH++T +G G+ G
Sbjct: 19 VHIVTTSGETGQHG 32
>3k86_A Chlorophenol-4-monooxygenase component 1; NADH:FAD
oxidoreductase, oxidoreductase; 2.00A {Burkholderia
cepacia} PDB: 3k87_A* 3k88_A*
Length = 185
Score = 24.9 bits (55), Expect = 4.6
Identities = 5/19 (26%), Positives = 6/19 (31%), Gaps = 3/19 (15%)
Query: 41 HF---VHVITATGVQGRFG 56
V V+ G G G
Sbjct: 28 KASTPVTVVATNGPFGLAG 46
>4g22_A Hydroxycinnamoyl-COA shikimate/quinate hydroxycinnamoyltransferase;
BAHD superfamily; 1.70A {Coffea canephora} PDB: 4g2m_A
4g0b_A
Length = 439
Score = 25.0 bits (55), Expect = 4.8
Identities = 6/10 (60%), Positives = 7/10 (70%)
Query: 57 NGQGAEFTEA 66
NG+G F EA
Sbjct: 92 NGEGVLFVEA 101
>3equ_A PBP-2, penicillin-binding protein 2; class B transpeptidase, cell
DIV cell inner membrane, cell membrane, cell shape; HET:
SEP; 2.40A {Neisseria gonorrhoeae} PDB: 3eqv_A*
Length = 542
Score = 24.9 bits (55), Expect = 5.9
Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 5/47 (10%)
Query: 44 HVITATGVQGRFGNGQGAEFTEAYLIDYWRPKLGKWVRYKDAKGNEM 90
HVI T + +G+G E E L D + G V +D +GN +
Sbjct: 138 HVIGFTDI-----DGKGQEGLELSLEDSLYGEDGAEVVLRDRQGNIV 179
>2ps2_A Putative mandelate racemase/muconate lactonizing enzyme;
structural genomics, NYSGXRC, target 9440A, enolase
superfamily, PSI-2; 1.80A {Aspergillus oryzae RIB40}
Length = 371
Score = 24.9 bits (55), Expect = 6.2
Identities = 13/51 (25%), Positives = 19/51 (37%), Gaps = 7/51 (13%)
Query: 33 REWIEINLHFVHVITATGVQG-----RFGNGQGAEFTEAY--LIDYWRPKL 76
RE+ + V + T TG++G FG+ A I P L
Sbjct: 29 REYRSFDATIVRITTDTGIEGWGESTPFGSNYIASHPRGVRAGIATMAPSL 79
>3pbt_A Penicillin-binding protein 3; PBP3, hydrolase-antibiotic complex;
HET: UE1; 1.64A {Pseudomonas aeruginosa} PDB: 3pbn_A*
3pbo_A* 3pbr_A* 3pbs_A* 3pbq_A* 3oc2_A 3ocl_A* 3ocn_A*
Length = 538
Score = 24.9 bits (55), Expect = 6.5
Identities = 11/47 (23%), Positives = 18/47 (38%), Gaps = 5/47 (10%)
Query: 44 HVITATGVQGRFGNGQGAEFTEAYLIDYWRPKLGKWVRYKDAKGNEM 90
H + T V + +G E E ++ GK KD +G +
Sbjct: 122 HAVGFTDV-----DDRGREGIELAFDEWLAGVPGKRQVLKDRRGRVI 163
>3do6_A Formate--tetrahydrofolate ligase; TM1766, putative
formyltetrahydrofolate synthetase, structural genomics;
HET: MSE; 1.85A {Thermotoga maritima}
Length = 543
Score = 24.5 bits (54), Expect = 8.2
Identities = 7/15 (46%), Positives = 10/15 (66%), Gaps = 3/15 (20%)
Query: 37 EINLHF---VHVITA 48
EINLHF +H + +
Sbjct: 110 EINLHFTGDMHAVAS 124
>3pzx_A Formate--tetrahydrofolate ligase; HET: TOE; 2.20A {Moorella
thermoacetica} PDB: 1fp7_A 1fpm_A* 3qb6_A* 3qus_A*
3rbo_A* 3sin_A* 1eg7_A
Length = 557
Score = 24.1 bits (53), Expect = 9.7
Identities = 9/20 (45%), Positives = 12/20 (60%), Gaps = 5/20 (25%)
Query: 32 PREWIEINLHF---VHVITA 48
P E +INLHF +H +T
Sbjct: 121 PME--DINLHFTGDIHAVTY 138
>2gl5_A Putative dehydratase protein; structural genomics, protein
structure initiati nysgxrc; 1.60A {Salmonella
typhimurium} SCOP: c.1.11.2 d.54.1.1 PDB: 4e6m_A*
Length = 410
Score = 24.2 bits (53), Expect = 9.9
Identities = 7/53 (13%), Positives = 15/53 (28%), Gaps = 3/53 (5%)
Query: 27 QITTEPREWIEINLHFVHVITATGVQG---RFGNGQGAEFTEAYLIDYWRPKL 76
++ + N + V T +G+ G +I P +
Sbjct: 14 ELKKRDQTMSSYNPVLIRVNTDSGLSGIGEVGLAYGAGAKAGVGIIRDLAPLI 66
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
0.319 0.137 0.456
Gapped
Lambda K H
0.267 0.0689 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,691,635
Number of extensions: 87194
Number of successful extensions: 240
Number of sequences better than 10.0: 1
Number of HSP's gapped: 226
Number of HSP's successfully gapped: 57
Length of query: 101
Length of database: 6,701,793
Length adjustment: 67
Effective length of query: 34
Effective length of database: 4,831,086
Effective search space: 164256924
Effective search space used: 164256924
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 (23.5 bits)