RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11988
(156 letters)
>1u5m_A Cartilage, alpha 1 type II collagen isoform 1; disulfide bonds,
two SUB-domain architecture, beta-sheet, structural
protein; NMR {Homo sapiens} SCOP: g.27.1.2
Length = 73
Score = 50.7 bits (121), Expect = 1e-09
Identities = 21/66 (31%), Positives = 26/66 (39%), Gaps = 5/66 (7%)
Query: 30 CRKCQGCVHHGVFRESGSEWTDPDNPCRIFTCKAGVVTETEMQC--YAPCKHPTPPGPGQ 87
++ CV G W PCRI C G V ++ C C P P G+
Sbjct: 4 FQEAGSCVQDGQRYNDKDVWKP--EPCRICVCDTGTVLCDDIICEDVKDCLSPEIP-FGE 60
Query: 88 CCPTCP 93
CCP CP
Sbjct: 61 CCPICP 66
>3bk3_C Crossveinless 2, bone morphogenetic protein 2; TGF-beta
superfamily, BMP modulator proteins, chordin, BMP
inhibitor, chondrogenesis; 2.70A {Danio rerio}
Length = 67
Score = 36.6 bits (84), Expect = 2e-04
Identities = 11/35 (31%), Positives = 16/35 (45%), Gaps = 1/35 (2%)
Query: 1 NGFVECNRKSCPNQEGCHKLLEAKEKDGCCRKCQG 35
N EC ++ C L+ K+ CC KC+G
Sbjct: 34 NQKAECKQEKCAPLAEDCALVV-KQTGACCEKCKG 67
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 30.4 bits (68), Expect = 0.18
Identities = 14/56 (25%), Positives = 22/56 (39%), Gaps = 10/56 (17%)
Query: 7 NRKSCPN-QEGCHKLLEAKEK-DGCCRKCQGCVHHGVFRESGSEWTDPDNPCRIFT 60
+CP + K++E + D C C G V ++ SEW R F+
Sbjct: 20 IVLTCPECKVYPPKIVERFSEGDVVCALC-GLVLSDKLVDTRSEW-------RTFS 67
>3u5c_F RP14, S2, YS8, 40S ribosomal protein S5; translation, ribosome,
ribosomal, ribosomal R ribosomal protein, eukaryotic
ribosome, RNA-protein C; 3.00A {Saccharomyces
cerevisiae} PDB: 3izb_F 3o30_D 3o2z_D 3u5g_F 3jyv_G*
2noq_F 1s1h_G 3iz6_F
Length = 225
Score = 27.9 bits (62), Expect = 1.1
Identities = 0/34 (0%), Positives = 6/34 (17%), Gaps = 1/34 (2%)
Query: 1 NGFVECNRKSCPNQEGCHKLLEAKEKDG-CCRKC 33
++ + + + +
Sbjct: 111 VRIIKHTLDIINVLTDQNPIQVVVDAITNTGPRE 144
>3g5c_A ADAM 22; alpha/beta fold, cross-linked domain, cell adhesion,
cleavag of basic residues, EGF-like domain,
glycoprotein, membrane, phosphoprotein; HET: NAG; 2.36A
{Homo sapiens}
Length = 510
Score = 28.2 bits (62), Expect = 1.2
Identities = 18/112 (16%), Positives = 31/112 (27%), Gaps = 21/112 (18%)
Query: 5 ECNRKSCPNQEGCHKLLEAKEKDG-CCRKCQGCVHHGVFRESGSEWTDPDN--------- 54
EC + + C +++ DG CC+KC+ V RE+ ++ +
Sbjct: 233 ECVLEGAECCKKCTLTQDSQCSDGLCCKKCKFQPMGTVCREAVNDCDIRETCSGNSSQCA 292
Query: 55 ---------PCRIFT--CKAGVVTETEMQCYAPCKHPTPPGPGQCCPTCPGK 95
C C G + QC C +
Sbjct: 293 PNIHKMDGYSCDGVQGICFGGRCKTRDRQCKYIWGQKVTASDKYCYEKLNIE 344
>2dtg_E Insulin receptor; IR ectodomain, X-RAY crystallography, hormone
receptor/immune system complex; 3.80A {Homo sapiens}
SCOP: b.1.2.1 b.1.2.1 b.1.2.1 c.10.2.5 c.10.2.5 g.3.9.1
PDB: 3loh_E
Length = 897
Score = 28.3 bits (62), Expect = 1.2
Identities = 15/85 (17%), Positives = 22/85 (25%), Gaps = 8/85 (9%)
Query: 11 CPNQEGCHKLLEAKEKDGCCRKCQGCVHHGVFRESGSEWTDPDNPCRIFTCKAGVVTETE 70
+ E H +L + + C C G + C + +
Sbjct: 137 LDSVEDNHIVLNKDDNEECGDICPGTAKGKTNCPATVINGQFVERCWTHS-------HCQ 189
Query: 71 MQCYAPCKHPTPPGPGQCC-PTCPG 94
C CK G CC C G
Sbjct: 190 KVCPTICKSHGCTAEGLCCHSECLG 214
>1zlg_A Anosmin 1; insulin-like growth factor receptor Cys-rich fold,
WHEY acidic protein fold, fibronectin type III fold,
hormone- growth factor complex; NMR {Homo sapiens}
Length = 680
Score = 28.0 bits (61), Expect = 1.5
Identities = 8/26 (30%), Positives = 9/26 (34%)
Query: 72 QCYAPCKHPTPPGPGQCCPTCPGKRP 97
+C PCK QC C P
Sbjct: 62 KCLEPCKESGDLRKHQCQSFCEPLFP 87
Score = 27.6 bits (60), Expect = 2.0
Identities = 16/82 (19%), Positives = 23/82 (28%), Gaps = 7/82 (8%)
Query: 11 CPNQEGCHKLLEAKEKDGCCRKCQGCVHHGVFRESGSEWTDPDNPCRIFTCKAGVVTETE 70
C N + C K LE ++ G RK Q C + + C+
Sbjct: 54 CQNHKQCSKCLEPCKESGDLRKHQ-CQSFCEPLFPKKSYECLTS------CEFLKYILLV 106
Query: 71 MQCYAPCKHPTPPGPGQCCPTC 92
Q P C +C
Sbjct: 107 KQGDCPAPEKASGFAAACVESC 128
>3m0c_C LDL receptor, low-density lipoprotein receptor; protein complex,
beta propeller, cholesterol clearance, PCSK
autocatalytic cleavage; 7.01A {Homo sapiens}
Length = 791
Score = 27.9 bits (61), Expect = 1.8
Identities = 10/90 (11%), Positives = 16/90 (17%)
Query: 1 NGFVECNRKSCPNQEGCHKLLEAKEKDGCCRKCQGCVHHGVFRESGSEWTDPDNPCRIFT 60
N +C S + C GC C C
Sbjct: 294 NMARDCRDWSDEPIKECGTNECLDNNGGCSHVCNDLKIGYECLCPDGFQLVAQRRCEDID 353
Query: 61 CKAGVVTETEMQCYAPCKHPTPPGPGQCCP 90
T +++ + G
Sbjct: 354 ECQDPDTCSQLCVNLEGGYKCQCEEGFQLD 383
>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 = 27.2 bits (59), Expect = 2.0
Identities = 3/13 (23%), Positives = 6/13 (46%)
Query: 68 ETEMQCYAPCKHP 80
+ ++ YA P
Sbjct: 26 QASLKLYADDSAP 38
>1iga_A IGA1; immunoglobulin; NMR {Homo sapiens} PDB: 2esg_A 2qtj_A 3chn_A
1r70_B 3cm9_A
Length = 475
Score = 26.8 bits (59), Expect = 3.1
Identities = 10/61 (16%), Positives = 17/61 (27%), Gaps = 8/61 (13%)
Query: 47 SEWTDPDNPCRIFTCK----AGVVTETEMQCYAPCKHPTPPGPGQCCPTCPGKRPYGLLY 102
++ + TC + + C P PTP P+ P L+
Sbjct: 197 TQCLAGKS----VTCHVKHYTNPSQDVTVPCPVPSTPPTPSPSTPPTPSPSCCHPRLSLH 252
Query: 103 V 103
Sbjct: 253 R 253
>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA
repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A
{Geobacillus}
Length = 670
Score = 25.6 bits (57), Expect = 9.4
Identities = 5/57 (8%), Positives = 10/57 (17%), Gaps = 2/57 (3%)
Query: 42 FRESGSEWT--DPDNPCRIFTCKAGVVTETEMQCYAPCKHPTPPGPGQCCPTCPGKR 96
+ ES S + + ++ G R
Sbjct: 73 YVESLSAYARQFLGQMEKPDVDAIEGLSPAISIDQKTTSRNPRSTVGTVTEIYDYLR 129
>3t5o_A Complement component C6; macpf, MAC, membrane attack complex,
innate IMMU system, blood, membrane, cytolysin, immune
SYST; HET: NAG FUL FUC BGC MAN; 2.87A {Homo sapiens}
PDB: 4a5w_B* 4e0s_B*
Length = 913
Score = 25.6 bits (55), Expect = 9.6
Identities = 10/98 (10%), Positives = 23/98 (23%), Gaps = 7/98 (7%)
Query: 4 VECNRKSCPNQEGCHKLLEAKEKDGC------CRKCQGCVHHGVFRESGSEWTDPDNPCR 57
+ C + + +G +L + + C VF +++ C+
Sbjct: 738 LTCEKDTLTKLKGHCQLGQKQSGSECICMSPEEDCSHHSEDLCVFDTDSNDYFTS-PACK 796
Query: 58 IFTCKAGVVTETEMQCYAPCKHPTPPGPGQCCPTCPGK 95
K + C+ G
Sbjct: 797 FLAEKCLNNQQLHFLHIGSCQDGRQLEWGLERTRLSSN 834
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 0.143 0.499
Gapped
Lambda K H
0.267 0.0548 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,493,696
Number of extensions: 143529
Number of successful extensions: 628
Number of sequences better than 10.0: 1
Number of HSP's gapped: 594
Number of HSP's successfully gapped: 125
Length of query: 156
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 70
Effective length of database: 4,300,587
Effective search space: 301041090
Effective search space used: 301041090
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: 53 (24.6 bits)