RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9195
(139 letters)
>4fx5_A VON willebrand factor type A; structural genomics, PSI-biology,
midwest center for structu genomics, MCSG, blood
clotting; HET: MSE; 1.73A {Catenulispora acidiphila}
Length = 464
Score = 45.0 bits (106), Expect = 2e-06
Identities = 12/56 (21%), Positives = 20/56 (35%), Gaps = 2/56 (3%)
Query: 74 SKDVVILVDNSGSM--AGMRNTTAKLVLHSLLQTFSNNDFINIFKFNLTVDTIVPC 127
VI++D SGSM + AK + T ++ F + + P
Sbjct: 77 ENVEVIIIDCSGSMDYPRTKMMAAKEATKVAIDTLTDGAFFAVVAGTEGARVVYPT 132
>2x31_A Magnesium-chelatase 60 kDa subunit; ligase, bacteriochlorophyll
biosynthesis, photosynthesis; 7.50A {Rhodobacter
capsulatus}
Length = 189
Score = 38.0 bits (88), Expect = 3e-04
Identities = 13/45 (28%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 74 SKDVVILVDNSGSMAGMRNTTAK-LVLHSLLQTFSNNDFINIFKF 117
+ ++ VD SGS A R + AK V L + ++ D +++ F
Sbjct: 5 DRVLIFAVDASGSAAVARLSEAKGAVELLLGRAYAARDHVSLITF 49
>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 = 34.3 bits (78), Expect = 0.009
Identities = 23/132 (17%), Positives = 36/132 (27%), Gaps = 55/132 (41%)
Query: 13 WSEGLDEVFRENY--------MADPTLLWQYFGSAKG-FLR------TYPDKEDAPAEDL 57
W+ D F++ Y + +P L +FG KG +R + D +
Sbjct: 1646 WNRA-DNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTE 1704
Query: 58 -IFDCRNRQ-----WY-----IQAT--------TCSKDVVI--------LVDNSGSMAGM 90
IF N + + AT L+ + AG
Sbjct: 1705 KIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLME--KAAFEDLKSKGLIPADATFAG- 1761
Query: 91 RNTTAKLVLHSL 102
HSL
Sbjct: 1762 ---------HSL 1764
Score = 31.9 bits (72), Expect = 0.057
Identities = 20/124 (16%), Positives = 35/124 (28%), Gaps = 37/124 (29%)
Query: 29 PTLLWQYFGS--AKGFLRTYPDKEDAPAED-------------LIFDCRNRQWYIQATTC 73
PT + + S + F + P+ + A D L +
Sbjct: 23 PTASF-FIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGY-------------- 67
Query: 74 SKDVVILVDNSGSMAGMRNTTAKLVLHSLLQTF-SNNDFINIFKFNLTVDTIVPCLGNYS 132
V LV+ S G + L L + ND I+ L + +
Sbjct: 68 ---VSSLVEPSK--VGQFDQVLNLCLTEFENCYLEGND-IHALAAKLLQENDTTLVKTKE 121
Query: 133 LVQT 136
L++
Sbjct: 122 LIKN 125
Score = 29.6 bits (66), Expect = 0.31
Identities = 18/149 (12%), Positives = 38/149 (25%), Gaps = 59/149 (39%)
Query: 17 LDEVFRENYMADPTLLWQYFGSAKGFL-----------RTYP----------DKEDAPAE 55
+E R+ Y L+ + L + + + + P +
Sbjct: 170 FEE-LRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDK 228
Query: 56 D----------LIF---------DCRN--------RQWYIQATTCSKDVV--ILVDNSGS 86
D LI + R + AT S+ +V + + + S
Sbjct: 229 DYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDS 288
Query: 87 MAGMRNTTAKLVLHSLL-------QTFSN 108
+ K + L + + N
Sbjct: 289 WESFFVSVRK-AITVLFFIGVRCYEAYPN 316
>3rag_A Uncharacterized protein; structural genomics, PSI-biology, midwest
center for structu genomics, MCSG, tructural genomics;
1.80A {Alicyclobacillus acidocaldarius subsp}
Length = 242
Score = 34.0 bits (77), Expect = 0.009
Identities = 11/50 (22%), Positives = 19/50 (38%), Gaps = 2/50 (4%)
Query: 70 ATTCSKDVVILVDNSGSMAGMRNT--TAKLVLHSLLQTFSNNDFINIFKF 117
+ +V+ +D S SM T A L L+ S +++ F
Sbjct: 130 EDEVALHLVVCLDTSASMRDKIPTVREAVRDLALSLKVRSGPLAVSVIAF 179
>3c8c_A Methyl-accepting chemotaxis protein; structural genomics, unknown
function, uncharacterized protein; 1.50A {Vibrio
cholerae o1 biovar eltor str}
Length = 240
Score = 33.8 bits (77), Expect = 0.010
Identities = 11/64 (17%), Positives = 21/64 (32%), Gaps = 3/64 (4%)
Query: 15 EGLDEVFRENYMADPTLLWQYFGSAKGFLRTYPDKEDAPAEDLIFDCRNRQWYIQATTCS 74
+ + + + + + LL + G + +D R R WY A
Sbjct: 46 DNVRTIISQPLIKNTFLLVGFGLEKDGSNINNDPSWNPGPT---WDPRVRPWYKDAKNAG 102
Query: 75 KDVV 78
K V+
Sbjct: 103 KLVI 106
>1shu_X Anthrax toxin receptor 2; alpha/beta rossmann fold, membrane
protein; 1.50A {Homo sapiens} SCOP: c.62.1.1 PDB: 1tzn_a
1sht_X 1t6b_Y*
Length = 182
Score = 29.3 bits (66), Expect = 0.27
Identities = 10/41 (24%), Positives = 19/41 (46%), Gaps = 3/41 (7%)
Query: 72 TCSK--DVVILVDNSGSMAGMRNTTAKLVLHSLLQTFSNND 110
+C + D+ ++D SGS+A V L + F + +
Sbjct: 2 SCRRAFDLYFVLDKSGSVANNWIEIYNFV-QQLAERFVSPE 41
>3ibs_A Conserved hypothetical protein BATB; structural genomics, protein
structure, midwest center for S genomics, MCSG, PSI-2;
HET: MSE; 2.10A {Bacteroides thetaiotaomicron}
Length = 218
Score = 28.8 bits (65), Expect = 0.52
Identities = 11/38 (28%), Positives = 17/38 (44%), Gaps = 5/38 (13%)
Query: 76 DVVILVDNSGSMAGM-----RNTTAKLVLHSLLQTFSN 108
+V+I +D S SM R AK ++ L+ N
Sbjct: 13 EVIIALDISNSMLAQDVQPSRLEKAKRLISRLVDELDN 50
>2iue_A Pactolus I-domain; membrane protein, CD, ITC, limbs, midas,
admidas, membrane, integrin, titration, rossman fold,
cell adhesion, transmembrane; NMR {Mus musculus}
Length = 212
Score = 28.4 bits (63), Expect = 0.75
Identities = 11/44 (25%), Positives = 15/44 (34%), Gaps = 2/44 (4%)
Query: 76 DVVILVDNSGSMAGMRNTTAKLV--LHSLLQTFSNNDFINIFKF 117
D+ L+ SGS G + L L L S + I
Sbjct: 5 DLYFLMGLSGSAQGHLSNVQTLGSDLLKALNEISRSGRIGFGSI 48
>3vi3_B Integrin beta-1; beta propeller fold, rossman fold, beta sandwich,
fibronecti receptor, cell adhesion-immune system
complex; HET: NAG BMA MAN; 2.90A {Homo sapiens} PDB:
3vi4_B*
Length = 454
Score = 28.3 bits (62), Expect = 0.86
Identities = 9/45 (20%), Positives = 19/45 (42%), Gaps = 2/45 (4%)
Query: 67 YIQATTCSKDVVILVDNSGSMAGMRNTTAKLV--LHSLLQTFSNN 109
+ +A D+ L+D S SM L L + ++ +++
Sbjct: 115 FKRAEDYPIDLYYLMDLSYSMKDDLENVKSLGTDLMNEMRRITSD 159
>1ijb_A VON willebrand factor; dinucleotide-binding fold, blood clotting;
1.80A {Homo sapiens} SCOP: c.62.1.1 PDB: 1ijk_A 1auq_A
1u0n_A 3hxo_A 1uex_C 3hxq_A 1sq0_A 1m10_A 1fns_A 1oak_A
1u0o_C
Length = 202
Score = 28.1 bits (63), Expect = 0.89
Identities = 7/22 (31%), Positives = 12/22 (54%), Gaps = 2/22 (9%)
Query: 68 IQATTCSK--DVVILVDNSGSM 87
+ CS+ D+V L+D S +
Sbjct: 5 LHDFYCSRLLDLVFLLDGSSRL 26
>3n2n_F Anthrax toxin receptor 1; rossmann fold; 1.80A {Homo sapiens}
Length = 185
Score = 27.4 bits (61), Expect = 1.6
Identities = 6/21 (28%), Positives = 11/21 (52%), Gaps = 2/21 (9%)
Query: 70 ATTCSK--DVVILVDNSGSMA 88
+ C D+ ++D SGS+
Sbjct: 1 SMACYGGFDLYFILDKSGSVL 21
>2x5n_A SPRPN10, 26S proteasome regulatory subunit RPN10; nuclear protein,
nucleus, ubiquitin; 1.30A {Schizosaccharomyces pombe}
Length = 192
Score = 27.3 bits (60), Expect = 1.6
Identities = 9/36 (25%), Positives = 12/36 (33%), Gaps = 1/36 (2%)
Query: 77 VVILVDNSGSM-AGMRNTTAKLVLHSLLQTFSNNDF 111
+IL+DNS M G T + N
Sbjct: 5 TMILIDNSEWMINGDYIPTRFEAQKDTVHMIFNQKI 40
>1pt6_A Integrin alpha-1; cell adhesion; 1.87A {Homo sapiens} SCOP:
c.62.1.1 PDB: 4a0q_A 1qcy_A 1qc5_A 1qc5_B 1ck4_A 1mhp_A
Length = 213
Score = 27.0 bits (60), Expect = 2.2
Identities = 8/20 (40%), Positives = 13/20 (65%), Gaps = 2/20 (10%)
Query: 70 ATTCSK--DVVILVDNSGSM 87
+ CS D+VI++D S S+
Sbjct: 1 GSECSTQLDIVIVLDGSNSI 20
>1n3y_A Integrin alpha-X; alpha/beta rossmann fold, cell adhesion; 1.65A
{Homo sapiens} SCOP: c.62.1.1
Length = 198
Score = 26.6 bits (59), Expect = 2.4
Identities = 11/45 (24%), Positives = 19/45 (42%), Gaps = 4/45 (8%)
Query: 69 QATTCSK--DVVILVDNSGSMAGMRN-TTAKLVLHSLLQTFSNND 110
+ D+V L+D SGS+ RN T + +++ F
Sbjct: 2 SHMASRQEQDIVFLIDGSGSI-SSRNFATMMNFVRAVISQFQRPS 45
>1q0p_A Complement factor B; VON willebrand factor, MAC-1, I domain, A
domain, hydrolase; 1.80A {Homo sapiens} SCOP: c.62.1.1
Length = 223
Score = 26.4 bits (58), Expect = 2.9
Identities = 11/40 (27%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 72 TCSKDVVILVDNSGSMAGMRN-TTAKLVLHSLLQTFSNND 110
+ S ++ +++D S S+ G N T AK L +L++ ++
Sbjct: 13 SGSMNIYLVLDGSDSI-GASNFTGAKKSLVNLIEKVASYG 51
>1atz_A VON willebrand factor; collagen-binding, hemostasis, dinucleotide
binding fold; 1.80A {Homo sapiens} SCOP: c.62.1.1 PDB:
4dmu_B 2adf_A 1fe8_A 1ao3_A
Length = 189
Score = 26.1 bits (58), Expect = 3.6
Identities = 8/17 (47%), Positives = 12/17 (70%), Gaps = 2/17 (11%)
Query: 73 CSK--DVVILVDNSGSM 87
CS+ DV++L+D S S
Sbjct: 2 CSQPLDVILLLDGSSSF 18
>1mjn_A Integrin alpha-L; rossmann fold, immune system; 1.30A {Homo
sapiens} SCOP: c.62.1.1 PDB: 3hi6_A 1mq8_B* 3eoa_I
3eob_I 1rd4_A* 1lfa_A 1zon_A 1zoo_A 1zop_A 1dgq_A
1xdd_A* 1xdg_A* 1xuo_A* 3e2m_A* 3bqn_B* 1cqp_A* 3bqm_B*
2ica_A* 2o7n_A* 3m6f_A* ...
Length = 179
Score = 25.7 bits (57), Expect = 4.5
Identities = 8/36 (22%), Positives = 14/36 (38%), Gaps = 2/36 (5%)
Query: 76 DVVILVDNSGSMAGMRN-TTAKLVLHSLLQTFSNND 110
D+V L D S S+ + +++ SN
Sbjct: 4 DLVFLFDGSMSL-QPDEFQKILDFMKDVMKKCSNTS 38
>3t3p_B Integrin beta-3; integrin, cell adhesion, blood clotting,
fibrinogen, platele; HET: NAG BMA MAN; 2.20A {Homo
sapiens} PDB: 3t3m_B* 3nig_B* 3nif_B* 3nid_B* 2vdr_B*
2vc2_B* 2vdk_B* 2vdm_B* 2vdn_B* 2vdl_B* 2vdp_B* 2vdq_B*
2vdo_B* 3fcu_B* 1txv_B* 1ty3_B* 1ty5_B* 1ty6_B* 1ty7_B*
1tye_B*
Length = 472
Score = 26.0 bits (56), Expect = 5.3
Identities = 12/51 (23%), Positives = 20/51 (39%), Gaps = 2/51 (3%)
Query: 69 QATTCSKDVVILVDNSGSMAGMRNTTAKLV--LHSLLQTFSNNDFINIFKF 117
Q D+ L+D S SM + L L + ++ ++N I F
Sbjct: 106 QVEDYPVDIYYLMDLSYSMKDDLWSIQNLGTKLATQMRKLTSNLRIGFGAF 156
>3l82_B F-box only protein 4; TRFH domain, helix, GTPase domain,
acetylation, ADP- ribosylation, alternative splicing,
cell cycle, cell division; 2.40A {Homo sapiens}
Length = 227
Score = 25.8 bits (56), Expect = 5.4
Identities = 6/18 (33%), Positives = 9/18 (50%)
Query: 54 AEDLIFDCRNRQWYIQAT 71
A +L + N W +Q T
Sbjct: 185 AHELHLNLLNHPWLVQDT 202
>2b2x_A Integrin alpha-1; computational design, antibody-antigen complex,
immune syste; 2.20A {Rattus norvegicus} SCOP: c.62.1.1
Length = 223
Score = 25.5 bits (56), Expect = 6.5
Identities = 8/17 (47%), Positives = 11/17 (64%), Gaps = 2/17 (11%)
Query: 72 TCSK--DVVILVDNSGS 86
CS D+VI++D S S
Sbjct: 18 ECSTQLDIVIVLDGSNS 34
>1mf7_A Integrin alpha M; cell adhesion; 1.25A {Homo sapiens} SCOP:
c.62.1.1 PDB: 1na5_A 1jlm_A 1ido_A 1m1u_A 3q3g_G 1n9z_A
1bhq_1 1bho_1 1idn_1 3qa3_G
Length = 194
Score = 25.0 bits (55), Expect = 7.5
Identities = 7/36 (19%), Positives = 17/36 (47%), Gaps = 2/36 (5%)
Query: 76 DVVILVDNSGSMAGMRN-TTAKLVLHSLLQTFSNND 110
D+ L+D SGS+ + K + ++++ +
Sbjct: 7 DIAFLIDGSGSI-IPHDFRRMKEFVSTVMEQLKKSK 41
>3v4v_B Integrin beta-7; cell adhesion, madcam-1, membrane; HET: NAG BMA
MAN 0DU; 3.10A {Homo sapiens} PDB: 3v4p_B*
Length = 503
Score = 25.3 bits (54), Expect = 8.2
Identities = 11/43 (25%), Positives = 18/43 (41%), Gaps = 2/43 (4%)
Query: 69 QATTCSKDVVILVDNSGSMAGMRNTTAKLV--LHSLLQTFSNN 109
+A D+ L+D S SM +L L LQ +++
Sbjct: 127 RAEGYPVDLYYLMDLSYSMKDDLERVRQLGHALLVRLQEVTHS 169
>3zqk_A VON willebrand factor; blood clotting, adamts-13, force sensor,
VON willebrand DISE domain, haemostasis; HET: NAG;
1.70A {Homo sapiens} PDB: 3ppv_A 3ppx_A 3ppw_A 3ppy_A
3gxb_A*
Length = 199
Score = 25.0 bits (55), Expect = 8.4
Identities = 3/19 (15%), Positives = 9/19 (47%)
Query: 69 QATTCSKDVVILVDNSGSM 87
+ + DV +++ S +
Sbjct: 16 KRNSMVLDVAFVLEGSDKI 34
>1jey_B KU80; double-strand DNA break repair, non-homologous END-joining,
protein/nucleic acid complex, alpha/beta domain, beta
barrel; HET: DNA; 2.50A {Homo sapiens} SCOP: b.131.1.2
c.62.1.4 PDB: 1jeq_B*
Length = 565
Score = 25.2 bits (54), Expect = 8.8
Identities = 13/55 (23%), Positives = 22/55 (40%), Gaps = 10/55 (18%)
Query: 74 SKD-VVILVDNSGSMAGMRN------TTAKLVLHSLLQT--FSN-NDFINIFKFN 118
+K VV+ +D +M+ AK V+ +Q F+ D I + F
Sbjct: 6 NKAAVVLCMDVGFTMSNSIPGIESPFEQAKKVITMFVQRQVFAENKDEIALVLFG 60
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
0.323 0.137 0.422
Gapped
Lambda K H
0.267 0.0561 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,125,290
Number of extensions: 112516
Number of successful extensions: 242
Number of sequences better than 10.0: 1
Number of HSP's gapped: 241
Number of HSP's successfully gapped: 37
Length of query: 139
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 55
Effective length of database: 4,356,429
Effective search space: 239603595
Effective search space used: 239603595
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 (22.0 bits)
S2: 52 (24.2 bits)