RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9229
(258 letters)
>1eaq_A RUNT-related transcription factor 1; transcription/DNA, acute
myeloid leukemia, AML, RUNX1, RUNT domain, chloride
binding, IG fold; HET: MSE; 1.25A {Mus musculus} SCOP:
b.2.5.6 PDB: 1ean_A 1eao_A* 2j6w_A 1e50_A 1h9d_A* 1ljm_A
1cmo_A 1hjc_A* 1hjb_C* 1io4_C 1co1_A
Length = 140
Score = 218 bits (557), Expect = 5e-73
Identities = 100/136 (73%), Positives = 118/136 (86%)
Query: 73 AERTLGDFLSEHPGELVRTGSPQFVCTVLPPHWRSNKTLPVAFKVVALGDVMDGTIVTIR 132
+R++ + L++HPGELVRT SP F+ +VLP HWRSNKTLP+AFKVVALGDV DGT+VT+
Sbjct: 2 GDRSMVEVLADHPGELVRTDSPNFLSSVLPTHWRSNKTLPIAFKVVALGDVPDGTLVTVM 61
Query: 133 AGNDENYCAELRNCTAVMKNQVAKFNDLRFVGRSGRGKSFTLTITISSSPPQVTTYSKAI 192
AGNDENY AELRN TA MKNQVA+FNDLRFVGRSGRGKSFTLTIT+ ++PPQV TY +AI
Sbjct: 62 AGNDENYSAELRNATAAMKNQVARFNDLRFVGRSGRGKSFTLTITVFTNPPQVATYHRAI 121
Query: 193 KVTVDGPREPRSKTRK 208
K+TVDGPREPR +K
Sbjct: 122 KITVDGPREPRRHRQK 137
>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 = 42.0 bits (98), Expect = 1e-04
Identities = 53/253 (20%), Positives = 92/253 (36%), Gaps = 47/253 (18%)
Query: 11 SPTEGNTGNLLNDTYSKMTSDILAERTLGDFLSE--HPGELVRTEGNTGNLLNDTYSKMT 68
PTEG + ++ + L + LG ++S P ++ G +LN ++
Sbjct: 43 EPTEGFAAD--DEPTTPAE---LVGKFLG-YVSSLVEPSKV----GQFDQVLNLCLTEFE 92
Query: 69 SDILAER---TL-GDFLSEHPGELVRTGSP------QFVCTVLPPHWRSNKTLPVAFKVV 118
+ L L L E+ LV+T + P +SN L F+ V
Sbjct: 93 NCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSAL---FRAV 149
Query: 119 ALGDVMDGTIVTIRAG--NDENYCAELRNCTAVMKNQVAKFNDLRFVGRSGRGKSFTLTI 176
G+ +V I G N ++Y ELR+ V + S TL+
Sbjct: 150 GEGNA---QLVAIFGGQGNTDDYFEELRDLYQTYHVLVG-----DLIKFSAE----TLSE 197
Query: 177 TISSSPPQVTTYSKAIKVTVDGPREPRSKTRKSFTLTITISSSPP-----QVTTYSKAIK 231
I ++ +++ + + ++ P + K + L+I IS P Q+ Y K
Sbjct: 198 LIRTTLDAEKVFTQGLNI-LEWLENPSNTPDKDYLLSIPISC--PLIGVIQLAHYVVTAK 254
Query: 232 VTVDGPREPRSKT 244
+ P E RS
Sbjct: 255 LLGFTPGELRSYL 267
Score = 39.6 bits (92), Expect = 9e-04
Identities = 29/207 (14%), Positives = 62/207 (29%), Gaps = 82/207 (39%)
Query: 9 TNSPTE------GNTGNLLNDTYSKMTSDILAE---------RTLGDFLS----EHP-GE 48
N+P G G + + YS M + + + + + + + G
Sbjct: 1666 INNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGL 1725
Query: 49 LVRTEGNT------------------GNLLNDT---------YSKMTS--DILAERTLGD 79
L T+ T G + D Y+ + S D++ ++
Sbjct: 1726 LSATQ-FTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVM---SIES 1781
Query: 80 FLSEHPGELVRT-GSPQFVCTVLP--PHWRSNKTLPVAFKVVALGDVMDGTIVTIRAGND 136
+ E+V G + +P RSN + ++A + G + + +
Sbjct: 1782 LV-----EVVFYRG--MTMQVAVPRDELGRSN------YGMIA---INPGRVAA--SFSQ 1823
Query: 137 E---NYCAELRNCTA--VMKNQVAKFN 158
E + T V ++ +N
Sbjct: 1824 EALQYVVERVGKRTGWLV---EIVNYN 1847
>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 = 35.6 bits (81), Expect = 0.015
Identities = 14/71 (19%), Positives = 24/71 (33%), Gaps = 13/71 (18%)
Query: 40 DFLS---EHPGELVRTEGNTGNLLND--TYSK-MT-SDILAER---TLGDFLSEHPGELV 89
FL H G+ N L Y + +D ER + DFL + L+
Sbjct: 501 RFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLI 560
Query: 90 RTGSPQFVCTV 100
+ ++ +
Sbjct: 561 CS---KYTDLL 568
Score = 33.3 bits (75), Expect = 0.090
Identities = 12/54 (22%), Positives = 21/54 (38%), Gaps = 7/54 (12%)
Query: 7 TNTNSPTEGNTGNLLND--TYSK-MT-SDILAER---TLGDFLSEHPGELVRTE 53
+T G+ N L Y + +D ER + DFL + L+ ++
Sbjct: 510 DSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSK 563
>3r8b_B G5-8, enterotoxin type B; immunoglobulin-like, OB-fold,
toxin-immune system complex; 2.95A {Rattus norvegicus}
Length = 125
Score = 29.5 bits (67), Expect = 0.52
Identities = 5/28 (17%), Positives = 13/28 (46%), Gaps = 1/28 (3%)
Query: 161 RFVGRSGRGKSFTLTITISSSPPQVTTY 188
+ ++F+L + ++P Q + Y
Sbjct: 68 GYKASRPSQENFSLILE-LATPSQTSVY 94
>1h7n_A 5-aminolaevulinic acid dehydratase; lyase, aldolase, TIM barrel,
tetrapyrrole synthesis; HET: SHF; 1.6A {Saccharomyces
cerevisiae} SCOP: c.1.10.3 PDB: 1h7p_A* 1h7r_A* 1ohl_A*
1qml_A 1qnv_A 1w31_A* 1h7o_A* 1eb3_A* 1gjp_A* 1ylv_A*
1aw5_A
Length = 342
Score = 30.2 bits (69), Expect = 0.53
Identities = 12/34 (35%), Positives = 17/34 (50%), Gaps = 3/34 (8%)
Query: 117 VVALGDVMDGTIVTIRAGNDENYCAELRNCTAVM 150
VA D++DG I I+ G A L + T V+
Sbjct: 175 CVAPSDMIDGRIRDIKRGLIN---ANLAHKTFVL 205
>2k7r_A Primosomal protein DNAI; DNAI N-terminal domain, helicase-loading
protein, ATP- binding, DNA replication,
nucleotide-binding, primosome; NMR {Bacillus subtilis}
Length = 106
Score = 28.3 bits (63), Expect = 0.93
Identities = 6/45 (13%), Positives = 17/45 (37%), Gaps = 1/45 (2%)
Query: 44 EHPGELVRTEGNTGNLLNDTYSKMTSDILAERTLGDFLSEHPGEL 88
E G ++ + +M ++ ++ + FL E+ +
Sbjct: 2 EPIGRSLQGVTGRPDF-QKRLEQMKEKVMKDQDVQAFLKENEEVI 45
Score = 27.9 bits (62), Expect = 1.4
Identities = 4/29 (13%), Positives = 12/29 (41%)
Query: 21 LNDTYSKMTSDILAERTLGDFLSEHPGEL 49
+M ++ ++ + FL E+ +
Sbjct: 17 FQKRLEQMKEKVMKDQDVQAFLKENEEVI 45
>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 = 28.8 bits (63), Expect = 1.1
Identities = 9/47 (19%), Positives = 15/47 (31%), Gaps = 18/47 (38%)
Query: 151 KNQVAKFNDLRFVGRSGRGKSFTLTITISSSPPQVTTYSKAIKVTVD 197
K + K +L + S P + AIK T++
Sbjct: 19 KQALKKLQA-------------SLKLYADDSAPAL-----AIKATME 47
Score = 27.6 bits (60), Expect = 2.4
Identities = 9/36 (25%), Positives = 18/36 (50%), Gaps = 7/36 (19%)
Query: 201 EPRS-KTRKSFTLTITISSSPPQVTTYSKAIKVTVD 235
E ++ K ++ +L + S P + AIK T++
Sbjct: 18 EKQALKKLQA-SLKLYADDSAPAL-----AIKATME 47
>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP;
1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A*
2j3e_A*
Length = 262
Score = 29.4 bits (66), Expect = 1.1
Identities = 9/42 (21%), Positives = 16/42 (38%), Gaps = 6/42 (14%)
Query: 163 VGRSGRGKSFTL-TI-----TISSSPPQVTTYSKAIKVTVDG 198
+G+ G GKS T+ ++ S + T+ G
Sbjct: 42 LGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTMGG 83
>1pv8_A Delta-aminolevulinic acid dehydratase; porphobilinogen synthase,
tetrapyrrole biosynthesis, reactio intermediate, lyase;
HET: PB1; 2.20A {Homo sapiens} SCOP: c.1.10.3 PDB:
1e51_A* 2z0i_A 2z1b_A
Length = 330
Score = 29.4 bits (67), Expect = 1.1
Identities = 12/34 (35%), Positives = 16/34 (47%), Gaps = 3/34 (8%)
Query: 117 VVALGDVMDGTIVTIRAGNDENYCAELRNCTAVM 150
VVA D+MDG + I+ L N +VM
Sbjct: 164 VVAPSDMMDGRVEAIKEALMA---HGLGNRVSVM 194
>2oi9_C V beta, T cell receptor beta chain; TCR, MHC, immune system; 2.35A
{Mus musculus} PDB: 2e7l_C
Length = 121
Score = 27.9 bits (63), Expect = 1.3
Identities = 7/28 (25%), Positives = 15/28 (53%), Gaps = 1/28 (3%)
Query: 161 RFVGRSGRGKSFTLTITISSSPPQVTTY 188
+ ++F+LT+ S++P Q + Y
Sbjct: 63 GYKASRPSQENFSLTLE-SATPSQTSVY 89
>1fli_A FLI-1; transcription/DNA; NMR {Homo sapiens} SCOP: a.4.5.21
Length = 98
Score = 27.7 bits (61), Expect = 1.5
Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 2/49 (4%)
Query: 20 LLNDTYSKMTSDILAERTLGDFLSEHPGELVRTEGNTGNLLNDTYSKMT 68
LL+D S S I E T G+F P E+ R G + N Y K++
Sbjct: 15 LLSD--SANASCITWEGTNGEFKMTDPDEVARRWGERKSKPNMNYDKLS 61
>1xf1_A C5A peptidase, SCP; hydrolase; HET: CIT; 1.90A {Streptococcus
pyogenes} PDB: 3eif_A*
Length = 926
Score = 28.9 bits (64), Expect = 1.9
Identities = 11/73 (15%), Positives = 22/73 (30%), Gaps = 7/73 (9%)
Query: 169 GKSFTLTITISSSPPQVTTYSKAIKVTVDGPREPRSKTRKSFTLTITISSSPPQVTT--- 225
F +T+ + + + V D + +S ++T
Sbjct: 498 SDKFEVTVNVHNKSDKPQELYYQATVQTDKVDGKHFALAPK----VLYETSWQKITIPAN 553
Query: 226 YSKAIKVTVDGPR 238
SK + V +D R
Sbjct: 554 SSKQVTVPIDASR 566
>2z35_A T-cell receptor alpha-chain; immune receptor, immune system; 2.20A
{Mus musculus} PDB: 2pxy_A 2z31_A 1ac6_A
Length = 112
Score = 27.6 bits (62), Expect = 1.9
Identities = 6/29 (20%), Positives = 7/29 (24%), Gaps = 2/29 (6%)
Query: 161 RFVGR-SGRGKSFTLTITISSSPPQVTTY 188
F + SF L S Y
Sbjct: 60 GFEATYNKEATSFHLQKA-SVQESDSAVY 87
>2qhl_A Novel immune-type receptor 10; immunoglobulin variable domain-like
beta-sandwich, immune system; 1.56A {Ictalurus
punctatus} PDB: 3b5t_A 2qjd_A 2qte_A 2qqq_A
Length = 111
Score = 27.2 bits (61), Expect = 2.3
Identities = 6/19 (31%), Positives = 8/19 (42%), Gaps = 1/19 (5%)
Query: 159 DLRFVGRSGRGKSFTLTIT 177
D RF + + F L I
Sbjct: 64 DSRFSM-TVNDQKFDLNII 81
>1mqk_L Antibody 7E2 FV fragment, light chain; membrane protein, cytochrome
C oxidase, high- resolution structure, immune system;
1.28A {Mus musculus} SCOP: b.1.1.1 PDB: 1ar1_D 3ehb_D*
3hb3_D* 1qle_L* 1f6l_L 3iy2_A 1vfa_A 1dvf_A 1kir_A
1g7i_A 1g7j_A 1a2y_A 1kip_A 1kiq_A 1vfb_A 1g7h_A 1a7o_L
1g7l_A 1g7m_A 1a7n_L ...
Length = 120
Score = 27.1 bits (61), Expect = 2.6
Identities = 12/28 (42%), Positives = 14/28 (50%), Gaps = 2/28 (7%)
Query: 161 RFVGRSGRGKSFTLTITISSSPPQVTTY 188
RF G SG G F+L I S P +Y
Sbjct: 61 RFSG-SGSGTQFSLKIN-SLLPEDFGSY 86
>2q20_A VK1 O18/O8 germline light chain variable domain; Al, light chain
amyloidosis, amyloid, immunoglobulin, protein fibril;
1.30A {Homo sapiens} PDB: 2kqm_A 3cdf_A 3cdc_A 2kqn_A
3cdy_A 2q1e_A 3dvi_A 1igm_L 1bww_A 1b0w_A 1bre_A 1qp1_A
3dvf_A 1rei_A 1wtl_A 1ar2_A 1fgv_L 2bx5_A 2uzi_L* 1bvk_A
...
Length = 109
Score = 27.1 bits (61), Expect = 2.6
Identities = 14/28 (50%), Positives = 16/28 (57%), Gaps = 2/28 (7%)
Query: 161 RFVGRSGRGKSFTLTITISSSPPQVTTY 188
RF G SG G FT TI+ S P + TY
Sbjct: 63 RFSG-SGSGTDFTFTIS-SLQPEDIATY 88
>3bdb_A Novel immune-type receptor 11; immunoglobulin variable domain-like
beta-sandwich, stalk region, immune system; 2.80A
{Ictalurus punctatus}
Length = 137
Score = 27.3 bits (61), Expect = 2.7
Identities = 7/30 (23%), Positives = 10/30 (33%), Gaps = 2/30 (6%)
Query: 159 DLRFVGRSGRGKSFTLTITISSSPPQVTTY 188
D RF + + F L I + Y
Sbjct: 64 DSRFSM-TVNDQKFDLNII-GAREDDGGEY 91
>1l6s_A Porphobilinogen synthase; dehydratase, lyase; HET: CME DSB; 1.70A
{Escherichia coli} SCOP: c.1.10.3 PDB: 1i8j_A* 1l6y_A*
1b4e_A
Length = 323
Score = 27.9 bits (63), Expect = 3.1
Identities = 7/22 (31%), Positives = 9/22 (40%)
Query: 117 VVALGDVMDGTIVTIRAGNDEN 138
+A MDG + IR D
Sbjct: 160 FIAPSAAMDGQVQAIRQALDAA 181
>1i8k_A Epidermal growth factor receptor antibody MR1SCFV light chain;
antibody-peptide complex, immunoglobulin fold, type II'
beta turn., immune system; 1.80A {Mus musculus} SCOP:
b.1.1.1 PDB: 1i8i_A
Length = 107
Score = 26.7 bits (60), Expect = 3.1
Identities = 10/28 (35%), Positives = 12/28 (42%), Gaps = 2/28 (7%)
Query: 161 RFVGRSGRGKSFTLTITISSSPPQVTTY 188
RF SG G F TI ++ V Y
Sbjct: 61 RFSS-SGTGTDFVFTIE-NTLSEDVGDY 86
>1u3h_A T-cell receptor alpha-chain; complex, immune system; 2.42A {Mus
musculus} SCOP: b.1.1.1 PDB: 1b88_A 1kj2_A* 1kb5_A
1d9k_A*
Length = 110
Score = 26.8 bits (60), Expect = 3.2
Identities = 10/29 (34%), Positives = 12/29 (41%), Gaps = 2/29 (6%)
Query: 161 RFVGR-SGRGKSFTLTITISSSPPQVTTY 188
RF + R K +L I S P TY
Sbjct: 59 RFTIFFNKREKKLSLHIA-DSQPGDSATY 86
Score = 25.3 bits (56), Expect = 9.8
Identities = 8/23 (34%), Positives = 10/23 (43%), Gaps = 1/23 (4%)
Query: 204 SKTRKSFTLTITISSSPPQVTTY 226
+K K +L I S P TY
Sbjct: 65 NKREKKLSLHIA-DSQPGDSATY 86
>2e27_L Anti-ciguatoxin antibody, light chain; immunoglobulin fold, immune
system; HET: AB0; 1.70A {Mus musculus} PDB: 3iy1_A
Length = 119
Score = 27.1 bits (61), Expect = 3.2
Identities = 10/28 (35%), Positives = 16/28 (57%), Gaps = 2/28 (7%)
Query: 161 RFVGRSGRGKSFTLTITISSSPPQVTTY 188
RF G SG G+ ++ +I+ + P TY
Sbjct: 63 RFSG-SGSGRDYSFSIS-NLEPEDAATY 88
>3khq_A B-cell antigen receptor complex-associated protei chain; CD79B,
CD79A, IG-beta, BCR, IG domain, V-SET, immunoglobulin
protein binding; HET: FLC GSH; 1.70A {Mus musculus} PDB:
3kho_A*
Length = 133
Score = 27.3 bits (61), Expect = 3.3
Identities = 7/17 (41%), Positives = 9/17 (52%), Gaps = 1/17 (5%)
Query: 161 RFVGRSGRGKSFTLTIT 177
R V + G +TLTI
Sbjct: 67 RIVQ-TQNGSVYTLTIQ 82
>1i3g_L Antibody FV fragment; antibiotic; 2.44A {Mus musculus} SCOP:
b.1.1.1 PDB: 3iy6_A
Length = 111
Score = 26.7 bits (60), Expect = 3.3
Identities = 12/28 (42%), Positives = 15/28 (53%), Gaps = 2/28 (7%)
Query: 161 RFVGRSGRGKSFTLTITISSSPPQVTTY 188
RF G SG G FTLTI+ + + Y
Sbjct: 64 RFTG-SGSGTDFTLTIS-NVQSEDLADY 89
>2p1y_A Bispecific alpha/beta TCR; autoimmunity, immunoglobulin fold,
diabody, immune system; 2.42A {Mus musculus} PDB: 1bwm_A
Length = 238
Score = 27.4 bits (61), Expect = 3.7
Identities = 10/29 (34%), Positives = 12/29 (41%), Gaps = 2/29 (6%)
Query: 161 RFVG-RSGRGKSFTLTITISSSPPQVTTY 188
RF + R K +L I S P TY
Sbjct: 187 RFTIFFNKREKKLSLHIA-DSQPGDSATY 214
>1jhl_L IGG1-kappa D11.15 FV (light chain); complex(antibody-antigen);
2.40A {Mus musculus} SCOP: b.1.1.1
Length = 108
Score = 26.7 bits (60), Expect = 3.7
Identities = 14/28 (50%), Positives = 15/28 (53%), Gaps = 2/28 (7%)
Query: 161 RFVGRSGRGKSFTLTITISSSPPQVTTY 188
RF G SG G FTLTI+ S P Y
Sbjct: 61 RFSG-SGSGTDFTLTIS-SLEPEDFAMY 86
>1qfw_M FV, antibody (anti beta subunit) (light chain); glycoprotein
hormone; HET: NAG; 3.50A {Mus musculus} SCOP: b.1.1.1
Length = 108
Score = 26.7 bits (60), Expect = 3.8
Identities = 12/28 (42%), Positives = 13/28 (46%), Gaps = 2/28 (7%)
Query: 161 RFVGRSGRGKSFTLTITISSSPPQVTTY 188
RF G SG FTLTI+ S Y
Sbjct: 61 RFTG-SGSATDFTLTIS-SVQAEDFADY 86
>1j05_L T84.66 antibody, anti-CEA MAB T84.66, light chain; immunoglobulin,
immune system; 1.50A {Mus musculus} SCOP: b.1.1.1 PDB:
1qfw_L* 1qnz_L 3iy3_A 3iy4_A
Length = 111
Score = 26.3 bits (59), Expect = 4.4
Identities = 11/28 (39%), Positives = 12/28 (42%), Gaps = 2/28 (7%)
Query: 161 RFVGRSGRGKSFTLTITISSSPPQVTTY 188
RF G +G FTL I V TY
Sbjct: 65 RFSG-TGSRTDFTLIID-PVEADDVATY 90
>1eeq_A Kappa-4 immunoglobulin (light chain); protein stability, hydrogen
bonds, immune system; 1.50A {Homo sapiens} SCOP: b.1.1.1
PDB: 1eeu_A 1lve_A 2lve_A 3lve_A 5lve_A 4lve_A 1efq_A
1qac_A 1ek3_A 2imm_A 1mvu_A 2ap2_A 1ap2_A 3bd3_A*
3bd4_A* 3bd5_A* 2imn_A 3dus_A* 3duu_A* 3dv4_A* ...
Length = 114
Score = 26.3 bits (59), Expect = 4.5
Identities = 14/28 (50%), Positives = 15/28 (53%), Gaps = 2/28 (7%)
Query: 161 RFVGRSGRGKSFTLTITISSSPPQVTTY 188
RF G SG G FTLTI+ S V Y
Sbjct: 67 RFSG-SGSGTDFTLTIS-SLQAEDVAVY 92
>3py9_A Protein kinase; pasta, muropeptide binding, phosphorylation,
membran transferase; 2.20A {Staphylococcus aureus subsp}
PDB: 3m9g_A
Length = 294
Score = 27.1 bits (60), Expect = 5.1
Identities = 12/65 (18%), Positives = 25/65 (38%), Gaps = 2/65 (3%)
Query: 173 TLTITISSSPPQVTTYSKAIKVTVDGPREPRSKTRKSFTLTITISSSPPQVTTYSKAIKV 232
T++ +S ++ K +VD P ++ KS + + I +T + +
Sbjct: 198 TISFVVSKGKKSDSSDVKTTTESVDVPYTGKND--KSQKVKVYIKDKDNDGSTEKGSFDI 255
Query: 233 TVDGP 237
T D
Sbjct: 256 TSDQR 260
>3bp6_A Programmed cell death protein 1; PD-1, PD-L2, complex,
costimulation, glycoprotein, immunoglo domain, membrane,
transmembrane, receptor; 1.60A {Mus musculus} PDB:
3rnk_A 3sbw_A 3bp5_A 1npu_A 3rnq_A
Length = 117
Score = 26.2 bits (58), Expect = 5.2
Identities = 10/53 (18%), Positives = 15/53 (28%), Gaps = 15/53 (28%)
Query: 159 DLRF-VGRSGRGKSFTLTIT--------------ISSSPPQVTTYSKAIKVTV 196
D RF + + F + I IS P S ++ V
Sbjct: 59 DARFQIIQLPNRHDFHMNILDTRRNDSGIYLCGAISLHPKLKIEESPGAELVV 111
>2yc1_B Single chain antibody fragment 9004G; immune system-toxin complex,
scorpion toxin; 1.90A {Homo sapiens} PDB: 2ybr_B 3lh2_L
3h3p_L 3lhp_L
Length = 146
Score = 26.4 bits (59), Expect = 5.7
Identities = 14/28 (50%), Positives = 15/28 (53%), Gaps = 2/28 (7%)
Query: 161 RFVGRSGRGKSFTLTITISSSPPQVTTY 188
RF G SG G FTLTI+ S P Y
Sbjct: 76 RFTG-SGSGTDFTLTIS-SLEPEDFAIY 101
>1w1z_A Delta-aminolevulinic acid dehydratase; synthase, tetrapyrrole
biosynthesis, ALAD, porphyrin biosynt heme biosynthesis,
lyase; 2.6A {Prosthecochloris vibrioformis} SCOP:
c.1.10.3 PDB: 2c1h_A*
Length = 328
Score = 27.1 bits (61), Expect = 5.8
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 117 VVALGDVMDGTIVTIRAGNDEN 138
V+ D+MDG I IR DE
Sbjct: 166 FVSPSDMMDGRIGAIREALDET 187
>2plc_A PI-PLC, phosphatidylinositol-specific phospholipase C; hydrolase,
phospholipid degradation, virulence factor of human
pathogen; 2.00A {Listeria monocytogenes} SCOP: c.1.18.2
PDB: 1aod_A*
Length = 274
Score = 27.2 bits (60), Expect = 6.0
Identities = 12/65 (18%), Positives = 22/65 (33%), Gaps = 4/65 (6%)
Query: 30 SDILAERTLGDFLSEHPGELVRTEGNTGNLLNDTYSKMTSDILAERTLGDFLSEHPGELV 89
S +L T+ FL ++P E + ND++ ++ D+ P
Sbjct: 83 SGVL--ETITQFLKKNPKETIIMRLKDEQNSNDSFDYRIQPLINI--YKDYFYTTPRTDT 138
Query: 90 RTGSP 94
P
Sbjct: 139 SNKIP 143
>2wim_A N-CAM 2, NCAM2, neural cell adhesion molecule 2; cell membrane,
transmembrane, immunoglobulin; HET: NDG NAG; 3.00A {Homo
sapiens}
Length = 291
Score = 27.1 bits (60), Expect = 6.1
Identities = 11/48 (22%), Positives = 16/48 (33%)
Query: 168 RGKSFTLTITISSSPPQVTTYSKAIKVTVDGPREPRSKTRKSFTLTIT 215
G+S T T P + Y+ + + R K LTI
Sbjct: 18 VGESKFFTCTAIGEPESIDWYNPQGEKIISTQRVVVQKEGVRSRLTIY 65
>4ffy_L DENV1-E111 single chain variable fragment (light; viral envelope
proteins, structural genomics, antibody epito
flavivirus, niaid; 2.50A {Mus musculus}
Length = 126
Score = 26.3 bits (59), Expect = 6.2
Identities = 13/28 (46%), Positives = 13/28 (46%), Gaps = 2/28 (7%)
Query: 161 RFVGRSGRGKSFTLTITISSSPPQVTTY 188
RF G SG FTLTI S TY
Sbjct: 65 RFSG-SGSETDFTLTID-SVETDDAATY 90
>3u6r_L Antibody 1:7 (light chain); IG-like domain, neutralizing single
chain FV, immune system; 2.67A {Homo sapiens}
Length = 143
Score = 26.4 bits (59), Expect = 6.4
Identities = 13/28 (46%), Positives = 15/28 (53%), Gaps = 2/28 (7%)
Query: 161 RFVGRSGRGKSFTLTITISSSPPQVTTY 188
RF G SG G FTLTI+ + P Y
Sbjct: 60 RFSG-SGSGTDFTLTIS-NLEPEDFAVY 85
>1w5q_A Delta-aminolevulinic acid dehydratase; synthase, evolution,
metalloenzyme, porphobilinogen synthase, protein
engineering,; 1.4A {Pseudomonas aeruginosa} PDB: 1w5p_A*
1w5o_A 1w5n_A 1w56_A 1w5m_A 1w54_A 1gzg_A* 1b4k_A
2woq_A* 2c14_A* 2c16_A* 2c19_A* 2c15_A* 2c18_A* 2c13_A*
Length = 337
Score = 27.1 bits (61), Expect = 6.5
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 117 VVALGDVMDGTIVTIRAGNDEN 138
VVA D+MDG I IR +
Sbjct: 171 VVAPSDMMDGRIGAIREALESA 192
>3obk_A Delta-aminolevulinic acid dehydratase; ssgcid, structural genomics,
seattle structural genomics CEN infectious disease,
lyase; HET: PBG; 2.50A {Toxoplasma gondii ME49}
Length = 356
Score = 27.1 bits (61), Expect = 6.7
Identities = 8/22 (36%), Positives = 11/22 (50%)
Query: 117 VVALGDVMDGTIVTIRAGNDEN 138
+V D+MDG + IR D
Sbjct: 179 MVCPSDMMDGRVSAIRESLDME 200
>3sob_L Antibody light chain; beta propeller, protein binding-immune system
complex; 1.90A {Homo sapiens} PDB: 1pkq_A 3u1s_L*
Length = 237
Score = 26.4 bits (59), Expect = 8.4
Identities = 11/17 (64%), Positives = 12/17 (70%), Gaps = 1/17 (5%)
Query: 161 RFVGRSGRGKSFTLTIT 177
RF G SG G FTLTI+
Sbjct: 84 RFSG-SGSGTDFTLTIS 99
>1lk3_L 9D7 light chain; antigen-antibody complex, immune system; 1.91A
{Rattus norvegicus} SCOP: b.1.1.1 b.1.1.2 PDB: 1fn4_A
1c5d_L 1bfo_A 3b9k_L*
Length = 210
Score = 26.4 bits (59), Expect = 8.5
Identities = 11/17 (64%), Positives = 11/17 (64%), Gaps = 1/17 (5%)
Query: 161 RFVGRSGRGKSFTLTIT 177
RF G SG G FTLTI
Sbjct: 60 RFSG-SGSGTDFTLTID 75
>3d9a_L Light chain of hyhel10 antibody fragment (FAB); lysozyme, antigen,
allergen, antimic bacteriolytic enzyme, glycosidase,
hydrolase; 1.20A {Mus musculus} PDB: 3hfm_L 1xgp_A
1xgq_A 1xgr_A 1xgt_A 1dqq_A 1dqm_L 1dqj_A 1nby_A 1nbz_A
1ndg_A 1ndm_A 1xgu_A 1fh5_L 1bm3_L 1opg_L 1mlb_A 1mlc_A
1rih_L 1p2c_A ...
Length = 213
Score = 26.4 bits (59), Expect = 9.0
Identities = 10/17 (58%), Positives = 11/17 (64%), Gaps = 1/17 (5%)
Query: 161 RFVGRSGRGKSFTLTIT 177
RF G SG G FTL+I
Sbjct: 61 RFSG-SGSGTDFTLSIN 76
>3bkj_L WO2 IGG2A FAB fragment light chain kappa; abeta, FAB, WO2,
alzheimer'S disease, immunotherapies, APP, immune
system; 1.59A {Mus musculus} PDB: 3bkc_L 3bkm_L 2zuq_B*
1h3p_L
Length = 252
Score = 26.6 bits (59), Expect = 9.2
Identities = 10/17 (58%), Positives = 11/17 (64%), Gaps = 1/17 (5%)
Query: 161 RFVGRSGRGKSFTLTIT 177
RF G SG G FTL I+
Sbjct: 99 RFSG-SGSGTDFTLRIS 114
>1oga_D T-cell receptor alpha chain V region, beta-2-microglobulin; immune
system/receptor, immune system/receptor/complex, TCR,
MHC, immunodominance, FLU, complex; 1.40A {Homo sapiens}
SCOP: b.1.1.1 b.1.1.2 PDB: 2xna_A 2xn9_A 2vlm_D 2vlk_D
2vlj_D 2vlr_D 2cdf_A 2wbj_C* 3qdm_D 3qeq_D
Length = 215
Score = 26.1 bits (57), Expect = 9.4
Identities = 7/23 (30%), Positives = 10/23 (43%), Gaps = 1/23 (4%)
Query: 204 SKTRKSFTLTITISSSPPQVTTY 226
RK +L IT ++ P Y
Sbjct: 66 GDARKDSSLHIT-AAQPGDTGLY 87
>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET:
GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*
Length = 270
Score = 26.4 bits (58), Expect = 9.7
Identities = 9/42 (21%), Positives = 15/42 (35%), Gaps = 6/42 (14%)
Query: 163 VGRSGRGKSFTL-TI-----TISSSPPQVTTYSKAIKVTVDG 198
+G+ G GKS T+ +I S + + G
Sbjct: 45 MGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAG 86
>3r06_A Anti-mouse CD3epsilon antibody 2C11 FAB light CHA; anti-CD3epsilon,
T-cell receptor, signalling, IMMU; 2.50A {Cricetulus
migratorius} PDB: 3r08_L 3ld8_B 3ldb_B*
Length = 213
Score = 26.0 bits (58), Expect = 10.0
Identities = 8/17 (47%), Positives = 11/17 (64%), Gaps = 1/17 (5%)
Query: 161 RFVGRSGRGKSFTLTIT 177
RF G SG G+ + TI+
Sbjct: 61 RFSG-SGSGRDSSFTIS 76
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
0.314 0.130 0.373
Gapped
Lambda K H
0.267 0.0814 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,771,443
Number of extensions: 218603
Number of successful extensions: 531
Number of sequences better than 10.0: 1
Number of HSP's gapped: 528
Number of HSP's successfully gapped: 73
Length of query: 258
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 166
Effective length of database: 4,133,061
Effective search space: 686088126
Effective search space used: 686088126
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 56 (25.2 bits)